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Interneuronal mechanisms of hippocampal theta oscillations in a full-scale model of the rodent CA1 circuit
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Abstract
The hippocampal theta rhythm plays important roles in information processing; however, the mechanisms of its generation are not well understood. We developed a data-driven, supercomputer-based, full-scale (1:1) model of the rodent CA1 area and studied its interneurons during theta oscillations. Theta rhythm with phase-locked gamma oscillations and phase-preferential discharges of distinct interneuronal types spontaneously emerged from the isolated CA1 circuit without rhythmic inputs. Perturbation experiments identified parvalbumin-expressing interneurons and neurogliaform cells, as well as interneuronal diversity itself, as important factors in theta generation. These simulations reveal new insights into the spatiotemporal organization of the CA1 circuit during theta oscillations.
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TL;DR
A data-driven, full-scale model of the isolated rodent CA1 spontaneously generated theta (~7.8 Hz) and phase-locked gamma oscillations without rhythmic external inputs. Perturbation experiments implicated PV+ interneurons, neurogliaform cells, pyramidal recurrent connections, and interneuronal diversity itself in theta generation.
Key findings
- The model contained 338,740 cells (311,500 pyramidal cells and 27,240 interneurons), 454,700 artificial stimulating afferents, and 5.19 billion synapses; it spontaneously produced stable theta at 7.8 Hz and gamma oscillations (25–80 Hz), with gamma amplitude phase-locked to the theta trough.
- Distinct interneuron types showed phase-preferential firing: PV+ basket, bistratified, and O-LM cells fired near the theta trough, whereas ivy, neurogliaform, CCK+ basket, and axo-axonic cells fired least around the trough; 71% (5/7) of interneuron types with experimental data matched anesthetized in vivo phase maxima.
- Muting pyramidal cell output or CA1 pyramidal-to-pyramidal connections collapsed theta; muting PV-family, CCK+ basket, or neurogliaform cell output strongly reduced theta, while muting O-LM, ivy, or SC-A cells had no effect. Partial PV+ muting disrupted theta more than partial SOM+ muting.
- Reducing interneuron diversity abolished theta: giving all interneurons one electrophysiological profile, or morphing them toward PV+ basket cells, did not restore theta. Removing the GABAB component of neurogliaform synapses reduced theta power, but replacing it with a scaled-up fast GABAA conductance with equivalent charge transfer restored theta.
Methods
- The CA1 network was implemented in parallel NEURON 7.4 with one multicompartmental pyramidal cell type and eight interneuron types; connectivity and cell numbers were taken from Bezaire and Soltesz (2013), and simulations used fixed time steps of 0.01–0.025 ms for 2000 or 4000 ms on supercomputers.
- CA3 and entorhinal afferents were modeled as independent Poisson spike trains; control theta emerged at a mean afferent firing rate of 0.65 Hz, and analyses included spike density functions, Welch periodograms, spectrograms, an LFP analog, Rayleigh tests for phase modulation, and ANOVA for GABAB-related simulations.
- Perturbation experiments muted each cell type’s output, altered pyramidal-to-pyramidal connection numbers, reduced interneuron diversity, and manipulated neurogliaform GABAB/GABAA signaling.
Limitations
- Stated: about 30% of known CA1 interneurons were omitted due to paucity of quantitative data, likely making inhibition weaker than biological; pyramidal cells fired more than in vivo, and although scaled-up inhibition produced only 1% active pyramidal cells firing at 1.8 Hz, it was not used because the source of the additional inhibition was unidentified.
- Stated: the model did not include neuromodulators, gap junctions, short-term plasticity, glial dynamics, pyramidal cell diversity, or cell-to-cell variability; the emergent theta likely resembled the atropine-resistant form, some single-cell electrophysiology came from mouse while the network was rat, and no isolated-CA1 data were available for interneuron phase preferences, so comparisons used anesthetized in vivo data.
- Evident: theta appeared only within particular afferent excitation levels (around 0.65 Hz; lower or higher levels disrupted it), gamma was not examined further, and the authors note they could not rule out a hypothetical theta regime somewhere in the low-diversity parameter space.
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In the paper
“The model network contained 338,740 cells (similar to the biological CA1 in rats, including 311,500 pyramidal cells and 27,240 interneurons) (Figure 1D–E and Figure 1—figure supplement 1).”
§ Interneuronal mechanisms of hippocampal theta oscillations in a full-scale model of the rodent CA1 circuit > Results > Development of a data-driven, full-scale model of the isolated CA1
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In the paper
“We varied the magnitude of arrhythmic, tonic excitation to the network (by systematically changing the mean spiking frequency of the artificial stimulating cells, see above) and identified excitation levels where the network developed a stable, spontaneous theta rhythm (5–10 Hz; Figure 3 and 4; Figure 3—source data 1–3 and Figure 4—source data 1–2).”
§ Interneuronal mechanisms of hippocampal theta oscillations in a full-scale model of the rodent CA1 circuit > Results > Emergence of spontaneous theta and gamma oscillations in the full-scale model in the absence of rhythmic external inputs
Tests✓ Asserted: passes✓ Checkable: passes✓ Load-bearing: passes✓ Based: passesThe paper states this without a source or data behind it here, so there is nothing to check it against. The quote shows it is in the paper.
In the paper
“The afferent divergence and convergence onto the cells were also anatomically patterned, maintaining the topographical arrangement seen experimentally (Hongo et al., 2015), for a total of 5.19 billion synaptic connections in the model network.”
§ Interneuronal mechanisms of hippocampal theta oscillations in a full-scale model of the rodent CA1 circuit > Results > Development of a data-driven, full-scale model of the isolated CA1
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In the paper
“The theta oscillation was stable, maintaining a steady power level throughout the duration of the oscillation (Figure 4A).”
§ Interneuronal mechanisms of hippocampal theta oscillations in a full-scale model of the rodent CA1 circuit > Results > Emergence of spontaneous theta and gamma oscillations in the full-scale model in the absence of rhythmic external inputs
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In the paper
“In addition to theta rhythm, the model network displayed gamma oscillations (25–80 Hz; Figures 3B and 4D), as expected based on in vivo data (Soltesz and Deschênes, 1993; Tort et al., 2009; Colgin and Moser, 2010) and in vitro slice data showing 65–75 Hz gamma oscillations arising in response to theta rhythmic network stimulation (Butler et al., 2016).”
§ Interneuronal mechanisms of hippocampal theta oscillations in a full-scale model of the rodent CA1 circuit > Results > Emergence of spontaneous theta and gamma oscillations in the full-scale model in the absence of rhythmic external inputs
What the sources say
- Not checked yetcites Soltesz and Deschênes, 1993
- Not checked yetcites Tort et al., 2009 source
- Not checked yetcites Colgin and Moser, 2010
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In the paper
“In all of these measures of network activity, theta was apparent within one theta period of the simulation start.”
§ Interneuronal mechanisms of hippocampal theta oscillations in a full-scale model of the rodent CA1 circuit > Results > Emergence of spontaneous theta and gamma oscillations in the full-scale model in the absence of rhythmic external inputs
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In the paper
“The highest amplitude of the gamma oscillations in the model was observed at the theta trough (0°/360°) in the pyramidal layer LFP analog (Figure 4C).”
§ Interneuronal mechanisms of hippocampal theta oscillations in a full-scale model of the rodent CA1 circuit > Results > Emergence of spontaneous theta and gamma oscillations in the full-scale model in the absence of rhythmic external inputs
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In the paper
“The amplitude envelope of the gamma oscillation was phase-locked to the theta rhythm (Figures 3A,B and 4C), as it is in the biological CA1, representing cross-frequency coupling (Soltesz and Deschênes, 1993; Bragin et al., 1995; Buzsáki et al., 2003; Jensen and Colgin, 2007; Belluscio et al., 2012).”
§ Interneuronal mechanisms of hippocampal theta oscillations in a full-scale model of the rodent CA1 circuit > Results > Emergence of spontaneous theta and gamma oscillations in the full-scale model in the absence of rhythmic external inputs
What the sources say
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In the paper
“The pyramidal cell spikes (Figures 3C and D) exhibited peak power around the theta frequency of 7.8 Hz (Figure 4 and Table 7).”
§ Interneuronal mechanisms of hippocampal theta oscillations in a full-scale model of the rodent CA1 circuit > Results > Emergence of spontaneous theta and gamma oscillations in the full-scale model in the absence of rhythmic external inputs
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In the paper
“Indeed, the pyramidal cells in our model described above (Figures 3 and 4) tended to fire more than they typically do during theta oscillations in vivo (e.g., [Soltesz and Deschênes, 1993; Robbe et al., 2006]).”
§ Interneuronal mechanisms of hippocampal theta oscillations in a full-scale model of the rodent CA1 circuit > Results > Emergence of spontaneous theta and gamma oscillations in the full-scale model in the absence of rhythmic external inputs
What the sources say
- Not checked yetcites Soltesz and Deschênes, 1993
- Not checked yetcites Robbe et al., 2006 source
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In the paper
“Importantly, every measure of network activity showed theta oscillations, including the somatic intracellular membrane potential from individual cells (Figure 3D), the spike times of individual cells and all cells collectively (Figure 3C), and aggregate measures such as the spike density function (Szucs, 1998) per cell type and the LFP analog (Figure 3A and 4; see also Figure 4—figure supplement 1”
§ Interneuronal mechanisms of hippocampal theta oscillations in a full-scale model of the rodent CA1 circuit > Results > Emergence of spontaneous theta and gamma oscillations in the full-scale model in the absence of rhythmic external inputs
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In the paper
“Perturbation experiments identified parvalbumin-expressing interneurons and neurogliaform cells, as well as interneuronal diversity itself, as important factors in theta generation.”
- Also stated in: § Introduction · plain
“Perturbation experiments revealed that parvalbumin-expressing (PV+) interneurons, neurogliaform cells, connections between CA1 pyramidal cells, and interneuronal diversity were important for theta generation.”
§ Interneuronal mechanisms of hippocampal theta oscillations in a full-scale model of the rodent CA1 circuit > Abstract
Tests✓ Asserted: passes✓ Checkable: passes✓ Load-bearing: passes✓ Based: passes- Also stated in: § Introduction · plain
A result the paper reports from its own data — it cites no other source for it, so there is none to check. The quote shows it is in the paper.
In the paper
“As expected, the numerically dominant pyramidal cells, whose intracellular membrane potential oscillations to a large extent generate and underlie the extracellular LFP signal during theta oscillations (Buzsáki et al., 2012), preferentially discharged around the trough 0o/360o of the LFP analog theta rhythm (Figure 5A).”
§ Interneuronal mechanisms of hippocampal theta oscillations in a full-scale model of the rodent CA1 circuit > Results > Mechanism of theta generation and phase-preferential firing of interneurons in the full-scale model of the isolated CA1
Strength:plain· not yet calibratedCausal:correlational· not yet calibratedTests✓ Asserted: passes✓ Checkable: passes? Load-bearing: unclear✓ Based: passesA result the paper reports from its own data — it cites no other source for it, so there is none to check. The quote shows it is in the paper.
In the paper
“Their phase preferences fell into two broad categories (Figure 5A).”
§ Interneuronal mechanisms of hippocampal theta oscillations in a full-scale model of the rodent CA1 circuit > Results > Mechanism of theta generation and phase-preferential firing of interneurons in the full-scale model of the isolated CA1
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In the paper
“Perturbation experiments identified parvalbumin-expressing interneurons and neurogliaform cells, as well as interneuronal diversity itself, as important factors in theta generation.”
- Also stated in: § Introduction · plain
“Perturbation experiments revealed that parvalbumin-expressing (PV+) interneurons, neurogliaform cells, connections between CA1 pyramidal cells, and interneuronal diversity were important for theta generation.”
§ Interneuronal mechanisms of hippocampal theta oscillations in a full-scale model of the rodent CA1 circuit > Abstract
Tests✓ Asserted: passes✓ Checkable: passes✓ Load-bearing: passes✓ Based: passes- Also stated in: § Introduction · plain
A result the paper reports from its own data — it cites no other source for it, so there is none to check. The quote shows it is in the paper.
In the paper
“Importantly, the ability to generate theta oscillations, phase-locked gamma oscillations, and theta-related phase-preferential firing of distinct interneuronal subtypes was not a universal property of the model.”
§ Interneuronal mechanisms of hippocampal theta oscillations in a full-scale model of the rodent CA1 circuit > Results > Perturbation experiments indicate a key role for interneuronal diversity in the emergence of spontaneous theta
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In the paper
“As shown in Figure 6A, our strongly constrained model only exhibited spontaneous theta oscillations at certain levels of afferent excitation.”
§ Interneuronal mechanisms of hippocampal theta oscillations in a full-scale model of the rodent CA1 circuit > Results > Perturbation experiments indicate a key role for interneuronal diversity in the emergence of spontaneous theta
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In the paper
“The largest differences between the model and the in vivo phase-preferential firing occurred for the PV+ basket cells and the ivy cells”
§ Interneuronal mechanisms of hippocampal theta oscillations in a full-scale model of the rodent CA1 circuit > Results > Mechanism of theta generation and phase-preferential firing of interneurons in the full-scale model of the isolated CA1
Load-bearingStrength:plain· not yet calibratedTests✓ Asserted: passes✓ Checkable: passes✓ Load-bearing: passes✓ Based: passesIn the paper
“These results were in line with recent data from the isolated CA1 preparation in vitro (Ferguson et al., 2015) which showed that cells belonging to the broadly defined SOM+ and PV+ classes (identified using genetic drivers) displayed phase preferences similar to the O-LM, PV+ basket and bistratified cells in our model”
§ Interneuronal mechanisms of hippocampal theta oscillations in a full-scale model of the rodent CA1 circuit > Results > Mechanism of theta generation and phase-preferential firing of interneurons in the full-scale model of the isolated CA1
What the sources say
- Not checked yetcites Ferguson et al., 2015 source
Strength:plain· not yet calibratedCausal:correlational· not yet calibratedTests✓ Asserted: passes✓ Checkable: passes? Load-bearing: unclear✓ Based: passes- Rests on an assumption: The phase of LFP theta recorded in the stratum radiatum is approximately 180 degrees out of phase with the pyramidal cell layer theta used in this paper.
A result the paper reports from its own data — it cites no other source for it, so there is none to check. The quote shows it is in the paper.
In the paper
“Perturbation experiments identified parvalbumin-expressing interneurons and neurogliaform cells, as well as interneuronal diversity itself, as important factors in theta generation.”
- Also stated in: § Introduction · plain
“Perturbation experiments revealed that parvalbumin-expressing (PV+) interneurons, neurogliaform cells, connections between CA1 pyramidal cells, and interneuronal diversity were important for theta generation.”
§ Interneuronal mechanisms of hippocampal theta oscillations in a full-scale model of the rodent CA1 circuit > Abstract
Tests✓ Asserted: passes✓ Checkable: passes✓ Load-bearing: passes✓ Based: passes- Also stated in: § Introduction · plain
A result the paper reports from its own data — it cites no other source for it, so there is none to check. The quote shows it is in the paper.
In the paper
“In contrast, the second group of cells, including the ivy and neurogliaform cells, the CCK+ basket cells and the axo-axonic cells, fired least around the theta trough, leading to an inverted firing probability distribution relative to the first group of interneurons (Figure 5A).”
§ Interneuronal mechanisms of hippocampal theta oscillations in a full-scale model of the rodent CA1 circuit > Results > Mechanism of theta generation and phase-preferential firing of interneurons in the full-scale model of the isolated CA1
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In the paper
“Perturbation experiments revealed that parvalbumin-expressing (PV+) interneurons, neurogliaform cells, connections between CA1 pyramidal cells, and interneuronal diversity were important for theta generation.”
§ Interneuronal mechanisms of hippocampal theta oscillations in a full-scale model of the rodent CA1 circuit > Introduction
Tests✓ Asserted: passes✓ Checkable: passes✓ Load-bearing: passes✓ Based: passesThe paper states this without a source or data behind it here, so there is nothing to check it against. The quote shows it is in the paper.
In the paper
“The cells belonging to the first group, including the PV+ basket cells, bistratified cells and O-LM cells, were most likely to fire at the theta trough compared to other theta phases.”
§ Interneuronal mechanisms of hippocampal theta oscillations in a full-scale model of the rodent CA1 circuit > Results > Mechanism of theta generation and phase-preferential firing of interneurons in the full-scale model of the isolated CA1
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In the paper
“Importantly, this fundamental property emerged spontaneously from the full-scale model, without purposeful tuning of parameters except the mean spiking frequency and synaptic strength of the artificial stimulating cells to set the incoming excitation levels from afferents (see Materials and methods for details).”
§ Interneuronal mechanisms of hippocampal theta oscillations in a full-scale model of the rodent CA1 circuit > Results > Mechanism of theta generation and phase-preferential firing of interneurons in the full-scale model of the isolated CA1
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In the paper
“Interneurons in the model preferentially fired at specific phases of theta oscillations, depending on the cell type.”
§ Interneuronal mechanisms of hippocampal theta oscillations in a full-scale model of the rodent CA1 circuit > Results > Mechanism of theta generation and phase-preferential firing of interneurons in the full-scale model of the isolated CA1
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In the paper
“Specifically, the majority (71%; 5/7) of the interneuron types for which there were experimental data, including the CCK+ basket, axo-axonic, bistratified, O-LM and neurogliaform cells, showed similar preferential maxima in their firing probabilities in the model (Figure 5A) and in vivo (Figure 5B).”
§ Interneuronal mechanisms of hippocampal theta oscillations in a full-scale model of the rodent CA1 circuit > Results > Mechanism of theta generation and phase-preferential firing of interneurons in the full-scale model of the isolated CA1
Tests✓ Asserted: passes✓ Checkable: passes✓ Load-bearing: passes✓ Based: passes- Rests on an assumption: The phase preferences of interneurons in anesthetized animals are comparable to those in the model's conditions for the purpose of validating the model.
A result the paper reports from its own data — it cites no other source for it, so there is none to check. The quote shows it is in the paper.
In the paper
“The oscillation also featured strong harmonics at multiples of the theta frequency of 7.8 Hz.”
§ Interneuronal mechanisms of hippocampal theta oscillations in a full-scale model of the rodent CA1 circuit > Results > Emergence of spontaneous theta and gamma oscillations in the full-scale model in the absence of rhythmic external inputs
Strength:boosted· not yet calibratedTests✓ Asserted: passes✓ Checkable: passes? Load-bearing: unclear✓ Based: passesIn the paper
“The differential effects of silencing PV+ versus SOM+ cells could also be obtained in a rationally simplified model called the Network Clamp, where a single pyramidal cell was virtually extracted from the full-scale CA1 network with all of its afferent synapses intact (for further details, see Bezaire et al., 2016a).”
§ Interneuronal mechanisms of hippocampal theta oscillations in a full-scale model of the rodent CA1 circuit > Results > Perturbation experiments indicate a key role for interneuronal diversity in the emergence of spontaneous theta
What the sources say
- Not checked yetcites Bezaire et al., 2016a
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In the paper
“Silencing the output from any of the fast-spiking, PV family interneurons (PV+ basket, axo-axonic, or bistratified cells), CCK+ basket cells, or neurogliaform cells also strongly reduced theta power in the network (Figure 6B).”
§ Interneuronal mechanisms of hippocampal theta oscillations in a full-scale model of the rodent CA1 circuit > Results > Perturbation experiments indicate a key role for interneuronal diversity in the emergence of spontaneous theta
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In the paper
“In contrast, muting other interneuronal types (S.C.-A cells, O-LM cells, or ivy cells) had no effect on this form of theta oscillations generated by the intra-CA1 network (Figure 6B).”
§ Interneuronal mechanisms of hippocampal theta oscillations in a full-scale model of the rodent CA1 circuit > Results > Perturbation experiments indicate a key role for interneuronal diversity in the emergence of spontaneous theta
Load-bearingStrength:plain· not yet calibratedTests✓ Asserted: passes✓ Checkable: passes✓ Load-bearing: passes✓ Based: passesIn the paper
“Reassuringly, these results were in overall agreement with experimental data from the isolated CA1 preparation indicating that optogenetic silencing of PV+ cells, but not SOM+ cells such as the O-LM cells, caused a marked reduction in theta oscillations (Amilhon et al., 2015).”
§ Interneuronal mechanisms of hippocampal theta oscillations in a full-scale model of the rodent CA1 circuit > Results > Perturbation experiments indicate a key role for interneuronal diversity in the emergence of spontaneous theta
What the sources say
- Not checked yetcites Amilhon et al., 2015 source
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In the paper
“Removing the GABAB component from the neurogliaform synapses onto other neurogliaform cells and pyramidal cells showed a significant drop in theta power.”
§ Interneuronal mechanisms of hippocampal theta oscillations in a full-scale model of the rodent CA1 circuit > Results > Perturbation experiments indicate a key role for interneuronal diversity in the emergence of spontaneous theta
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In the paper
“Massively increasing the weight of the GABAA component to produce a similar amount of charge transfer restored theta power”
§ Interneuronal mechanisms of hippocampal theta oscillations in a full-scale model of the rodent CA1 circuit > Results > Perturbation experiments indicate a key role for interneuronal diversity in the emergence of spontaneous theta
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In the paper
“When we muted all the outputs from pyramidal cells, theta rhythm disappeared (bar labeled ‘Pyr’ in Figure 6B)”
§ Interneuronal mechanisms of hippocampal theta oscillations in a full-scale model of the rodent CA1 circuit > Results > Perturbation experiments indicate a key role for interneuronal diversity in the emergence of spontaneous theta
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In the paper
“When the excitation level decreased below 0.65 Hz, the theta rhythm fell apart”
§ Interneuronal mechanisms of hippocampal theta oscillations in a full-scale model of the rodent CA1 circuit > Results > Perturbation experiments indicate a key role for interneuronal diversity in the emergence of spontaneous theta
Tests✓ Asserted: passes✓ Checkable: passes✓ Load-bearing: passes✓ Based: passesIn the paper
“Interestingly, muting the relatively rare CA1 pyramidal cell to pyramidal cell excitatory connections alone (each pyramidal cell contacts 197 other pyramidal cells in the CA1; Bezaire and Soltesz, 2013) was sufficient to collapse the theta rhythm (bar labeled ‘None’ in Figure 6C)”
§ Interneuronal mechanisms of hippocampal theta oscillations in a full-scale model of the rodent CA1 circuit > Results > Perturbation experiments indicate a key role for interneuronal diversity in the emergence of spontaneous theta
What the sources say
- Not checked yetcites Bezaire and Soltesz, 2013 source
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In the paper
“A wide range in excitation was unable to produce theta in the PV+ B. network.”
§ Interneuronal mechanisms of hippocampal theta oscillations in a full-scale model of the rodent CA1 circuit > Results > Perturbation experiments indicate a key role for interneuronal diversity in the emergence of spontaneous theta
Load-bearingStrength:plain· not yet calibratedTests✓ Asserted: passes✓ Checkable: passes✓ Load-bearing: passes✓ Based: passesA result the paper reports from its own data — it cites no other source for it, so there is none to check. The quote shows it is in the paper.
In the paper
“theta power dramatically decreased when these connections were either increased (doubled) or decreased (halved) from the biologically observed 197 (Figure 6C).”
§ Interneuronal mechanisms of hippocampal theta oscillations in a full-scale model of the rodent CA1 circuit > Results > Perturbation experiments indicate a key role for interneuronal diversity in the emergence of spontaneous theta
Tests✓ Asserted: passes✓ Checkable: passes✓ Load-bearing: passes✓ Based: passesA result the paper reports from its own data — it cites no other source for it, so there is none to check. The quote shows it is in the paper.
In the paper
“As shown in Figure 6H (green bar), theta activity was restored when the neurogliaform cell output synapses had no slow GABAB component, only a scaled up fast GABAA IPSP with a charge transfer equivalent to the mixed GABAA,B synapses.”
§ Interneuronal mechanisms of hippocampal theta oscillations in a full-scale model of the rodent CA1 circuit > Results > Neurogliaform cell signaling and theta generation in the isolated CA1 model
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In the paper
“When excited with arrhythmic inputs at physiologically relevant levels (see below), the model displayed spontaneous theta (and gamma) oscillations with phase preferential firing across the nine model cell types (pyramidal cells and eight interneuron classes).”
§ Interneuronal mechanisms of hippocampal theta oscillations in a full-scale model of the rodent CA1 circuit > Discussion > Emergence of theta oscillations from a biological data-driven, full-scale model of the CA1 network
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In the paper
“Consistent with experimental results (Goutagny et al., 2009; Amilhon et al., 2015), these oscillations emerged from the network model without explicit encoding, rhythmic inputs or purposeful tuning of intra-CA1 parameters (all anatomical connectivity parameters were exactly as previously published in Bezaire and Soltesz (2013)).”
§ Interneuronal mechanisms of hippocampal theta oscillations in a full-scale model of the rodent CA1 circuit > Discussion > Emergence of theta oscillations from a biological data-driven, full-scale model of the CA1 network
What the sources say
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In the paper
“Theta was not apparent in any intermediate steps nor in the final network where all interneurons had become PV+ basket cells (‘All PV+B’ in Figure 6F).”
§ Interneuronal mechanisms of hippocampal theta oscillations in a full-scale model of the rodent CA1 circuit > Results > Perturbation experiments indicate a key role for interneuronal diversity in the emergence of spontaneous theta
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In the paper
“Surprisingly, giving all interneurons a single electrophysiological profile appeared to create conditions that were not conducive for the appearance of spontaneous theta oscillations regardless of which interneuronal profile was used (Figure 6E; note that the cells still differed in the strengths, distribution, and identities of their incoming and outgoing connections after this manipulation).”
§ Interneuronal mechanisms of hippocampal theta oscillations in a full-scale model of the rodent CA1 circuit > Results > Perturbation experiments indicate a key role for interneuronal diversity in the emergence of spontaneous theta
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In the paper
“Indeed, when we selectively removed the GABAB component of all neurogliaform cell outgoing synaptic connections, theta power was strongly reduced (Figure 6H).”
§ Interneuronal mechanisms of hippocampal theta oscillations in a full-scale model of the rodent CA1 circuit > Results > Neurogliaform cell signaling and theta generation in the isolated CA1 model
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In the paper
“and exhibited strong theta power in their spiking in the control network model (Figure 4B).”
§ Interneuronal mechanisms of hippocampal theta oscillations in a full-scale model of the rodent CA1 circuit > Results > Perturbation experiments indicate a key role for interneuronal diversity in the emergence of spontaneous theta
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In the paper
“we subjected the ‘All PV+ B’ network to a wide range of incoming excitation levels (Figure 6G). Theta rhythm did not appear at any of these excitation levels.”
§ Interneuronal mechanisms of hippocampal theta oscillations in a full-scale model of the rodent CA1 circuit > Results > Perturbation experiments indicate a key role for interneuronal diversity in the emergence of spontaneous theta
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In the paper
“the phase preference of the axo-axonic cell in the model (163°) was closer to the anesthetized phase (185°) than to the awake phase (251°)”
§ Interneuronal mechanisms of hippocampal theta oscillations in a full-scale model of the rodent CA1 circuit > Discussion > Rationale for bases of comparison between modeling results with experimental data
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In the paper
“While it may be expected that isolated theta generation would require local pyramidal cells to provide rhythmic, recurrent excitation to interneurons, our simulations additionally showed that the relatively rare pyramidal cell to pyramidal cell local excitatory connections were also required.”
§ Interneuronal mechanisms of hippocampal theta oscillations in a full-scale model of the rodent CA1 circuit > Discussion > Emergence of theta oscillations from a biological data-driven, full-scale model of the CA1 network
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In the paper
“However, we had to increase the conductance of the GABAA synapse almost 300 times to achieve a similar charge transfer as that conveyed by the GABAB synapse.”
§ Interneuronal mechanisms of hippocampal theta oscillations in a full-scale model of the rodent CA1 circuit > Discussion > Emergence of theta oscillations from a biological data-driven, full-scale model of the CA1 network
Tests✓ Asserted: passes✓ Checkable: passes✓ Load-bearing: passes✓ Based: passesThe paper states this without a source or data behind it here, so there is nothing to check it against. The quote shows it is in the paper.
In the paper
“bistratified and O-LM cells fired close to the trough in the model, under anesthesia and in awake animals”
§ Interneuronal mechanisms of hippocampal theta oscillations in a full-scale model of the rodent CA1 circuit > Discussion > Rationale for bases of comparison between modeling results with experimental data
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In the paper
“the PV+ basket cells in the model displayed phase preferential firing (357°) closer to data reported from awake (289°–310°) than anesthetized animals (234°–271°)”
§ Interneuronal mechanisms of hippocampal theta oscillations in a full-scale model of the rodent CA1 circuit > Discussion > Rationale for bases of comparison between modeling results with experimental data
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In the paper
“Our results obtained using the 0.65 Hz excitation indicated that the CA1 model network exhibited phenomena that corresponded well with experimental results, for example, on the differential roles of PV+ basket cells and OLM cells.”
§ Interneuronal mechanisms of hippocampal theta oscillations in a full-scale model of the rodent CA1 circuit > Discussion > Emergence of theta oscillations from a biological data-driven, full-scale model of the CA1 network
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In the paper
“Importantly, theta oscillations appeared only within certain levels of excitatory afferent activity, around 0.65 Hz for the average firing rate of the Poisson-distributed spike trains.”
§ Interneuronal mechanisms of hippocampal theta oscillations in a full-scale model of the rodent CA1 circuit > Discussion > Emergence of theta oscillations from a biological data-driven, full-scale model of the CA1 network
Tests✓ Asserted: passes✓ Checkable: passes✓ Load-bearing: passes✓ Based: passesIn the paper
“When the 454,700 stimulating afferents in the model (representing the CA3 and entorhinal synapses; calculated in Bezaire and Soltesz (2013)) are active at a Poisson mean of 0.65 Hz, they generate approximately 37,900 incoming spikes / theta cycle, given a theta frequency of 7.8 Hz (Equation 1).”
§ Interneuronal mechanisms of hippocampal theta oscillations in a full-scale model of the rodent CA1 circuit > Discussion > Emergence of theta oscillations from a biological data-driven, full-scale model of the CA1 network
What the sources say
- Not checked yetcites Bezaire and Soltesz (2013) source
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In the paper
“we demonstrated that emergent theta and gamma oscillations and theta phase preferential firing are possible even as additional interneuron types are incorporated and the network is scaled up to full size with realistic connectivity including 5 billion synapses between the 300,000-plus cells of our network model”
§ Interneuronal mechanisms of hippocampal theta oscillations in a full-scale model of the rodent CA1 circuit > Discussion > An accessible approach to modeling that balances detail, scale, flexibility and performance
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In the paper
“Our results from the strictly data-driven, full-scale CA1 model are consistent with those of earlier models that elegantly demonstrated the basic ingredients capable of producing emergent network oscillations at a range of frequencies in microcircuits and small networks”
§ Interneuronal mechanisms of hippocampal theta oscillations in a full-scale model of the rodent CA1 circuit > Discussion > An accessible approach to modeling that balances detail, scale, flexibility and performance
What the sources say
Strength:plain· not yet calibratedCausal:correlational· not yet calibratedTests✓ Asserted: passes✓ Checkable: passes? Load-bearing: unclear✓ Based: passesThe paper states this without a source or data behind it here, so there is nothing to check it against. The quote shows it is in the paper.
In the paper
“The current CA1 network model produces results in agreement with experimental data”
§ Interneuronal mechanisms of hippocampal theta oscillations in a full-scale model of the rodent CA1 circuit > Discussion > Conclusion and outlook
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In the paper
“CCK+ cells had a steep response to the weight of the incoming afferent synapses, remaining silent until the weight was increased significantly and then spiking at a high rate”
§ Interneuronal mechanisms of hippocampal theta oscillations in a full-scale model of the rodent CA1 circuit > Materials and methods > Stimulation
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In the paper
“recent reports indicate the presence of spontaneous theta-frequency LFP oscillations even in the isolated whole CA1 preparation in vitro (Goutagny et al., 2009; Amilhon et al., 2015).”
§ Interneuronal mechanisms of hippocampal theta oscillations in a full-scale model of the rodent CA1 circuit > Introduction
What the sources say
Load-bearingStrength:hedged· not yet calibratedTests✓ Asserted: passes✓ Checkable: passes✓ Load-bearing: passes✓ Based: passesIn the paper
“However, the intra-CA1 mechanisms that may contribute to the generation of the theta rhythm are not well understood (Colgin, 2013, 2016).”
§ Interneuronal mechanisms of hippocampal theta oscillations in a full-scale model of the rodent CA1 circuit > Introduction
What the sources say
- Not matchedcites Colgin, 2013, 2016
Couldn’t be matched to a paper in Crossref, so it can’t be checked.
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In the paper
“These cell types collectively comprise the majority (~70%) of known CA1 interneurons (Bezaire and Soltesz, 2013).”
§ Interneuronal mechanisms of hippocampal theta oscillations in a full-scale model of the rodent CA1 circuit > Results > Development of a data-driven, full-scale model of the isolated CA1
What the sources say
- Not checked yetcites Bezaire and Soltesz, 2013 source
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In the paper
“smaller models of large networks with realistic single cell electrophysiological properties (e.g., input resistance and resting membrane potential) remain silent unless synaptic strengths or numbers are arbitrarily increased beyond the biologically relevant levels to compensate for fewer inputs to their model cells”
§ Interneuronal mechanisms of hippocampal theta oscillations in a full-scale model of the rodent CA1 circuit > Introduction
What the sources say
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In the paper
“An important set of constraints was the electrophysiology and other properties of individual cells and synapses (Figure 2; Figure 2—source data 3–27; Tables 3 and 4) that were based on experimental data (Lee et al., 2016; Quattrocolo and Maccaferri, 2016).”
§ Interneuronal mechanisms of hippocampal theta oscillations in a full-scale model of the rodent CA1 circuit > Results > Development of a data-driven, full-scale model of the isolated CA1
What the sources say
- Not checked yetcites Lee et al., 2016 source
- Not checked yetcites Quattrocolo and Maccaferri, 2016
Load-bearingStrength:plain· not yet calibratedTests✓ Asserted: passes✓ Checkable: passes✓ Load-bearing: passes✓ Based: passesWhat the paper did — it cites no source for this, so there is none to check. The quote shows it is in the paper.
In the paper
“We used experimental data to constrain the synaptic kinetics, amplitudes, and locations on the postsynaptic cell (Figure 1E, 2K and L).”
§ Interneuronal mechanisms of hippocampal theta oscillations in a full-scale model of the rodent CA1 circuit > Results > Development of a data-driven, full-scale model of the isolated CA1
Tests✓ Asserted: passes✓ Checkable: passes✓ Load-bearing: passes✓ Based: passesIn the paper
“The afferent divergence and convergence onto the cells were also anatomically patterned, maintaining the topographical arrangement seen experimentally (Hongo et al., 2015), for a total of 5.19 billion synaptic connections in the model network.”
§ Interneuronal mechanisms of hippocampal theta oscillations in a full-scale model of the rodent CA1 circuit > Results > Development of a data-driven, full-scale model of the isolated CA1
What the sources say
- Not checked yetcites Hongo et al., 2015 source
Strength:plain· not yet calibratedCausal:correlational· not yet calibratedTests✓ Asserted: passes✓ Checkable: passes? Load-bearing: unclear✓ Based: passesNone of the sources cited for this claim have been checked yet.
In the paper
“Therefore, the latter studies suggest an intrinsic ability of the CA1 circuit to generate some form of theta waves even without rhythmic external inputs.”
§ Interneuronal mechanisms of hippocampal theta oscillations in a full-scale model of the rodent CA1 circuit > Introduction
What the sources say
Tests✓ Asserted: passes✓ Checkable: passes✓ Load-bearing: passes✓ Based: passesA conclusion the paper draws from its own results — it cites no other source for it, so there is none to check. The quote shows it is in the paper.
In the paper
“To our knowledge, this is the first strictly data-driven, full-scale computational network model of the CA1 that exhibits spontaneous theta rhythm without rhythmic synaptic inputs.”
§ Interneuronal mechanisms of hippocampal theta oscillations in a full-scale model of the rodent CA1 circuit > Results > Emergence of spontaneous theta and gamma oscillations in the full-scale model in the absence of rhythmic external inputs
Tests✓ Asserted: passes✓ Checkable: passes✓ Load-bearing: passes✓ Based: passesA conclusion the paper draws from its own results — it cites no other source for it, so there is none to check. The quote shows it is in the paper.
In the paper
“Therefore, the model was capable of reproducing the experimentally observed relatively low-firing frequencies for the principal cells during theta oscillations in vivo.”
§ Interneuronal mechanisms of hippocampal theta oscillations in a full-scale model of the rodent CA1 circuit > Results > Emergence of spontaneous theta and gamma oscillations in the full-scale model in the absence of rhythmic external inputs
Tests✓ Asserted: passes✓ Checkable: passes✓ Load-bearing: passes✓ Based: passes- Rests on an assumption: The missing 30% of interneurons do not qualitatively alter the generation of theta oscillations in the model.
A conclusion the paper draws from its own results — it cites no other source for it, so there is none to check. The quote shows it is in the paper.
In the paper
“These results demonstrate that, in spite of gaps in our knowledge, our model was sufficiently well-constrained by experimental data that it generated theta and gamma oscillations on its own, without extrinsic rhythmic inputs or deliberate tuning of intrinsic parameters.”
§ Interneuronal mechanisms of hippocampal theta oscillations in a full-scale model of the rodent CA1 circuit > Results > Emergence of spontaneous theta and gamma oscillations in the full-scale model in the absence of rhythmic external inputs
Tests✓ Asserted: passes✓ Checkable: passes✓ Load-bearing: passes✓ Based: passes- Rests on an assumption: The model parameters that could not be constrained by experimental data do not critically affect the model's conclusions.
A conclusion the paper draws from its own results — it cites no other source for it, so there is none to check. The quote shows it is in the paper.
In the paper
“Therefore, these lesser-known interneurons were not included in the model, which meant that inhibition received by the pyramidal cells was probably weaker than in the biological situation.”
§ Interneuronal mechanisms of hippocampal theta oscillations in a full-scale model of the rodent CA1 circuit > Results > Emergence of spontaneous theta and gamma oscillations in the full-scale model in the absence of rhythmic external inputs
Load-bearingStrength:hedged· not yet calibratedTests✓ Asserted: passes✓ Checkable: passes✓ Load-bearing: passes✓ Based: passes- Rests on an assumption: The missing 30% of interneurons do not qualitatively alter the generation of theta oscillations in the model.
In the paper
“Since these cells received substantial excitatory inputs from local CA1 pyramidal cells both in the biological state and in the model (Bezaire and Soltesz, 2013)”
§ Interneuronal mechanisms of hippocampal theta oscillations in a full-scale model of the rodent CA1 circuit > Results > Mechanism of theta generation and phase-preferential firing of interneurons in the full-scale model of the isolated CA1
What the sources say
- Not checked yetcites Bezaire and Soltesz, 2013 source
Tests✓ Asserted: passes✓ Checkable: passes✓ Load-bearing: passes✓ Based: passesA conclusion the paper draws from its own results — it cites no other source for it, so there is none to check. The quote shows it is in the paper.
In the paper
“A clear majority of the interneuronal types in the model showed phase preferences similar to the in vivo condition where rhythmically discharging afferent inputs are present, indicating that theta-preferential discharges are to a large extent determined by the wiring properties of the CA1 circuit itself.”
§ Interneuronal mechanisms of hippocampal theta oscillations in a full-scale model of the rodent CA1 circuit > Results > Mechanism of theta generation and phase-preferential firing of interneurons in the full-scale model of the isolated CA1
Tests✓ Asserted: passes✓ Checkable: passes✓ Load-bearing: passes✓ Based: passes- Rests on an assumption: The phase preferences of interneurons in anesthetized animals are comparable to those in the model's conditions for the purpose of validating the model.
In the paper
“suggesting that during theta oscillations in vivo these cells may be strongly driven by CA3 afferents active during the late falling phase of the theta cycle (Colgin and Moser, 2010)”
§ Interneuronal mechanisms of hippocampal theta oscillations in a full-scale model of the rodent CA1 circuit > Results > Mechanism of theta generation and phase-preferential firing of interneurons in the full-scale model of the isolated CA1
What the sources say
- Not checked yetcites Colgin and Moser, 2010
Tests✓ Asserted: passes✓ Checkable: passes✓ Load-bearing: passes✓ Based: passesA conclusion the paper draws from its own results — it cites no other source for it, so there is none to check. The quote shows it is in the paper.
In the paper
“their firing in the isolated CA1 model was probably driven by the pyramidal cell discharges around the theta trough.”
§ Interneuronal mechanisms of hippocampal theta oscillations in a full-scale model of the rodent CA1 circuit > Results > Mechanism of theta generation and phase-preferential firing of interneurons in the full-scale model of the isolated CA1
Tests✓ Asserted: passes✓ Checkable: passes✓ Load-bearing: passes✓ Based: passesA conclusion the paper draws from its own results — it cites no other source for it, so there is none to check. The quote shows it is in the paper.
In the paper
“Their differing phase preferences were most likely due to a combination of weak or non-existent excitatory inputs from local CA1 pyramidal cells and inhibition from the interneurons that prominently discharged around the theta trough.”
§ Interneuronal mechanisms of hippocampal theta oscillations in a full-scale model of the rodent CA1 circuit > Results > Mechanism of theta generation and phase-preferential firing of interneurons in the full-scale model of the isolated CA1
Tests✓ Asserted: passes✓ Checkable: passes✓ Load-bearing: passes✓ Based: passesIn the paper
“each pyramidal cell contacts 197 other pyramidal cells in the CA1; Bezaire and Soltesz, 2013”
§ Interneuronal mechanisms of hippocampal theta oscillations in a full-scale model of the rodent CA1 circuit > Results > Perturbation experiments indicate a key role for interneuronal diversity in the emergence of spontaneous theta
What the sources say
- Not checked yetcites Bezaire and Soltesz, 2013 source
Load-bearingStrength:plain· not yet calibratedTests✓ Asserted: passes✓ Checkable: passes✓ Load-bearing: passes✓ Based: passesA conclusion the paper draws from its own results — it cites no other source for it, so there is none to check. The quote shows it is in the paper.
In the paper
“indicating that the recurrent collaterals of pyramidal cells play a key role in theta oscillations.”
§ Interneuronal mechanisms of hippocampal theta oscillations in a full-scale model of the rodent CA1 circuit > Results > Perturbation experiments indicate a key role for interneuronal diversity in the emergence of spontaneous theta
Tests✓ Asserted: passes✓ Checkable: passes✓ Load-bearing: passes✓ Based: passesA conclusion the paper draws from its own results — it cites no other source for it, so there is none to check. The quote shows it is in the paper.
In the paper
“While we could not rule out a hypothetical theta regime somewhere in the parameter space of such low-diversity configurations, any theta solution space would likely be smaller and more elusive than we were able to determine in the control configuration (Figure 6A).”
§ Interneuronal mechanisms of hippocampal theta oscillations in a full-scale model of the rodent CA1 circuit > Results > Perturbation experiments indicate a key role for interneuronal diversity in the emergence of spontaneous theta
Load-bearingStrength:hedged· not yet calibratedTests✓ Asserted: passes✓ Checkable: passes✓ Load-bearing: passes✓ Based: passes- Rests on an assumption: The parameter space explored for low-diversity configurations is sufficient to conclude that interneuronal diversity is necessary for spontaneous theta oscillations.
In the paper
“In agreement with previous predictions (Capogna, 2011), the perturbation experiments described above suggested that neurogliaform cells were a necessary component for spontaneous theta to arise in the isolated CA1.”
§ Interneuronal mechanisms of hippocampal theta oscillations in a full-scale model of the rodent CA1 circuit > Results > Neurogliaform cell signaling and theta generation in the isolated CA1 model
What the sources say
- Not checked yetcites Capogna, 2011 source
Tests✓ Asserted: passes✓ Checkable: passes✓ Load-bearing: passes✓ Based: passesIn the paper
“We produced a biologically detailed, full-scale CA1 network model constrained by extensive experimental data (Bezaire and Soltesz, 2013).”
§ Interneuronal mechanisms of hippocampal theta oscillations in a full-scale model of the rodent CA1 circuit > Discussion > Emergence of theta oscillations from a biological data-driven, full-scale model of the CA1 network
What the sources say
- Not checked yetcites Bezaire and Soltesz, 2013 source
Load-bearingStrength:plain· not yet calibratedTests✓ Asserted: passes✓ Checkable: passes✓ Load-bearing: passes✓ Based: passesA conclusion the paper draws from its own results — it cites no other source for it, so there is none to check. The quote shows it is in the paper.
In the paper
“Taken together, these results indicated, for the first time, that interneuronal diversity itself is an important factor in the emergence of spontaneous theta oscillations from the CA1 network.”
§ Interneuronal mechanisms of hippocampal theta oscillations in a full-scale model of the rodent CA1 circuit > Results > Perturbation experiments indicate a key role for interneuronal diversity in the emergence of spontaneous theta
Tests✓ Asserted: passes✓ Checkable: passes✓ Load-bearing: passes✓ Based: passes- Rests on an assumption: The parameter space explored for low-diversity configurations is sufficient to conclude that interneuronal diversity is necessary for spontaneous theta oscillations.
A conclusion the paper draws from its own results — it cites no other source for it, so there is none to check. The quote shows it is in the paper.
In the paper
“Thus, the model has the capacity to process a biologically realistic number of spike inputs per cycle while maintaining the theta rhythm.”
§ Interneuronal mechanisms of hippocampal theta oscillations in a full-scale model of the rodent CA1 circuit > Discussion > Emergence of theta oscillations from a biological data-driven, full-scale model of the CA1 network
Load-bearingStrength:plain· not yet calibratedTests✓ Asserted: passes✓ Checkable: passes✓ Load-bearing: passes✓ Based: passesA conclusion the paper draws from its own results — it cites no other source for it, so there is none to check. The quote shows it is in the paper.
In the paper
“In addition to identifying key roles for certain inhibitory components (PV+ interneurons, neurogliaform cells, GABAB, and interneuron diversity), our results also highlighted the importance of the recurrent excitatory collaterals from CA1 pyramidal cells in theta generation in the model of the isolated CA1 network.”
§ Interneuronal mechanisms of hippocampal theta oscillations in a full-scale model of the rodent CA1 circuit > Discussion > Emergence of theta oscillations from a biological data-driven, full-scale model of the CA1 network
Tests✓ Asserted: passes✓ Checkable: passes✓ Load-bearing: passes✓ Based: passesNone of the sources cited for this claim have been checked yet.
In the paper
“the experimental data on the isolated CA1 preparation were obtained from both rat (Goutagny et al., 2009) and mouse (Amilhon et al., 2015)”
§ Interneuronal mechanisms of hippocampal theta oscillations in a full-scale model of the rodent CA1 circuit > Discussion > Rationale for bases of comparison between modeling results with experimental data
What the sources say
Load-bearingStrength:plain· not yet calibratedTests✓ Asserted: passes✓ Checkable: passes✓ Load-bearing: passes✓ Based: passesA conclusion the paper draws from its own results — it cites no other source for it, so there is none to check. The quote shows it is in the paper.
In the paper
“The modeling results also provided the interesting insight that GABAB receptors may play important roles in slow oscillations such as the theta rhythm not because their slow kinetics pace the oscillations, but because their slow kinetics enable a massive charge transfer.”
§ Interneuronal mechanisms of hippocampal theta oscillations in a full-scale model of the rodent CA1 circuit > Discussion > Emergence of theta oscillations from a biological data-driven, full-scale model of the CA1 network
Tests✓ Asserted: passes✓ Checkable: passes✓ Load-bearing: passes✓ Based: passesWhat the paper did — it cites no source for this, so there is none to check. The quote shows it is in the paper.
In the paper
“some of the electrophysiology data used for constructing the single cell models (Appendix) came from the mouse”
§ Interneuronal mechanisms of hippocampal theta oscillations in a full-scale model of the rodent CA1 circuit > Discussion > Rationale for bases of comparison between modeling results with experimental data
Load-bearingStrength:plain· not yet calibratedTests✓ Asserted: passes✓ Checkable: passes✓ Load-bearing: passes✓ Based: passesIn the paper
“our model is fundamentally a model of the rat CA1 (e.g., in terms of cell numbers and connectivity; see Table 3 in Bezaire and Soltesz [2013])”
§ Interneuronal mechanisms of hippocampal theta oscillations in a full-scale model of the rodent CA1 circuit > Discussion > Rationale for bases of comparison between modeling results with experimental data
What the sources say
- Not checked yetcites Bezaire and Soltesz [2013] source
Load-bearingStrength:plain· not yet calibratedTests✓ Asserted: passes✓ Checkable: passes✓ Load-bearing: passes✓ Based: passesA conclusion the paper draws from its own results — it cites no other source for it, so there is none to check. The quote shows it is in the paper.
In the paper
“This insight was illuminated by the fact that slow GABAB synapses were not necessary for theta as long as their large charge was carried by the fast GABAA synapses.”
§ Interneuronal mechanisms of hippocampal theta oscillations in a full-scale model of the rodent CA1 circuit > Discussion > Emergence of theta oscillations from a biological data-driven, full-scale model of the CA1 network
Tests✓ Asserted: passes✓ Checkable: passes✓ Load-bearing: passes✓ Based: passesIn the paper
“all the model configurations and simulation result data sets used in this work are available online”
§ Interneuronal mechanisms of hippocampal theta oscillations in a full-scale model of the rodent CA1 circuit > Discussion > An accessible approach to modeling that balances detail, scale, flexibility and performance
What the sources say
- Not checked yetcites Bezaire et al., 2016b
Strength:plain· not yet calibratedTests✓ Asserted: passes✓ Checkable: passes? Load-bearing: unclear✓ Based: passesA conclusion the paper draws from its own results — it cites no other source for it, so there is none to check. The quote shows it is in the paper.
In the paper
“it is likely that the theta that emerged from our model most closely resembled the atropine resistant form”
§ Interneuronal mechanisms of hippocampal theta oscillations in a full-scale model of the rodent CA1 circuit > Discussion > Rationale for bases of comparison between modeling results with experimental data
Tests✓ Asserted: passes✓ Checkable: passes✓ Load-bearing: passes✓ Based: passesIn the paper
“The cell number and connectivity parameters were exactly as we reported previously in our in-depth quantitative assessment of anatomical data about the CA1”
§ Interneuronal mechanisms of hippocampal theta oscillations in a full-scale model of the rodent CA1 circuit > Materials and methods > Biological constraints
What the sources say
- Not checked yetcites Bezaire and Soltesz, 2013 source
Load-bearingStrength:plain· not yet calibratedTests✓ Asserted: passes✓ Checkable: passes✓ Load-bearing: passes✓ Based: passes
- It may state two separate claims as one. 23
- Probably not a substantial claim. 37
None of the sources cited for this claim have been checked yet.
In the paper
“In simulations with the model containing this rationally scaled up inhibition, only 1% of the pyramidal cells were active, and they fired at a low rate of 1.8 Hz (data not shown), closely resembling the in vivo condition (Soltesz and Deschênes, 1993; Robbe et al., 2006).”
§ Interneuronal mechanisms of hippocampal theta oscillations in a full-scale model of the rodent CA1 circuit > Results > Emergence of spontaneous theta and gamma oscillations in the full-scale model in the absence of rhythmic external inputs
What the sources say
- Not checked yetcites Soltesz and Deschênes, 1993
- Not checked yetcites Robbe et al., 2006 source
Tests✓ Asserted: passes✓ Checkable: passes✓ Load-bearing: passes✓ Based: passesIt may state two separate claims as one.
A result the paper reports from its own data — it cites no other source for it, so there is none to check. The quote shows it is in the paper.
In the paper
“there was a correlation between the phase preference and the strength of modulation (Figure 5C; see Materials and methods), with the cells discharging around the trough all showing strong modulation of firing.”
§ Interneuronal mechanisms of hippocampal theta oscillations in a full-scale model of the rodent CA1 circuit > Results > Mechanism of theta generation and phase-preferential firing of interneurons in the full-scale model of the isolated CA1
Strength:plain· not yet calibratedCausal:correlational· not yet calibratedTests✓ Asserted: passes✓ Checkable: passes? Load-bearing: unclear✓ Based: passesIt may state two separate claims as one.
A result the paper reports from its own data — it cites no other source for it, so there is none to check. The quote shows it is in the paper.
In the paper
“Theta phase preference and theta modulation level were correlated; better modulated cell types spiked closer to the LFP analog trough near the phase preference of pyramidal cells.”
§ Interneuronal mechanisms of hippocampal theta oscillations in a full-scale model of the rodent CA1 circuit > Results > Mechanism of theta generation and phase-preferential firing of interneurons in the full-scale model of the isolated CA1
Tests✓ Asserted: passes✓ Checkable: passes✓ Load-bearing: passes✓ Based: passesIt may state two separate claims as one.
- Rests on an assumption: The experimental phase preferences from anesthetized rats are comparable to the model's conditions.
In the paper
“when the excitation level increased beyond 0.80 Hz, theta power also started to drop significantly as the oscillation frequency rose out of theta range (Figure 6 and Figure 6—figure supplement 1; Figure 6—source data 1–2), evolving into a beta oscillation (Engel and Fries, 2010).”
§ Interneuronal mechanisms of hippocampal theta oscillations in a full-scale model of the rodent CA1 circuit > Results > Perturbation experiments indicate a key role for interneuronal diversity in the emergence of spontaneous theta
What the sources say
- Not checked yetcites Engel and Fries, 2010 source
Tests✓ Asserted: passes✓ Checkable: passes✓ Load-bearing: passes✓ Based: passesIt may state two separate claims as one.
A result the paper reports from its own data — it cites no other source for it, so there is none to check. The quote shows it is in the paper.
In the paper
“Cell type-specific perturbations of the network showed that each interneuronal type contributed uniquely to the spontaneous theta oscillation, and that the presence of diverse inhibitory dynamics was a necessary condition for sustained theta oscillations.”
§ Interneuronal mechanisms of hippocampal theta oscillations in a full-scale model of the rodent CA1 circuit > Discussion > Emergence of theta oscillations from a biological data-driven, full-scale model of the CA1 network
Tests✓ Asserted: passes✓ Checkable: passes✓ Load-bearing: passes✓ Based: passesIt may state two separate claims as one.
The paper states this without a source or data behind it here, so there is nothing to check it against. The quote shows it is in the paper.
In the paper
“As none of the model neurons in our model CA1 network are spontaneously active”
§ Interneuronal mechanisms of hippocampal theta oscillations in a full-scale model of the rodent CA1 circuit > Materials and methods > Stimulation
Load-bearingStrength:plain· not yet calibratedTests✓ Asserted: passes✓ Checkable: passes✓ Load-bearing: passes✗ Based: failsProbably not a substantial claim. The paper may give no reason why it holds.
None of the sources cited for this claim have been checked yet.
In the paper
“In rodents, hippocampal theta is a 5–10 Hz oscillation in the local field potential (LFP) and neuronal firing probabilities (Soltesz and Deschênes, 1993; Lee et al., 1994; Ylinen et al., 1995; Klausberger and Somogyi, 2008; Varga et al., 2012, 2014), occurring during locomotion and in REM sleep (Buzsáki, 2002).”
§ Interneuronal mechanisms of hippocampal theta oscillations in a full-scale model of the rodent CA1 circuit > Introduction
What the sources say
Strength:plain· not yet calibratedCausal:correlational· not yet calibratedTests✓ Asserted: passes✓ Checkable: passes✗ Load-bearing: fails✓ Based: passesProbably not a substantial claim. The paper’s conclusions may not depend on it. It may state two separate claims as one.
The paper states this without a source or data behind it here, so there is nothing to check it against. The quote shows it is in the paper.
In the paper
“In principle, such full-scale models of mammalian circuits comprising hundreds of thousands of neurons of distinct types advantageously avoid the connectivity scaling tradeoff that besets reduced-scale models”
§ Interneuronal mechanisms of hippocampal theta oscillations in a full-scale model of the rodent CA1 circuit > Introduction
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In the paper
“Cell type-specific connectivity data, including cell numbers (Figure 1D) and convergence and divergence values (Figure 1E; Figure 1—figure supplement 1 and Table 1) were taken without alteration from our previously published, in-depth, quantitative assessment of the CA1 circuit (Bezaire and Soltesz, 2013).”
§ Interneuronal mechanisms of hippocampal theta oscillations in a full-scale model of the rodent CA1 circuit > Results > Development of a data-driven, full-scale model of the isolated CA1
What the sources say
- Not checked yetcites Bezaire and Soltesz, 2013 source
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In the paper
“The remaining 30% of the interneurons were not included in the model due to paucity of quantitative data (Bezaire and Soltesz, 2013).”
§ Interneuronal mechanisms of hippocampal theta oscillations in a full-scale model of the rodent CA1 circuit > Results > Development of a data-driven, full-scale model of the isolated CA1
What the sources say
- Not checked yetcites Bezaire and Soltesz, 2013 source
Strength:plain· not yet calibratedCausal:direct· not yet calibratedTests✓ Asserted: passes✓ Checkable: passes✗ Load-bearing: fails✓ Based: passesProbably not a substantial claim. The paper’s conclusions may not depend on it.
In the paper
“note that PV+ cells receive a high number of excitatory inputs on their dendrites compared to other interneuron classes (Gulyás et al., 1999).”
§ Interneuronal mechanisms of hippocampal theta oscillations in a full-scale model of the rodent CA1 circuit > Results > Mechanism of theta generation and phase-preferential firing of interneurons in the full-scale model of the isolated CA1
What the sources say
- Not checked yetcites Gulyás et al., 1999 source
Strength:plain· not yet calibratedCausal:correlational· not yet calibratedTests✓ Asserted: passes✓ Checkable: passes✗ Load-bearing: fails✓ Based: passesProbably not a substantial claim. The paper’s conclusions may not depend on it.
None of the sources cited for this claim have been checked yet.
In the paper
“As mentioned above, distinct interneuronal types, defined based on their selective axonal innervation patterns of the postsynaptic domains of pyramidal cells, exhibit characteristic, cell-type-specific preferred phases of firing during theta oscillations in vivo (Klausberger et al., 2003; 2004, 2005; Ferraguti et al., 2005; Jinno et al., 2007; Fuentealba et al., 2008; Varga et al., 2012; Lapray et”
§ Interneuronal mechanisms of hippocampal theta oscillations in a full-scale model of the rodent CA1 circuit > Results > Mechanism of theta generation and phase-preferential firing of interneurons in the full-scale model of the isolated CA1
What the sources say
Tests✓ Asserted: passes✓ Checkable: passes✓ Load-bearing: passes✓ Based: passesProbably not a substantial claim.
In the paper
“As expected, the numerically dominant pyramidal cells, whose intracellular membrane potential oscillations to a large extent generate and underlie the extracellular LFP signal during theta oscillations (Buzsáki et al., 2012), preferentially discharged around the trough 0o/360o of the LFP analog theta rhythm (Figure 5A).”
§ Interneuronal mechanisms of hippocampal theta oscillations in a full-scale model of the rodent CA1 circuit > Results > Mechanism of theta generation and phase-preferential firing of interneurons in the full-scale model of the isolated CA1
What the sources say
- Not checked yetcites Buzsáki et al., 2012 source
Strength:plain· not yet calibratedCausal:direct· not yet calibratedTests✓ Asserted: passes✓ Checkable: passes✗ Load-bearing: fails✓ Based: passesProbably not a substantial claim. The paper’s conclusions may not depend on it.
In the paper
“key roles for inter-pyramidal cell excitatory synapses within CA1 have been suggested for sharp wave ripple oscillations as well (Maier et al., 2011).”
§ Interneuronal mechanisms of hippocampal theta oscillations in a full-scale model of the rodent CA1 circuit > Results > Perturbation experiments indicate a key role for interneuronal diversity in the emergence of spontaneous theta
What the sources say
- Not checked yetcites Maier et al., 2011 source
Strength:hedged· not yet calibratedCausal:conditional· not yet calibratedTests✓ Asserted: passes✓ Checkable: passes✗ Load-bearing: fails✓ Based: passesProbably not a substantial claim. The paper’s conclusions may not depend on it.
A conclusion the paper draws from its own results — it cites no other source for it, so there is none to check. The quote shows it is in the paper.
In the paper
“These data indicate that while synaptic-cellular organization of the CA1 circuit enables the intrinsic, within-CA1 generation of theta waves, the circuit is predisposed to exhibit theta oscillations only under particular excitatory input conditions.”
§ Interneuronal mechanisms of hippocampal theta oscillations in a full-scale model of the rodent CA1 circuit > Results > Perturbation experiments indicate a key role for interneuronal diversity in the emergence of spontaneous theta
Tests✓ Asserted: passes✓ Checkable: passes✓ Load-bearing: passes✓ Based: passesIt may state two separate claims as one.
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In the paper
“Since the diverse sources of inhibition from the various interneuronal types are believed to enable networks to achieve more complex behaviors, including oscillations (Soltesz, 2006; Rotstein et al., 2005; Kepecs and Fishell, 2014)”
§ Interneuronal mechanisms of hippocampal theta oscillations in a full-scale model of the rodent CA1 circuit > Results > Perturbation experiments indicate a key role for interneuronal diversity in the emergence of spontaneous theta
What the sources say
Tests✓ Asserted: passes✓ Checkable: passes✓ Load-bearing: passes✓ Based: passesProbably not a substantial claim.
In the paper
“First, we studied the role of the recurrent collaterals of pyramidal cells, which contact mostly interneurons and, less frequently, other pyramidal cells (Bezaire and Soltesz, 2013).”
§ Interneuronal mechanisms of hippocampal theta oscillations in a full-scale model of the rodent CA1 circuit > Results > Perturbation experiments indicate a key role for interneuronal diversity in the emergence of spontaneous theta
What the sources say
- Not checked yetcites Bezaire and Soltesz, 2013 source
Strength:plain· not yet calibratedTests✓ Asserted: passes✓ Checkable: passes✗ Load-bearing: fails✓ Based: passesProbably not a substantial claim. The paper’s conclusions may not depend on it.
None of the sources cited for this claim have been checked yet.
In the paper
“we focused on PV+ basket cells, which have been implicated in theta generation in vivo (Soltesz and Deschênes, 1993; Buzsáki, 2002; Stark et al., 2013; Hu et al., 2014)”
§ Interneuronal mechanisms of hippocampal theta oscillations in a full-scale model of the rodent CA1 circuit > Results > Perturbation experiments indicate a key role for interneuronal diversity in the emergence of spontaneous theta
What the sources say
Tests✓ Asserted: passes✓ Checkable: passes✓ Load-bearing: passes✓ Based: passesProbably not a substantial claim.
A conclusion the paper draws from its own results — it cites no other source for it, so there is none to check. The quote shows it is in the paper.
In the paper
“These abilities may serve to maintain the stability and robustness of the theta oscillation mechanism as it operates in vivo in diverse behavioral states.”
§ Interneuronal mechanisms of hippocampal theta oscillations in a full-scale model of the rodent CA1 circuit > Discussion > Emergence of theta oscillations from a biological data-driven, full-scale model of the CA1 network
Strength:hedged· not yet calibratedCausal:conditional· not yet calibratedTests✓ Asserted: passes✗ Checkable: fails✗ Load-bearing: fails✗ Based: failsProbably not a substantial claim. It may be too vague to check against evidence. The paper’s conclusions may not depend on it. The paper may give no reason why it holds.
A conclusion the paper draws from its own results — it cites no other source for it, so there is none to check. The quote shows it is in the paper.
In the paper
“Therefore, muting the neurogliaform cells strongly disrupted the theta oscillations not because the theta oscillations required the slow kinetics of GABAB IPSPs specifically, but because the slow kinetics enabled a large total charge transfer.”
§ Interneuronal mechanisms of hippocampal theta oscillations in a full-scale model of the rodent CA1 circuit > Results > Neurogliaform cell signaling and theta generation in the isolated CA1 model
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In the paper
“These two model interneuron groups mainly differed in that the neurogliaform cells evoked mixed GABAA,B postsynaptic events (Price et al., 2005), whereas the model ivy cells only triggered GABAA IPSPs (in agreement with a lack of evidence for ivy cell-evoked GABAB IPSPs).”
§ Interneuronal mechanisms of hippocampal theta oscillations in a full-scale model of the rodent CA1 circuit > Results > Neurogliaform cell signaling and theta generation in the isolated CA1 model
What the sources say
- Not checked yetcites Price et al., 2005 source
Tests✓ Asserted: passes✓ Checkable: passes✓ Load-bearing: passes✓ Based: passesIt may state two separate claims as one.
In the paper
“Therefore, although PV basket cells appear to be important for theta-generation both in the biological and the model CA1 network, endowing all interneurons with PV basket cell-like properties does not lead to a network configuration conducive to theta oscillations (Hendrickson et al., 2015).”
§ Interneuronal mechanisms of hippocampal theta oscillations in a full-scale model of the rodent CA1 circuit > Results > Perturbation experiments indicate a key role for interneuronal diversity in the emergence of spontaneous theta
What the sources say
- Not checked yetcites Hendrickson et al., 2015 source
Tests✓ Asserted: passes✓ Checkable: passes✓ Load-bearing: passes✓ Based: passesIt may state two separate claims as one.
A conclusion the paper draws from its own results — it cites no other source for it, so there is none to check. The quote shows it is in the paper.
In the paper
“these model results generally suggest that the presence of diverse interneuronal types and the intrinsic circuitry of the CA1 network are sufficient and necessary to enable the isolated CA1 to oscillate at spontaneous theta rhythms while supporting distinct phase preferences of each class of hippocampal neuron.”
§ Interneuronal mechanisms of hippocampal theta oscillations in a full-scale model of the rodent CA1 circuit > Discussion > Emergence of theta oscillations from a biological data-driven, full-scale model of the CA1 network
Tests✓ Asserted: passes✓ Checkable: passes✓ Load-bearing: passes✓ Based: passesIt may state two separate claims as one.
None of the sources cited for this claim have been checked yet.
In the paper
“About 250,000 principal cells from ipsilateral ECIII synapse onto the CA1 region (Andersen et al., 2006), and approximately 2% of these cells are active per theta cycle at a low firing rate (Csicsvari et al., 1999; Mizuseki et al., 2009). Therefore, ECIII cells could provide 5000 input spikes to ipsilateral CA1 (Equation 3).”
§ Interneuronal mechanisms of hippocampal theta oscillations in a full-scale model of the rodent CA1 circuit > Discussion > Emergence of theta oscillations from a biological data-driven, full-scale model of the CA1 network
What the sources say
Load-bearingStrength:hedged· not yet calibratedTests✓ Asserted: passes✓ Checkable: passes✓ Load-bearing: passes✓ Based: passesIt may state two separate claims as one.
A conclusion the paper draws from its own results — it cites no other source for it, so there is none to check. The quote shows it is in the paper.
In the paper
“Such a large conductance is not biologically realistic, indicating that the key role for GABAB synapses may be to allow the large synaptic charge transfer via a temporal distribution.”
§ Interneuronal mechanisms of hippocampal theta oscillations in a full-scale model of the rodent CA1 circuit > Discussion > Emergence of theta oscillations from a biological data-driven, full-scale model of the CA1 network
Tests✓ Asserted: passes✓ Checkable: passes✓ Load-bearing: passes✓ Based: passesIt may state two separate claims as one.
A conclusion the paper draws from its own results — it cites no other source for it, so there is none to check. The quote shows it is in the paper.
In the paper
“Therefore, about 37,750 spikes per theta cycle arrive from ipsilateral CA3 and entorhinal cortex to the CA1 network in vivo, which is reassuringly close to the our modeling results indicating that robust theta emerged when the CA1 network model received approximately 37,900 afferent spikes per theta cycle.”
§ Interneuronal mechanisms of hippocampal theta oscillations in a full-scale model of the rodent CA1 circuit > Discussion > Emergence of theta oscillations from a biological data-driven, full-scale model of the CA1 network
Tests✓ Asserted: passes✓ Checkable: passes✓ Load-bearing: passes✓ Based: passesIt may state two separate claims as one.
None of the sources cited for this claim have been checked yet.
In the paper
“In turn, phase preferential firing may aid information processing tasks by providing order and allowing multiple channels of information to be processed in parallel (Jensen and Lisman, 2000; Hasselmo et al., 2002; Womelsdorf et al., 2007; Schomburg et al., 2014; Jeewajee et al., 2014; Maris et al., 2016).”
§ Interneuronal mechanisms of hippocampal theta oscillations in a full-scale model of the rodent CA1 circuit > Discussion > Emergence of theta oscillations from a biological data-driven, full-scale model of the CA1 network
What the sources say
Strength:hedged· not yet calibratedCausal:conditional· not yet calibratedTests✓ Asserted: passes✓ Checkable: passes✗ Load-bearing: fails✓ Based: passesProbably not a substantial claim. The paper’s conclusions may not depend on it. It may state two separate claims as one.
A conclusion the paper draws from its own results — it cites no other source for it, so there is none to check. The quote shows it is in the paper.
In the paper
“potentially indicating the primary importance of pyramidal cell inputs in driving these interneurons to fire during theta oscillations under all conditions”
§ Interneuronal mechanisms of hippocampal theta oscillations in a full-scale model of the rodent CA1 circuit > Discussion > Rationale for bases of comparison between modeling results with experimental data
Strength:hedged· not yet calibratedCausal:direct· not yet calibratedTests✓ Asserted: passes✓ Checkable: passes✗ Load-bearing: fails✓ Based: passesProbably not a substantial claim. The paper’s conclusions may not depend on it.
None of the sources cited for this claim have been checked yet.
In the paper
“Indeed, the importance of GABAB receptors has also been indicated by a number of recent experimental studies, for example, in the modulation of theta and gamma oscillations (Kohl and Paulsen, 2010), setting of spike timing of neuron types during theta (Kohl and Paulsen, 2010), and playing a role in cortical oscillations and memory processes (Craig and McBain, 2014).”
§ Interneuronal mechanisms of hippocampal theta oscillations in a full-scale model of the rodent CA1 circuit > Discussion > Emergence of theta oscillations from a biological data-driven, full-scale model of the CA1 network
What the sources say
- Not checked yetcites Kohl and Paulsen, 2010
- Not checked yetcites Craig and McBain, 2014
Strength:hedged· not yet calibratedCausal:correlational· not yet calibratedTests✓ Asserted: passes✓ Checkable: passes✗ Load-bearing: fails✓ Based: passesProbably not a substantial claim. The paper’s conclusions may not depend on it. It may state two separate claims as one.
In the paper
“We previously estimated 204,700 pyramidal cells in ipsilateral CA3 (Bezaire and Soltesz, 2013), giving an estimated 32,750 spikes from ipsilateral CA3 per theta cycle (Equation 2).”
§ Interneuronal mechanisms of hippocampal theta oscillations in a full-scale model of the rodent CA1 circuit > Discussion > Emergence of theta oscillations from a biological data-driven, full-scale model of the CA1 network
What the sources say
- Not checked yetcites Bezaire and Soltesz, 2013 source
Tests✓ Asserted: passes✓ Checkable: passes✓ Load-bearing: passes✓ Based: passesIt may state two separate claims as one.
None of the sources cited for this claim have been checked yet.
In the paper
“The theta rhythm is thought to be important for organizing disparate memory tasks (Lisman and Idiart, 1995; Hasselmo et al., 2002; Hasselmo, 2005; Lisman and Jensen, 2013; Siegle and Wilson, 2014)”
§ Interneuronal mechanisms of hippocampal theta oscillations in a full-scale model of the rodent CA1 circuit > Discussion > Emergence of theta oscillations from a biological data-driven, full-scale model of the CA1 network
What the sources say
Strength:hedged· not yet calibratedCausal:conditional· not yet calibratedTests✓ Asserted: passes✓ Checkable: passes✗ Load-bearing: fails✓ Based: passesProbably not a substantial claim. The paper’s conclusions may not depend on it.
None of the sources cited for this claim have been checked yet.
In the paper
“a CA1 network which has evolved a predisposition to oscillate at theta and gamma frequencies may enable more efficient processing of the phasic input it receives in vivo (Akam and Kullmann, 2012; Fries, 2015).”
§ Interneuronal mechanisms of hippocampal theta oscillations in a full-scale model of the rodent CA1 circuit > Discussion > Emergence of theta oscillations from a biological data-driven, full-scale model of the CA1 network
What the sources say
Strength:hedged· not yet calibratedCausal:conditional· not yet calibratedTests✓ Asserted: passes✗ Checkable: fails✗ Load-bearing: fails✓ Based: passesProbably not a substantial claim. It may be too vague to check against evidence. The paper’s conclusions may not depend on it.
A conclusion the paper draws from its own results — it cites no other source for it, so there is none to check. The quote shows it is in the paper.
In the paper
“In addition, the simulations unexpectedly revealed that interneuronal diversity itself may also be important in theta generation, since conversion of all interneurons into fast spiking PV+ basket cells did not result in a network that was conducive for the emergence of theta, in spite of the key role of the PV+ basket cells in hippocampal oscillations.”
§ Interneuronal mechanisms of hippocampal theta oscillations in a full-scale model of the rodent CA1 circuit > Discussion > Emergence of theta oscillations from a biological data-driven, full-scale model of the CA1 network
Tests✓ Asserted: passes✓ Checkable: passes✓ Load-bearing: passes✓ Based: passesIt may state two separate claims as one.
- Rests on an assumption: The parameter space explored for low-diversity configurations is sufficient to conclude that interneuronal diversity is necessary for spontaneous theta oscillations.
In the paper
“The biological CA1 network receives most of its input from CA3 and entorhinal cortical layer III (ECIII), and it has been estimated that about 4% of CA3 pyramidal cells fire up to four spikes per theta wave (Gasparini and Magee, 2006).”
§ Interneuronal mechanisms of hippocampal theta oscillations in a full-scale model of the rodent CA1 circuit > Discussion > Emergence of theta oscillations from a biological data-driven, full-scale model of the CA1 network
What the sources say
- Not checked yetcites Gasparini and Magee, 2006
Load-bearingStrength:hedged· not yet calibratedTests✓ Asserted: passes✓ Checkable: passes✓ Load-bearing: passes✓ Based: passesIt may state two separate claims as one.
In the paper
“we have made freely available our custom software SimTracker (RRID:SCR_014735) that works with the model code to support each step of the modeling process”
§ Interneuronal mechanisms of hippocampal theta oscillations in a full-scale model of the rodent CA1 circuit > Discussion > An accessible approach to modeling that balances detail, scale, flexibility and performance
What the sources say
- Not checked yetcites Bezaire et al., 2016a
Strength:plain· not yet calibratedCausal:direct· not yet calibratedTests✓ Asserted: passes✓ Checkable: passes✗ Load-bearing: fails✓ Based: passesProbably not a substantial claim. The paper’s conclusions may not depend on it. It may state two separate claims as one.
A conclusion the paper draws from its own results — it cites no other source for it, so there is none to check. The quote shows it is in the paper.
In the paper
“it also plausible that both forms of theta benefit from occurring in a network that is predisposed to oscillate at the theta frequency, as the model network results suggested”
§ Interneuronal mechanisms of hippocampal theta oscillations in a full-scale model of the rodent CA1 circuit > Discussion > Rationale for bases of comparison between modeling results with experimental data
Strength:hedged· not yet calibratedCausal:conditional· not yet calibratedTests✓ Asserted: passes✓ Checkable: passes✗ Load-bearing: fails✓ Based: passesProbably not a substantial claim. The paper’s conclusions may not depend on it.
What the paper did — it cites no source for this, so there is none to check. The quote shows it is in the paper.
In the paper
“the model can be run on the Neuroscience Gateway, an online portal for accessing supercomputers that does not require technical knowledge of supercomputing”
§ Interneuronal mechanisms of hippocampal theta oscillations in a full-scale model of the rodent CA1 circuit > Discussion > An accessible approach to modeling that balances detail, scale, flexibility and performance
Load-bearingStrength:plain· not yet calibratedTests✓ Asserted: passes✓ Checkable: passes✓ Load-bearing: passes✓ Based: passesProbably not a substantial claim.
In the paper
“the latter requires intact, rhythmic cholinergic inputs”
§ Interneuronal mechanisms of hippocampal theta oscillations in a full-scale model of the rodent CA1 circuit > Discussion > Rationale for bases of comparison between modeling results with experimental data
What the sources say
- Not checked yetcites Kramis et al., 1975 source
Tests✓ Asserted: passes✓ Checkable: passes✓ Load-bearing: passes✓ Based: passesProbably not a substantial claim.
A conclusion the paper draws from its own results — it cites no other source for it, so there is none to check. The quote shows it is in the paper.
In the paper
“Such models are not subject to the connectivity scaling tradeoff wherein smaller networks have unrealistically low levels of input or unrealistically high connectivity between cells”
§ Interneuronal mechanisms of hippocampal theta oscillations in a full-scale model of the rodent CA1 circuit > Discussion > Conclusion and outlook
Load-bearingStrength:plain· not yet calibratedTests✓ Asserted: passes✓ Checkable: passes✓ Load-bearing: passes✗ Based: failsProbably not a substantial claim. The paper may give no reason why it holds.
A conclusion the paper draws from its own results — it cites no other source for it, so there is none to check. The quote shows it is in the paper.
In the paper
“Our previous model has demonstrated how the resource intensive process of designing a detailed, large-scale model is offset by its potential usage in numerous ways by a multitude of groups”
§ Interneuronal mechanisms of hippocampal theta oscillations in a full-scale model of the rodent CA1 circuit > Discussion > An accessible approach to modeling that balances detail, scale, flexibility and performance
Strength:boosted· not yet calibratedCausal:direct· not yet calibratedTests✓ Asserted: passes✗ Checkable: fails✗ Load-bearing: fails✓ Based: passesProbably not a substantial claim. It may be too vague to check against evidence. The paper’s conclusions may not depend on it.
A conclusion the paper draws from its own results — it cites no other source for it, so there is none to check. The quote shows it is in the paper.
In the paper
“It provides specific testable predictions that enable focused design of future experiments”
§ Interneuronal mechanisms of hippocampal theta oscillations in a full-scale model of the rodent CA1 circuit > Discussion > Conclusion and outlook
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None of the sources cited for this claim have been checked yet.
In the paper
“Previously, we built a dentate gyrus model to study epileptic network dynamics (Santhakumar et al., 2005; Morgan and Soltesz, 2008) that was then used by several groups to study disparate topics including epilepsy, network mechanisms of inhibition and excitability, simulation optimization, and modeling software”
§ Interneuronal mechanisms of hippocampal theta oscillations in a full-scale model of the rodent CA1 circuit > Discussion > An accessible approach to modeling that balances detail, scale, flexibility and performance
What the sources say
Strength:plain· not yet calibratedCausal:direct· not yet calibratedTests✓ Asserted: passes✓ Checkable: passes✗ Load-bearing: fails✓ Based: passesProbably not a substantial claim. The paper’s conclusions may not depend on it.
None of the sources cited for this claim have been checked yet.
In the paper
“there is an increasing recognition in neurobiology that we must compile our collective experimental observations of the brain into something more cohesive and synergistic than what is being conveyed in individual research articles”
§ Interneuronal mechanisms of hippocampal theta oscillations in a full-scale model of the rodent CA1 circuit > Discussion > Conclusion and outlook
What the sources say
Strength:plain· not yet calibratedTests✓ Asserted: passes✗ Checkable: fails✗ Load-bearing: fails✓ Based: passesProbably not a substantial claim. It may be too vague to check against evidence. The paper’s conclusions may not depend on it.
In the paper
“the former is typically associated with walking and may not be dependent on neuromodulatory inputs”
§ Interneuronal mechanisms of hippocampal theta oscillations in a full-scale model of the rodent CA1 circuit > Discussion > Rationale for bases of comparison between modeling results with experimental data
What the sources say
- Not checked yetcites Kramis et al., 1975 source
Tests✓ Asserted: passes✓ Checkable: passes✓ Load-bearing: passes✓ Based: passesProbably not a substantial claim. It may state two separate claims as one.
What the paper did — it cites no source for this, so there is none to check. The quote shows it is in the paper.
In the paper
“The model is public, well documented, and also well characterized in experimentally relevant terms”
§ Interneuronal mechanisms of hippocampal theta oscillations in a full-scale model of the rodent CA1 circuit > Discussion > An accessible approach to modeling that balances detail, scale, flexibility and performance
Strength:boosted· not yet calibratedTests✓ Asserted: passes✓ Checkable: passes✗ Load-bearing: fails✓ Based: passesProbably not a substantial claim. The paper’s conclusions may not depend on it. It may state two separate claims as one.
A conclusion the paper draws from its own results — it cites no other source for it, so there is none to check. The quote shows it is in the paper.
In the paper
“These comprehensive databases create the opportunity to build strongly biology-inspired models of entire networks, with all the cells and synapses explicitly represented”
§ Interneuronal mechanisms of hippocampal theta oscillations in a full-scale model of the rodent CA1 circuit > Discussion > Conclusion and outlook
Strength:boosted· not yet calibratedCausal:direct· not yet calibratedTests✓ Asserted: passes✗ Checkable: fails✗ Load-bearing: fails✓ Based: passesProbably not a substantial claim. It may be too vague to check against evidence. The paper’s conclusions may not depend on it.
What the paper did — it cites no source for this, so there is none to check. The quote shows it is in the paper.
In the paper
“The behavior of each cell type was characterized using a current injection sweep that matched experimental conditions reported in the literature”
§ Interneuronal mechanisms of hippocampal theta oscillations in a full-scale model of the rodent CA1 circuit > Materials and methods > Model development
Strength:plain· not yet calibratedTests✓ Asserted: passes✓ Checkable: passes✗ Load-bearing: fails✓ Based: passesProbably not a substantial claim. The paper’s conclusions may not depend on it.
In the paper
“the in vivo theta rhythm has been reported to be either atropine resistant or atropine sensitive”
§ Interneuronal mechanisms of hippocampal theta oscillations in a full-scale model of the rodent CA1 circuit > Discussion > Rationale for bases of comparison between modeling results with experimental data
What the sources say
- Not checked yetcites Kramis et al., 1975 source
Load-bearingStrength:hedged· not yet calibratedTests✓ Asserted: passes✓ Checkable: passes✓ Load-bearing: passes✓ Based: passesProbably not a substantial claim.
What the paper did — it cites no source for this, so there is none to check. The quote shows it is in the paper.
In the paper
“To ensure the model cells exhibited robust biophysical behavior in a wide range of network conditions, we implemented a standard, thorough characterization strategy for each cell type”
§ Interneuronal mechanisms of hippocampal theta oscillations in a full-scale model of the rodent CA1 circuit > Materials and methods > Model development
Strength:plain· not yet calibratedCausal:direct· not yet calibratedTests✓ Asserted: passes✓ Checkable: passes✗ Load-bearing: fails✓ Based: passesProbably not a substantial claim. The paper’s conclusions may not depend on it.
A conclusion the paper draws from its own results — it cites no other source for it, so there is none to check. The quote shows it is in the paper.
In the paper
“We developed a flexible and biologically relevant model that uses computational resources efficiently”
§ Interneuronal mechanisms of hippocampal theta oscillations in a full-scale model of the rodent CA1 circuit > Discussion > An accessible approach to modeling that balances detail, scale, flexibility and performance
Load-bearingStrength:plain· not yet calibratedTests✓ Asserted: passes✓ Checkable: passes✓ Load-bearing: passes✓ Based: passesProbably not a substantial claim. It may state two separate claims as one.
What the paper did — it cites no source for this, so there is none to check. The quote shows it is in the paper.
In the paper
“The published experimental data were compared side-by-side with model cell simulation results”
§ Interneuronal mechanisms of hippocampal theta oscillations in a full-scale model of the rodent CA1 circuit > Materials and methods > Model development
Strength:plain· not yet calibratedCausal:correlational· not yet calibratedTests✓ Asserted: passes✓ Checkable: passes✗ Load-bearing: fails✓ Based: passesProbably not a substantial claim. The paper’s conclusions may not depend on it.
What the paper did — it cites no source for this, so there is none to check. The quote shows it is in the paper.
In the paper
“We performed reference simulations and LFP analog calculations with the inner radius set to 200 μm and 500 μm and obtained results identical with those in Figures 3 and 4 (where an inner radius of 100 μm was used), except for negligible increases in the theta oscillation power found in the LFP analog spectrogram”
§ Interneuronal mechanisms of hippocampal theta oscillations in a full-scale model of the rodent CA1 circuit > Materials and methods > LFP analog
Strength:plain· not yet calibratedTests✓ Asserted: passes✓ Checkable: passes✗ Load-bearing: fails✓ Based: passesProbably not a substantial claim. The paper’s conclusions may not depend on it.
What the paper did — it cites no source for this, so there is none to check. The quote shows it is in the paper.
In the paper
“the stimulation patterns used in the present study were not representative of the information content thought to be carried via inputs from those areas”
§ Interneuronal mechanisms of hippocampal theta oscillations in a full-scale model of the rodent CA1 circuit > Materials and methods > Stimulation
Load-bearingStrength:plain· not yet calibratedTests✓ Asserted: passes✓ Checkable: passes✓ Load-bearing: passes✓ Based: passesProbably not a substantial claim.
The paper relies on this without support.
The CA1 area is one of the most extensively studied brain regions, with abundant anatomical and electrophysiological data about its organization.
“Because the CA1 area is one of the most extensively studied brain regions, there are abundant anatomical and electrophysiological data about its organization, making it a logical choice for the development of a full-scale model.”
The paper relies on this without support.
The model parameters that could not be constrained by experimental data do not critically affect the model's conclusions.
“In addition, the remaining parameters that could not be constrained by experimental data were documented, with the assumptions used to arrive at them explicitly listed in Table 2 of Bezaire and Soltesz (2013) and additional parameter calculations described in the Appendix of the present paper, section 'Inhibitory connectivity'.”
The paper relies on this without support.
The missing 30% of interneurons do not qualitatively alter the generation of theta oscillations in the model.
“The remaining 30% of the interneurons were not included in the model due to paucity of quantitative data (Bezaire and Soltesz, 2013).”
The paper relies on this without support.
The experimental phase preferences from anesthetized rats are comparable to the model's conditions.
“Firing probability by cell type as a function of theta phase for (A) model and (B) experimental cells under anesthesia (histograms adapted with permission from Figure 2, Figure 5B left, and Figure 6F respectively from Klausberger and Somogyi, 2008; Fuentealba et al., 2008; Fuentealba et al., 2010).”
The paper relies on this without support.
The phase preferences of interneurons in anesthetized animals are comparable to those in the model's conditions for the purpose of validating the model.
“because no data are available on the phase preferential firing of morphologically identified interneurons from the isolated CA1 preparation, comparison is made here with results from anesthetized animals, from which the most complete data sets are available”
The paper relies on this without support.
The parameter space explored for low-diversity configurations is sufficient to conclude that interneuronal diversity is necessary for spontaneous theta oscillations.
“While we could not rule out a hypothetical theta regime somewhere in the parameter space of such low-diversity configurations, any theta solution space would likely be smaller and more elusive than we were able to determine in the control configuration (Figure 6A).”
The paper relies on this without support.
The phase of LFP theta recorded in the stratum radiatum is approximately 180 degrees out of phase with the pyramidal cell layer theta used in this paper.
“note that Ferguson and colleagues used LFP theta recorded in the stratum radiatum as reference, which is approximately 180 degrees out of phase with the pyramidal cell layer theta used in this paper”
The paper relies on this without support.
Model neurons sometimes behave much differently than expected when subjected to current sweep protocols or synaptic inputs that are outside the range of the original protocols used to construct the model.
“Model neurons sometimes behave much differently than expected when subjected to current sweep protocols or synaptic inputs that are outside the range of the original protocols used to construct the model”
The authors state this as an assumption.
All available incoming inhibitory synapses onto interneurons in a layer have an equal chance of being innervated by the available inhibitory boutons targeting interneurons in that layer.
“All available incoming inhibitory synapses onto interneurons in a layer have an equal chance of being innervated by the available inhibitory boutons targeting interneurons in that layer”
The paper relies on this without support.
There is no reported evidence for major, systematic differences in key parameters such as the phase specific firing of rat and mouse interneurons in vivo.
“there is no reported evidence for major, systematic differences in key parameters such as the phase specific firing of rat and mouse interneurons in vivo”
Claims other papers make about this one
Each is checked against this paper’s own text: does it say what the citing paper says it does?
The cited source says what the claim attributes to it.
In the citing paper
“Fast-spiking (FS) CA1 interneurons (classically referred to as “theta cells”53) have been mechanistically linked to the emergence of the LFP theta rhythm and the entrainment of pyramidal neurons in the hippocampus42,54–56.”
From Place and behavioral modulation of hippocampal neurons during immobility (2026) · cites this paper as [54]
Citations
Cites
Memory and the hippocampus: A synthesis from findings with rats, monkeys, and humans.
Squire, L. R. (1992) · Psychological Review · doi:10.1037/0033-295x.99.2.195 · Cited by 5,376
The origin of extracellular fields and currents — EEG, ECoG, LFP and spikes
Buzsáki, G., Anastassiou, C. A., & Koch, C. (2012) · Nature Reviews Neuroscience · doi:10.1038/nrn3241 · Cited by 4,225
Theta oscillations in the hippocampus
Buzsáki, G. (2002) · Neuron · doi:10.1016/s0896-6273(02)00586-x · Cited by 3,332
Beta-band oscillations—Signalling the status quo?
Engel, A. K., & Fries, P. (2010) · Current Opinion in Neurobiology · doi:10.1016/j.conb.2010.02.015 · Cited by 2,953
Rhythms for cognition: communication through coherence
Fries, P. (2015) · Neuron · doi:10.1016/j.neuron.2015.09.034 · Cited by 2,725
Neuronal Diversity and Temporal Dynamics: The Unity of Hippocampal Circuit Operations
Klausberger, T., & Somogyi, P. (2008) · Science · doi:10.1126/science.1149381 · Cited by 2,050
Place Cells, Grid Cells, and the Brain's Spatial Representation System
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Memory, navigation and theta rhythm in the hippocampal-entorhinal system
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Lisman, J. E., & Jensen, O. (2013) · Neuron · doi:10.1016/j.neuron.2013.03.007 · Cited by 1,609
Reconstruction and Simulation of Neocortical Microcircuitry
Markram, H., Muller, E., Ramaswamy, S., Reimann, M. W., Abdellah, M., Sanchez, C. A., Ailamaki, A., Alonso-Nanclares, L., Antille, N., Arsever, S., et al. (2015) · Cell · doi:10.1016/j.cell.2015.09.029 · Cited by 1,557
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Illuminating dendritic function with computational models
Poirazi, P., & Papoutsi, A. (2020) · Nature reviews. Neuroscience · doi:10.1038/s41583-020-0301-7 · Cited by 313
Inhibitory Interneurons Regulate Temporal Precision and Correlations in Cortical Circuits
Cardin, J. A. (2018) · Trends in Neurosciences · doi:10.1016/j.tins.2018.07.015 · Cited by 254
Turi, G. F., Li, W.-K., Chavlis, S., Pandi, I., O’Hare, J., Priestley, J. B., Grosmark, A. D., Liao, Z., Ladow, M., Zhang, J. F., et al. (2019) · Neuron · doi:10.1016/j.neuron.2019.01.009 · Cited by 218
Breakdown of spatial coding and interneuron synchronization in epileptic mice
Shuman, T., Aharoni, D. B., Cai, D. J., Lee, C. R., Chavlis, S., Page-Harley, L., Vetere, L. M., Feng, Y., Yang, C. Y., Mollinedo-Gajate, I., et al. (2020) · Nature Neuroscience · doi:10.1038/s41593-019-0559-0 · Cited by 198
The Neurodata Without Borders ecosystem for neurophysiological data science
Rübel, O., Tritt, A., Ly, R., Dichter, B., Ghosh, S., Niu, L., Baker, P. M., Soltész, I., Ng, L., Svoboda, K., et al. (2022) · eLife · doi:10.7554/elife.78362 · Cited by 201
Metadata
- Authors
- Bezaire, M. J., Raikov, I., Burk, K., Vyas, D., & Soltesz, I.
- Affiliations
- University of California, Irvine (US)
- Department of Neurosurgery, Stanford University, Stanford, United States
- Venue
- eLife
- Publisher
- eLife Sciences Publications, Ltd
- Published
- 2016-12-23
- Volume
- 5
- ISSN
- 2050-084X (ISSN-L)
- PMC
- PMC5313080
- OpenAlex
- W2561068888
- Semantic Scholar
- bf83b20cd9cedc55b96997bba3dd31b6cb9f1231
- Cited by
- 198
- References
- 160
- Citations by year
- 2026: 8 · 2025: 16 · 2024: 27 · 2023: 26 · 2022: 32 · 2021: 25 · 2020: 15 · 2019: 28 · 2018: 15 · 2017: 5 · 2016: 1
- FWCI
- 10.39
- Type
- journal article
- Language
- en
- Open access
- gold
- doi.org
- Licence
- Locations
- eLife (publishedVersion, cc-by)
- bioRxiv (Cold Spring Harbor Laboratory) (acceptedVersion, cc-by)
- Europe PMC (PubMed Central) (publishedVersion, cc-by)
- PubMed Central (publishedVersion, cc-by)
- PubMed (publishedVersion)
- DOAJ (DOAJ: Directory of Open Access Journals) (submittedVersion, cc-by-sa)
- Funders
- National Institutes of Health (F32NS090753, NS35915, NS090583)
- National Science Foundation (DGE-0808392, XSEDE Allocations - TG-IBN140007, XSEDE Allocations - TG-IBN130022, XSEDE Allocations - TG-IBN100011, IOS-1310378)
- Topics
- Life Sciences › Neuroscience › Cognitive Neuroscience › Neural dynamics and brain function
- Life Sciences › Neuroscience › Cognitive Neuroscience › Memory and Neural Mechanisms
- Life Sciences › Neuroscience › Cellular and Molecular Neuroscience › Neuroscience and Neuropharmacology Research
- Keywords
- hippocampal theta rhythm, interneurons, parvalbumin interneurons, neurogliaform cells, gamma oscillations, phase locking, computational neuroscience, spontaneous oscillations
- MeSH terms
- Animals, Interneurons, Neuroglia, Theta Rhythm, Neural Networks, Computer, Mice, Rats, CA1 Region, Hippocampal, Spatio-Temporal Analysis
About these checks
Registry, retraction, Cites and statistics results are computed, not judged, with one exception: a printed reference that no index lists is read once by a model before it counts as a citation error. Claims are extracted by a model and kept only when their quote appears verbatim in the text; each cited source is then checked, with a model’s help, for whether it says what the claim relies on. Those verdicts can be wrong — read the claim’s quote and the cited source before relying on one.
A language model drew the claims from the paper on 2026-10-09, under version 3 of the claim definition (model deepseek-v4.1-flash, prompt extract-v3).
A second model labelled each claim on 2026-10-09 (model jev-1.13-20260917, definition revision gold-guideline-v0.2).
Statistics and arithmetic are recomputed, not judged.
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