The DOI matches its Crossref record; 47 of the 47 references it cites were found in a registry or an index; 1 of the 24 sources its claims cite were checked for support.
Developmental diversification of cortical inhibitory interneurons
Open accessPublished version of a preprint
Abstract
Diverse subsets of cortical interneurons have vital roles in higher-order brain functions. To investigate how this diversity is generated, here we used single-cell RNA sequencing to profile the transcriptomes of mouse cells collected along a developmental time course. Heterogeneity within mitotic progenitors in the ganglionic eminences is driven by a highly conserved maturation trajectory, alongside eminence-specific transcription factor expression that seeds the emergence of later diversity. Upon becoming postmitotic, progenitors diverge and differentiate into transcriptionally distinct states, including an interneuron precursor state. By integrating datasets across developmental time points, we identified shared sources of transcriptomic heterogeneity between adult interneurons and their precursors, and uncovered the embryonic emergence of cardinal interneuron subtypes. Our analysis revealed that the transcription factor Mef2c, which is linked to various neuropsychiatric and neurodevelopmental disorders, delineates early precursors of parvalbumin-expressing neurons, and is essential for their development. These findings shed new light on the molecular diversification of early inhibitory precursors, and identify gene modules that may influence the specification of human interneuron subtypes.
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57 Own result · 16 Not checked yet · 14 Own interpretation · 5 Own method · 1 Couldn’t confirm · 1 No basis given · accuracy not yet measured
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“Heterogeneity within mitotic progenitors in the ganglionic eminences is driven by a highly conserved maturation trajectory, alongside eminence-specific transcription factor expression that seeds the emergence of later diversity.”
- Also stated in: § Introduction · plain
“Within mitotic progenitors, we found a highly conserved maturation trajectory, accompanied by eminence-specific transcription factor expression that seeds the emergence of later cell diversity.”
§ Developmental diversification of cortical inhibitory interneurons > Abstract
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- Also stated in: § Introduction · plain
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In the paper
“Upon becoming postmitotic, progenitors diverge and differentiate into transcriptionally distinct states, including an interneuron precursor state.”
§ Developmental diversification of cortical inhibitory interneurons > Abstract
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In the paper
“Our analysis revealed that the ASD-associated transcription factor Mef2c delineates early Pvalb-precursors, and is essential for their development.”
- Also stated in: § Diversity emerges from a common precursor state · plain
“the transcription factor Mef2c was among the genes discriminating early Pvalb-precursors from other MGE-derived interneuron types”
§ Developmental diversification of cortical inhibitory interneurons > Abstract
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- Also stated in: § Diversity emerges from a common precursor state · plain
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In the paper
“conditional deletion of Mef2c in inhibitory neurons led to a specific loss of Pvalb-interneurons by P20 in cortical layers 2-6”
§ Developmental diversification of cortical inhibitory interneurons > RESULTS > Diversity emerges from a common precursor state
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In the paper
“when we performed the unsupervised branching analysis only in mitotic progenitors, we found no evidence for the specification of distinct interneuron fates”
§ Developmental diversification of cortical inhibitory interneurons > RESULTS > Transcriptional profiling of GE cells
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“a second group of branches (i.e. precursor state 2) expressed known projection neuron marker genes (i.e. Isl1, Ebf1; Fig. 3E; Supplementary Table 4)”
§ Developmental diversification of cortical inhibitory interneurons > RESULTS > Transcriptional profiling of GE cells
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In the paper
“we performed a differential expression analysis and found a small number of transcription factors enriched in mitotic progenitors within particular eminences”
§ Developmental diversification of cortical inhibitory interneurons > RESULTS > Transcriptional profiling of GE cells
plaincorrelational- Asserted: passes — The authors put it forward as true.
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In the paper
“As expected, neurons born at these sequential timepoints were distributed progressively along the MT timeline (Fig. 1H, Extended Data Fig. 1).”
§ Developmental diversification of cortical inhibitory interneurons > RESULTS > Transcriptional profiling of GE cells
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In the paper
“we found that, as expected20, more than 80% of Dlx6a-Cre fate mapped cortical cells at E18.5 mapped to precursor state 1, based on their expression of canonical regulators of interneuron development”
§ Developmental diversification of cortical inhibitory interneurons > RESULTS > Diversity emerges from a common precursor state
What the sources say
- Not checked yetcites [20] Wichterle, H ., Turnbull, D. H ., Nery, S ., Fishell, G. & Alvarez-Buylla, A. In utero fate mapping reveals distinct migratory pathways and fates of neurons born in the mammalian basal forebrain. Development 128, 3759–3771 (2001) source
plaincorrelational- Asserted: passes — The authors put it forward as true.
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In the paper
“even though branched trajectories for each eminence were calculated independently, branch gene expression markers were highly correlated across eminences”
§ Developmental diversification of cortical inhibitory interneurons > RESULTS > Transcriptional profiling of GE cells
plaincorrelational- Asserted: passes — The authors put it forward as true.
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- It may state two separate claims as one. 33
- Probably not a substantial claim. 9
The cited sources that could be checked couldn’t confirm or dispute this claim.
In the paper
“The trend overall shows that genes with peak expression at low MS tend to have higher expression in the VZ, and as MS rank increases the expression pattern shifts to the subventricular zone (SVZ) and then to the MZ”
§ Developmental diversification of cortical inhibitory interneurons > Extended Data
What the sources say
- Could not verifycites [31] Madisen, L. et al. A robust and high-throughput Cre reporting and characterization system for the whole mouse brain. Nat. Neurosci. 13, 133–140 (2010) sourceExperimental — accuracy not yet measured
The Results sections on Cre recombination patterns and fluorescent labeling discuss reporter-gene expression in mouse brain regions, not gene expression ranked by maturation score. Searches for maturation score and the ventricular, subventricular, and mantle zones found no passage addressing the claimed VZ-to-SVZ-to-MZ shift. (LLM, conf=0.75)
plaincorrelational- Asserted: passes — The authors put it forward as true.
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It may state two separate claims as one.
- Could not verify
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
“By integrating datasets across developmental timepoints, we identified shared sources of transcriptomic heterogeneity between adult interneurons and their precursors, revealing the embryonic emergence of interneuron cardinal subtypes.”
§ Developmental diversification of cortical inhibitory interneurons > Abstract
plaincorrelational- Asserted: passes — The authors put it forward as true.
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It 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
“the number of conserved DE genes grow over time. Same analysis for Pvalb vs. Sst subsets (Middle), and Vip vs. Id2 subsets (Right).”
§ Developmental diversification of cortical inhibitory interneurons > Extended Data
plaincorrelational- Asserted: passes — The authors put it forward as true.
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It 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
“Developmental progression and cell cycle were the primary sources of transcriptional variance in these progenitors (Supplementary Methods), with maturation proportionally explaining six-fold more variance compared to eminence-of-origin”
§ Developmental diversification of cortical inhibitory interneurons > RESULTS > Transcriptional profiling of GE cells
plaindirect- Asserted: passes — The authors put it forward as true.
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It 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
“Genetic fate mapping using Lhx8-Cre/cerulean demonstrates that MGE branch three precursors give rise to the entire breadth of cholinergic projection (Globus Pallidus and Nucleus Basalis) and interneuron (striatum) populations.”
§ Developmental diversification of cortical inhibitory interneurons > Extended Data
boosteddirect- Asserted: passes — The authors put it forward as true.
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It 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
“Mitotic cells fall within a homogeneous point cloud, with low variance on PC1 and PC2, showing no evidence of fate bifurcation.”
§ Developmental diversification of cortical inhibitory interneurons > Extended Data
plain- Asserted: passes — The authors put it forward as true.
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It 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
“the vast majority of Dlx6a-Cre;RCEloxP positive E18.5 cortical cells map to the interneuron precursor state, and are split between MGE and CGE-derived precursors.”
§ Developmental diversification of cortical inhibitory interneurons > Extended Data
plain- Asserted: passes — The authors put it forward as true.
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It 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
“The cumulative longitudinal use of a constitutive Cre driver also results in extensive labeling of cortical interneurons due to transient expression within this population.”
§ Developmental diversification of cortical inhibitory interneurons > Extended Data
plaindirect- Asserted: passes — The authors put it forward as true.
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Probably not a substantial claim. The paper’s conclusions may not depend on it.
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
“By E18, all cardinal types of interneurons could be identified, and additional subtypes appeared to be transcriptionally specified as well”
§ Developmental diversification of cortical inhibitory interneurons > RESULTS > Diversity emerges from a common precursor state
hedged- Asserted: passes — The authors put it forward as true.
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It 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
“In-situ hybridization (ISH) confirmed that these waves describe the sequential expression of stem-cell (e.g. Nes), proneural (e.g., Ascl1), and neurogenic genes (e.g. Dcx; Fig. 2C), roughly correlating with the spatiotemporal progression from the VZ to the mantle zone (MZ)”
§ Developmental diversification of cortical inhibitory interneurons > RESULTS > Transcriptional profiling of GE cells
plaincorrelational- Asserted: passes — The authors put it forward as true.
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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
“Of all cells, 3,432 GABAergic interneurons were easily identified by the expression of Gad1 and depletion of Slc17a7, and were selected for downstream analysis.”
§ Developmental diversification of cortical inhibitory interneurons > Extended Data
plain- Asserted: passes — The authors put it forward as true.
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Probably not a substantial claim.
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 third group of branches (i.e. precursor state 3) exhibited weaker correlation across eminences, with the transcription factor Lhx8 representing a marker gene for the MGE Branch 3”
§ Developmental diversification of cortical inhibitory interneurons > RESULTS > Transcriptional profiling of GE cells
plaincorrelational- Asserted: passes — The authors put it forward as true.
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It 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
“Integrated analysis with the P56 dataset results in clearer separation, and enables us to map developmental precursors to adult subtypes.”
§ Developmental diversification of cortical inhibitory interneurons > Extended Data
boosteddirect- Asserted: passes — The authors put it forward as true.
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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
“Based on this alignment, P10 cells exhibited strong evidence of transcriptomic separation beyond cardinal types, (Fig. 4B), including clear segregation between Sst Martinotti versus non-Martinotti (X94), Vip bipolar versus multipolar, and Id2 neurogliaform versus non-neurogliaform interneuron subtypes”
§ Developmental diversification of cortical inhibitory interneurons > RESULTS > Diversity emerges from a common precursor state
boostedcorrelational- Asserted: passes — The authors put it forward as true.
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In the paper
“We first observed evidence of clear fate bifurcations as cells become postmitotic, and precursors from all GEs branched into distinct precursor states”
§ Developmental diversification of cortical inhibitory interneurons > RESULTS > Transcriptional profiling of GE cells
boostedcorrelational- Asserted: passes — The authors put it forward as true.
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In the paper
“we identified rare populations that did not express canonical interneuron (IN) markers, likely representing false positives from FACS.”
§ Developmental diversification of cortical inhibitory interneurons > Extended Data
hedgedconditional- Asserted: passes — The authors put it forward as true.
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It 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
“tSNE visualization and graph-based clustering of the 3,432 GABAergic cells reveals 14 clusters, which could be broadly grouped into cardinal types based on the expression of canonical markers”
§ Developmental diversification of cortical inhibitory interneurons > Extended Data
hedgedcorrelational- Asserted: passes — The authors put it forward as true.
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It 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
“While we did observe computational evidence of branching, this does not represent fate bifurcations as we observed in postmitotic cells.”
§ Developmental diversification of cortical inhibitory interneurons > Extended Data
plain- Asserted: passes — The authors put it forward as true.
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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
“we observed a separation of Pvalb- and Sst-precursor cells within the E13.5 postmitotic populations (Fig. 4D), and identified transcriptomic markers that were conserved into adulthood”
§ Developmental diversification of cortical inhibitory interneurons > RESULTS > Diversity emerges from a common precursor state
plaincorrelational- Asserted: passes — The authors put it forward as true.
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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
“branching trajectories represented the most significant source of variation in these cells, with an increasing contribution attributable to eminence of origin compared to mitotic progenitors”
§ Developmental diversification of cortical inhibitory interneurons > RESULTS > Diversity emerges from a common precursor state
plaincorrelational- Asserted: passes — The authors put it forward as true.
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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
“A minority of E13.5 cells also mapped to Vip and Id2 subsets, but conserved transcriptomic markers did not pass statistical significance until E18.5”
§ Developmental diversification of cortical inhibitory interneurons > RESULTS > Diversity emerges from a common precursor state
plain- Asserted: passes — The authors put it forward as true.
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None of the sources cited for this claim have been checked yet.
In the paper
“Genetic ‘fate-mapping’ using Lhx8-Cre suggested that these neurons account for the majority, if not all of the cholinergic projection and interneuron populations within the nucleus basalis, medial septum, and striatum, respectively, as well as the majority of Pvalb-positive projection neurons in the globus pallidus5,6”
§ Developmental diversification of cortical inhibitory interneurons > RESULTS > Transcriptional profiling of GE cells
What the sources say
- Not checked yetcites [5] Nóbrega-Pereira, S . et al. Origin and molecular specification of globus pallidus neurons. J. Neurosci. 30, 2824–2834 (2010) source
- Not checked yetcites [6] Zhao, Y . et al. The LIM-homeobox gene Lhx8 is required for the development of many cholinergic neurons in the mouse forebrain. Proc. Natl Acad. Sci. USA 100, 9005–9010 (2003) source
hedgedcorrelational- Asserted: passes — The authors put it forward as true.
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It 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
“These components reflect our previously defined maturation trajectory, with DMC1 separating mitotic cells (left).”
§ Developmental diversification of cortical inhibitory interneurons > Extended Data
plaincorrelational- Asserted: passes — The authors put it forward as true.
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It 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
“Our Lhx6-GFP-negative dataset contains both mitotic and postmitotic cells from the CGE and diffusion map analysis shows our previously defined maturation trajectory.”
§ Developmental diversification of cortical inhibitory interneurons > Extended Data
plain- Asserted: passes — The authors put it forward as true.
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- Load-bearing: unclear — It is unclear whether the paper’s conclusions depend on it.
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It may state two separate claims as one.
In the paper
“the clear emergence of Sst, Vip and Id2 subtypes was apparent for a subset of cells at E18.5 (Extended Data Figure 8), but we were unable to clearly subdivide Pvalb neurons by P10, in accordance with their late maturation28.”
§ Developmental diversification of cortical inhibitory interneurons > RESULTS > Diversity emerges from a common precursor state
What the sources say
- Not checked yetcites [28] Harrington, A. J . et al. MEF2C regulates cortical inhibitory and excitatory synapses and behaviors relevant to neurodevelopmental disorders. eLife 5, 140 (2016) source
boosted- Asserted: passes — The authors put it forward as true.
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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
“Diffusion map analysis of these cells returned only two significant principal components, with no evidence of further structure.”
§ Developmental diversification of cortical inhibitory interneurons > Extended Data
plain- Asserted: passes — The authors put it forward as true.
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It 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
“observed that MT recapitulated known dynamics associated with neuronal maturation (Fig. 1E) while also segregating GE cells into ‘mitotic’ and ‘postmitotic’ phases”
§ Developmental diversification of cortical inhibitory interneurons > RESULTS > Transcriptional profiling of GE cells
plaincorrelational- Asserted: passes — The authors put it forward as true.
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It may state two separate claims as one.
In the paper
“This diverse group of neurons is developmentally derived from progenitors residing in embryonic proliferative zones known as the medial, caudal and lateral ganglionic eminences (MGE, CGE, LGE, respectively)1.”
§ Developmental diversification of cortical inhibitory interneurons > Introduction
What the sources say
- Not checked yetcites [1] Kepecs, A. & Fishell, G. Interneuron cell types are fit to function. Nature 505, 318–326 (2014) source
plaindirect- Asserted: passes — The authors put it forward as true.
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- Load-bearing: fails — The paper’s conclusions may not depend on it.
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Probably not a substantial claim. The paper’s conclusions may not depend on it.
In the paper
“The MGE and CGE are known to produce non-overlapping types of cortical interneurons16.”
§ Developmental diversification of cortical inhibitory interneurons > RESULTS > Transcriptional profiling of GE cells
What the sources say
- Not checked yetcites [16] Rudy, B ., Fishell, G ., Lee, S. & Hjerling-Leffler, J. Three groups of interneurons account for nearly 100% of neocortical GABAergic neurons. Dev. Neurobiol. 71, 45–61 (2011) source
boosted- Asserted: passes — The authors put it forward as true.
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Probably 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
“Supplementing these more general programs are the eminence-specific genes that, for example, may direct the axons of parvalbumin cortical interneurons to form perisomal baskets and the efferents of somatostatin cortical interneurons to reliably target dendrites.”
§ Developmental diversification of cortical inhibitory interneurons > DISCUSSION
hedgedconditional- Asserted: passes — The authors put it forward as true.
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Probably not a substantial claim. The paper’s conclusions may not depend on it. The paper may give no reason why it holds. It may state two separate claims as one.
In the paper
“Cells expressing both genes are likely projection neuron precursors that have recently been described in the CGE21, but whose progeny is not captured in the mouse visual cortex dataset.”
§ Developmental diversification of cortical inhibitory interneurons > Extended Data
What the sources say
- Not checked yetcites [21] Frazer, S . et al. Transcriptomic and anatomic parcellation of 5-HT3AR expressing cortical interneuron subtypes revealed by single-cell RNA sequencing. Nat. Commun. 8, 14219 (2017) source
hedged- Asserted: passes — The authors put it forward as true.
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It may state two separate claims as one.
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In the paper
“To avoid the possibility of FACS false negative MGE cells contaminating our Lhx6-GFP-negative dataset, we clustered the postmitotic cells from this dataset, and filtered out three rare clusters where Lhx6 mRNA expression was detected in more than 20% of cells”
§ Developmental diversification of cortical inhibitory interneurons > Extended Data
plaindirect- Asserted: passes — The authors put it forward as true.
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Probably not a substantial claim. It may state two separate claims as one.
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In the paper
“We manually dissected the embryonic day (E)13.5 MGE or E14.5 CGE and LGE from wild type mouse embryos, timepoints corresponding to peak neurogenesis in these structures7,8”
§ Developmental diversification of cortical inhibitory interneurons > RESULTS > Transcriptional profiling of GE cells
What the sources say
- Not checked yetcites [7] Inan, M ., Welagen, J. & Anderson, S. A. Spatial and temporal bias in the mitotic origins of somatostatin- and parvalbumin-expressing interneuron subgroups and the chandelier subtype in the medial ganglionic eminence. Cereb. Cortex 22, 820–827 (2012) source
- Not checked yetcites [8] Miyoshi, G . et al. Genetic fate mapping reveals that the caudal ganglionic eminence produces a large and diverse population of superficial cortical interneurons. J. Neurosci. 30, 1582–1594 (2010) source
plaincorrelational- Asserted: passes — The authors put it forward as true.
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Probably not a substantial claim. 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
“Thus, our data reveal how postmitotic pan-eminence transcriptional programs (precursor states) emerge, and in parallel, eminence-specific transcriptional programs escalate.”
§ Developmental diversification of cortical inhibitory interneurons > RESULTS > Diversity emerges from a common precursor state
boostedcorrelational- Asserted: passes — The authors put it forward as true.
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In the paper
“Genome-wide association studies have linked mutations in this gene to Alzheimer’s, schizophrenia, and other neurodevelopmental disorders29.”
§ Developmental diversification of cortical inhibitory interneurons > RESULTS > Diversity emerges from a common precursor state
What the sources say
- Not checked yetcites [29] Habib, N . et al. Massively parallel single-nucleus RNA-seq with DroNc-seq. Nat. Methods 14, 955–958 (2017) source
plaincorrelational- Asserted: passes — The authors put it forward as true.
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Probably not a substantial claim. The paper’s conclusions may not depend on it.
In the paper
“These cells have been recently described as being present in the cortical white matter and likely represent projection neuron precursors21.”
§ Developmental diversification of cortical inhibitory interneurons > Extended Data
What the sources say
- Not checked yetcites [21] Frazer, S . et al. Transcriptomic and anatomic parcellation of 5-HT3AR expressing cortical interneuron subtypes revealed by single-cell RNA sequencing. Nat. Commun. 8, 14219 (2017) source
hedgedcorrelational- Asserted: passes — The authors put it forward as true.
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- Load-bearing: fails — The paper’s conclusions may not depend on it.
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Probably not a substantial claim. The paper’s conclusions may not depend on it. It may state two separate claims as one.
None of the sources cited for this claim have been checked yet.
In the paper
“We performed latent variable regression to mitigate heterogeneity resulting from cell-cycle state10,11 (Extended Data Fig. 1), preventing subsequent analysis from being dominated by mitotic phase-specific gene expression”
§ Developmental diversification of cortical inhibitory interneurons > RESULTS > Transcriptional profiling of GE cells
What the sources say
- Not checked yetcites [10] Buettner, F . et al. Computational analysis of cell-to-cell heterogeneity in single-cell RNA-sequencing data reveals hidden subpopulations of cells. Nat. Biotechnol. 33, 155–160 (2015) source
- Not checked yetcites [11] Tirosh, I . et al. Dissecting the multicellular ecosystem of metastatic melanoma by single-cell RNA-seq. Science 352, 189–196 (2016) source
plaindirect- Asserted: passes — The authors put it forward as true.
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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
“Therefore, our FlashTag maturation trajectory serves as complementary validation of our Drop-seq maturation trajectory, and exhibits strong association with biological time.”
§ Developmental diversification of cortical inhibitory interneurons > Extended Data
boostedcorrelational- Asserted: passes — The authors put it forward as true.
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- Load-bearing: passes — The paper’s conclusions depend on it.
- Based: passes — The paper gives a reason why it holds.
It may state two separate claims as one.
The paper relies on this without support.
The genetic programs that drive interneuron fate specification and maintenance are not well understood.
“the genetic programs driving interneuron fate specification and maintenance are not well understood”
The paper relies on this without support.
It remains unclear how early sources of heterogeneity generate the vast diversity of adult interneurons.
“it remains unclear how these early sources of heterogeneity generate the vast diversity of adult interneurons”
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 source backs part of the claim, not all of it — or backs it for a different population, condition or comparison.
In the citing paper
“The cardinal identity of a cell is probably already instilled at the postmitotic stage during development9,61,62,63,64, and its subsequent phenotypic differentiation and expression are regulated by extrinsic signals such as cell interactions and neural activity.”
From The diversity of GABAergic neurons and neural communication elements (2019) · cites this paper as [61]
Experimental — accuracy not yet measuredThe source backs part of the claim, not all of it — or backs it for a different population, condition or comparison.
In the citing paper
“Lhx6–a transcription factor–participates in cell fate determination of MGE types, whereas Lamp5+ neocortical interneurons come from the CGE35.”
From Innovations present in the primate interneuron repertoire (2020) · cites this paper as [35]
Experimental — accuracy not yet measuredIn the citing paper
“a contemporaneous study based on a different scRNA-seq approach found no evidence for early embryonic specification of interneurons into specific cell types”
From Development and Functional Diversification of Cortical Interneurons (2018) · cites this paper as Mayer et al., 2018
In the citing paper
“Cortical excitatory neuron transcriptomes may be more heterogeneous due to their developmental origin spread across the dorsal telencephalon, compared with GABAergic populations that originate in the ganglionic eminences and migrate to cortex (Mayer et al., 2018).”
From Single-Cell Sequencing of Brain Cell Transcriptomes and Epigenomes (2021) · cites this paper as Mayer et al., 2018
In the citing paper
“scRNA-seq reveals how neuronal and glial cell type identities emerge in developing mouse (Mayer et al., 2018; Telley et al., 2019; Tiklová et al., 2019) and human brain (Li et al., 2018; Nowakowski et al., 2017; Pollen et al., 2015), and even across whole organisms (Farrell et al., 2018).”
From Single-Cell Sequencing of Brain Cell Transcriptomes and Epigenomes (2021) · cites this paper as Mayer et al., 2018
In the citing paper
“(and both are expressed in the cortical Lamp5+ Lhx6+ type)”
From Innovations present in the primate interneuron repertoire (2020) · cites this paper as [35]
In the citing paper
“In mouse mature cortical interneurons, Id2 and Lamp5 are expressed in nearly identical populations35”
From Innovations present in the primate interneuron repertoire (2020) · cites this paper as [35]
In the citing paper
“Developmentally, Sst+and Pavlb+ originate from the medial ganglionic eminence (MGE), while the Vip+ originate from the caudal ganglionic eminence (CGE)15.”
From Cell type-specific transcriptional programs in mouse prefrontal cortex during adolescence and addiction (2019) · cites this paper as [15]
In the citing paper
“and are likely the remaining non-MGE origin cells (arising from CGE and/or POA)14–16”
From Cell type-specific transcriptional programs in mouse prefrontal cortex during adolescence and addiction (2019) · cites this paper as [15]
In the citing paper
“For example, Mayer et al (2018) fit a negative binomial model to count data, using technical covariates such as the read depth and the number of counts per gene to fit the model parameters.”
From Current best practices in single-cell RNA-seq analysis: a tutorial (2019) · cites this paper as Mayer et al, 2018
Citations
Cites
WGCNA: an R package for weighted correlation network analysis
Langfelder, P., & Horvath, S. (2008) · BMC Bioinformatics · doi:10.1186/1471-2105-9-559 · Cited by 27,252
Fast unfolding of communities in large networks
Blondel, V. D., Guillaume, J.-L., Lambiotte, R., & Lefebvre, E. (2008) · Journal of Statistical Mechanics: Theory and Experiment · doi:10.1088/1742-5468/2008/10/p10008 · Cited by 21,424
Integrated analysis of single cell transcriptomic data across conditions, technologies, and species
Butler, A., & Satija, R. (2017) · doi:10.1101/164889 · Cited by 13,200
Self-citationIntegrating single-cell transcriptomic data across different conditions, technologies, and species
Butler, A., Hoffman, P., Smibert, P., Papalexi, E., & Satija, R. (2018) · Nature Biotechnology · doi:10.1038/nbt.4096 · Cited by 13,174
Self-citationTrapnell, C., Cacchiarelli, D., Grimsby, J., Pokharel, P., Li, S., Morse, M., Lennon, N. J., Livak, K. J., Mikkelsen, T. S., & Rinn, J. L. (2014) · Nature Biotechnology · doi:10.1038/nbt.2859 · Cited by 7,314
Highly parallel genome-wide expression profiling of individual cells using nanoliter droplets.
Macosko, E. Z., Basu, A., Satija, R., Nemesh, J., Shekhar, K., Goldman, M., Tirosh, I., Bialas, A. R., Kamitaki, N., Martersteck, E. M., et al. (2015) · Cell · doi:10.1016/j.cell.2015.05.002 · Cited by 7,110
Self-citationA robust and high-throughput Cre reporting and characterization system for the whole mouse brain
Madisen, L., Zwingman, T. A., Sunkin, S. M., Oh, S. W., Zariwala, H. A., Gu, H., Ng, L. L., Palmiter, R. D., Hawrylycz, M. J., Jones, A. R., et al. (2010) · Nature Neuroscience · doi:10.1038/nn.2467 · Cited by 6,907
Genome-wide atlas of gene expression in the adult mouse brain
Lein, E. S., Hawrylycz, M. J., Ao, N., Ayres, M., Bensinger, A., Bernard, A., Boe, A. F., Boguski, M. S., Brockway, K. S., Byrnes, E. J., et al. (2007) · Nature · doi:10.1038/nature05453 · Cited by 5,572
Reversed graph embedding resolves complex single-cell trajectories
Qiu, X., Mao, Q., Tang, Y., Wang, L., Chawla, R., Pliner, H. A., & Trapnell, C. (2017) · Nature Methods · doi:10.1038/nmeth.4402 · Cited by 5,070
Dissecting the multicellular ecosystem of metastatic melanoma by single-cell RNA-seq
Tirosh, I., Izar, B., Prakadan, S. M., Wadsworth, M. H., Treacy, D., Trombetta, J. J., Rotem, A., Rodman, C., Lian, C., Murphy, G., et al. (2016) · Science · doi:10.1126/science.aad0501 · Cited by 4,944
Cited by
Sorted by citations
Comprehensive Integration of Single-Cell Data
Stuart, T., Butler, A., Hoffman, P., Hafemeister, C., Papalexi, E., Mauck, W. M., Hao, Y., Stoeckius, M., Smibert, P., & Satija, R. (2019) · Cell · doi:10.1016/j.cell.2019.05.031 · Cited by 15,453
Self-citationIntegrating single-cell transcriptomic data across different conditions, technologies, and species
Butler, A., Hoffman, P., Smibert, P., Papalexi, E., & Satija, R. (2018) · Nature Biotechnology · doi:10.1038/nbt.4096 · Cited by 13,174
Self-citationThe single-cell transcriptional landscape of mammalian organogenesis
Cao, J., Spielmann, M., Qiu, X., Huang, X., Ibrahim, D. M., Hill, A. J., Zhang, F., Mundlos, S., Christiansen, L., Steemers, F. J., et al. (2019) · Nature · doi:10.1038/s41586-019-0969-x · Cited by 4,490
“For example, scRNA-seq recently revealed remarkable heterogeneity in neurons and myocardiocytes during mouse development 8,9 .”
Current best practices in single-cell RNA-seq analysis: a tutorial
Luecken, M. D., & Theis, F. J. (2019) · Molecular Systems Biology · doi:10.15252/msb.20188746 · Cited by 2,231
“Popular platforms such as Seurat (Butler et al , 2018), Scater (McCarthy et al , 2017), or Scanpy (Wolf et al , 2018) provide integrated environments to develop pipelines and contain large analysis toolboxes.”
MethodInfluentialThe bone marrow microenvironment at single-cell resolution
Tikhonova, A. N., Dolgalev, I., Hu, H., Sivaraj, K. K., Hoxha, E., Cuesta-Domínguez, Á., Pinho, S., Akhmetzyanova, I., Gao, J., Witkowski, M., et al. (2019) · Nature · doi:10.1038/s41586-019-1104-8 · Cited by 936
Self-citationOrganoid single-cell genomic atlas uncovers human-specific features of brain development
Kanton, S., Boyle, M. J., He, Z., Santel, M., Weigert, A., Sanchís-Calleja, F., Guijarro, P., Sidow, L., Fleck, J. S., Han, D., et al. (2019) · Nature · doi:10.1038/s41586-019-1654-9 · Cited by 778
Characterization of cell fate probabilities in single-cell data with Palantir
Setty, M., Kiseliovas, V., Levine, J., Gayoso, A., Mazutis, L., & Pe’er, D. (2019) · Nature Biotechnology · doi:10.1038/s41587-019-0068-4 · Cited by 833
Development and Functional Diversification of Cortical Interneurons
Lim, L., Mi, D., Llorca, A., & Marín, O. (2018) · Neuron · doi:10.1016/j.neuron.2018.10.009 · Cited by 714
“, 2012), and it is therefore perhaps not surprising that they exhibit great transcriptional similarity at this stage (Mayer et al., 2018).”
Cell stress in cortical organoids impairs molecular subtype specification
Bhaduri, A., Andrews, M. G., Mancia Leon, W., Jung, D., Shin, D., Allen, D., Jung, D., Schmunk, G., Haeussler, M., Salma, J., et al. (2020) · Nature · doi:10.1038/s41586-020-1962-0 · Cited by 624
Clark, B. S., Stein-O’Brien, G., Shiau, F., Cannon, G. H., Davis-Marcisak, E. F., Sherman, T. D., Santiago, C. P., Hoang, T. V., Rajaii, F., James-Esposito, R. E., et al. (2019) · Neuron · doi:10.1016/j.neuron.2019.04.010 · Cited by 527
“ScRNA-seq studies of neurogenesis in other brain regions profiled only a few thousand cells at many fewer developmental ages (La Manno et al., 2016; Mayer et al., 2018; Nowakowski et al., 2017; Zhong et al., 2018), and thus do not fully capture the transcriptional changes associated with the initiation of neurogenesis…”
The emergence of transcriptional identity in somatosensory neurons
Sharma, N., Flaherty, K., Lezgiyeva, K., Wagner, D. E., Klein, A. M., & Ginty, D. D. (2020) · Nature · doi:10.1038/s41586-019-1900-1 · Cited by 490
Molecular logic of cellular diversification in the mouse cerebral cortex
Di Bella, D. J., Habibi, E., Stickels, R. R., Scalia, G., Brown, J., Yadollahpour, P., Yang, S. M., Abbate, C., Biancalani, T., Macosko, E. Z., et al. (2021) · Nature · doi:10.1038/s41586-021-03670-5 · Cited by 464
Comprehensive analysis of single cell ATAC-seq data with SnapATAC
Fang, R., Preissl, S., Li, Y., Hou, X., Lucero, J., Wang, X., Motamedi, A., Shiau, A. K., Zhou, X., Xie, F., et al. (2021) · Nature Communications · doi:10.1038/s41467-021-21583-9 · Cited by 455
Temporal patterning of apical progenitors and their daughter neurons in the developing neocortex
Telley, L., Agirman, G., Prados, J., Amberg, N., Fièvre, S., Oberst, P., Bartolini, G., Vitali, I., Cadilhac, C., Hippenmeyer, S., et al. (2019) · Science · doi:10.1126/science.aav2522 · Cited by 423
“This process is reminiscent of how neuron diversity is generated in evolutionarily older brain regions such as the subpallium or spinal cord (7, 24, 42, 43).”
BackgroundMethodResultWang, Y., Song, W., Wang, J., Wang, T., Xiong, X., Qi, Z., Fu, W., Yang, X., & Chen, Y.-G. (2020) · Journal of Experimental Medicine · doi:10.1084/jem.20191130 · Cited by 399
Vascularized human cortical organoids (vOrganoids) model cortical development in vivo
Shi, Y., Sun, L., Liu, J., Zhong, S., Wang, M., Li, R., Li, P., Guo, L., Fang, A., Chen, R., et al. (2020) · PLoS Biology · doi:10.1371/journal.pbio.3000705 · Cited by 412
“Ordering cells along pseudo-maturation trajectory and pseudo-time trajectory To order cells along a pseudo-maturation trajectory, we applied the approach introduced in Petropoulos’s [68] and Mayer’s [69] studies.”
Innovations present in the primate interneuron repertoire
Krienen, F. M., Goldman, M., Zhang, Q., C. H. del Rosario, R., Florio, M., Machold, R., Saunders, A., Levandowski, K., Zaniewski, H., Schuman, B., et al. (2020) · Nature · doi:10.1038/s41586-020-2781-z · Cited by 381
Self-citationInnovations in Primate Interneuron Repertoire
Krienen, F. M., Goldman, M., Zhang, Q., del Rosario, R., Florio, M., Machold, R., Saunders, A., Levandowski, K., Zaniewski, H., Schuman, B., et al. (2019) · doi:10.1101/709501 · Cited by 372
Self-citationRecent Advances in Droplet Microfluidics
Ding, Y., Howes, P. D., & deMello, A. J. (2019) · Analytical Chemistry · doi:10.1021/acs.analchem.9b05047 · Cited by 374
Grieshaber‐Bouyer, R., Radtke, F. A., Cunin, P., Stifano, G., Levescot, A., Vijaykumar, B., Nelson-Maney, N., Blaustein, R. B., Monach, P. A., Nigrovic, P. A., et al. (2021) · Nature Communications · doi:10.1038/s41467-021-22973-9 · Cited by 371
Single-cell transcriptomic analysis of mouse neocortical development
Loo, L., Simon, J. M., Xing, L., McCoy, E. S., Niehaus, J. K., Guo, J., Anton, E. S., & Zylka, M. J. (2019) · Nature Communications · doi:10.1038/s41467-018-08079-9 · Cited by 289
Single-cell and spatial transcriptomics: deciphering brain complexity in health and disease
Piwecka, M., Rajewsky, N., & Rybak-Wolf, A. (2023) · Nature Reviews Neurology · doi:10.1038/s41582-023-00809-y · Cited by 320
Transcriptional Convergence of Oligodendrocyte Lineage Progenitors during Development
Marques, S., van Bruggen, D., Vanichkina, D. P., Floriddia, E. M., Munguba, H., Väremo, L., Giacomello, S., Falcão, A. M., Meijer, M., Björklund, Å. K., et al. (2018) · Developmental Cell · doi:10.1016/j.devcel.2018.07.005 · Cited by 290
“Diverse adult cortical interneuron populations have recently been shown to be specified already at the embryonic stages in the CNS (Mayer et al., 2018; Mi et al., 2018).”
BackgroundResultStalled developmental programs at the root of pediatric brain tumors
Jessa, S., Blanchet-Cohen, A., Krug, B., Vladoiu, M. C., Coutelier, M., Faury, D., Poreau, B., Jay, N. D., Hébert, S., Monlong, J., et al. (2019) · Nature Genetics · doi:10.1038/s41588-019-0531-7 · Cited by 301
“The fetal cerebral cortex has been investigated at limited time points or coverage in humans 23–26 and mice 27–29 , whereas the prenatal pons has never been comprehensively profiled.”
Molecular and cellular evolution of the primate dorsolateral prefrontal cortex
Ma, S., Škarica, M., Li, Q., Xu, C., Risgaard, R. D., Tebbenkamp, A. T. N., Mato-Blanco, X., Kovner, R., Krsnik, Ž., de Martin, X., et al. (2022) · Science · doi:10.1126/science.abo7257 · Cited by 257
“Based on marker gene expression and transcriptomic integration with other human and mouse single-cell RNA-seq data (12, 16, 17, 19, 20) (Fig.”
BackgroundIdentification of neural oscillations and epileptiform changes in human brain organoids
Samarasinghe, R. A., Miranda, O. A., Buth, J. E., Mitchell, S. A., Ferando, I., Watanabe, M., Allison, T. F., Kurdian, A., Fotion, N. N., Gandal, M. J., et al. (2021) · Nature Neuroscience · doi:10.1038/s41593-021-00906-5 · Cited by 288
Neuronal heterogeneity and stereotyped connectivity in the auditory afferent system
Petitpré, C., Wu, H., Sharma, A., Tokarska, A., Fontanet, P., Wang, Y., Helmbacher, F., Yackle, K., Silberberg, G., Hadjab, S., et al. (2018) · Nature Communications · doi:10.1038/s41467-018-06033-3 · Cited by 255
Comprehensive integration of single-cell dataPreprint
Stuart, T., Butler, A. W., Hoffman, P. J., Hafemeister, C., Papalexi, E., Mauck, W., Hao, Y.-H., Stoeckius, M., Smibert, P., & Satija, R. (2018) · bioRxiv · doi:10.1101/460147 · Cited by 13,858
“While few validated regulators that drive specific interneuron fate decisions are known, we have previously shown that the transcription factor Mef2c is upregulated in embryonic precursors of PV interneurons and is specifically required for their development (Mayer et al., 2018).”
BackgroundSelf-citationSingle-Cell Sequencing of Brain Cell Transcriptomes and Epigenomes
Armand, E. J., Li, J., Xie, F., Luo, C., & Mukamel, E. A. (2021) · Neuron · doi:10.1016/j.neuron.2020.12.010 · Cited by 241
Distinct molecular programs regulate synapse specificity in cortical inhibitory circuits
Favuzzi, E., Deogracias, R., Marques–Smith, A., Maeso, P. A., Jézéquel, J., Exposito-Alonso, D., Balia, M., Kroon, T., Hinojosa, A. J., Maraver, E. F., et al. (2019) · Science · doi:10.1126/science.aau8977 · Cited by 224
The diversity of GABAergic neurons and neural communication elements
Huang, Z. J., & Paul, A. (2019) · Nature Reviews Neuroscience · doi:10.1038/s41583-019-0195-4 · Cited by 201
A transcription factor atlas of directed differentiation
Joung, J., Ma, S., Tay, T., Geiger-Schuller, K., Kirchgatterer, P. C., Verdine, V. K., Guo, B., Arias-García, M. A., Allen, W. E., Singh, A., et al. (2023) · Cell · doi:10.1016/j.cell.2022.11.026 · Cited by 229
A spatially resolved brain region- and cell type-specific isoform atlas of the postnatal mouse brain
Joglekar, A., Prjibelski, A., Mahfouz, A., Collier, P., Lin, S., Schlusche, A. K., Marrocco, J., Williams, S. R., Haase, B., Hayes, A., et al. (2021) · Nature Communications · doi:10.1038/s41467-020-20343-5 · Cited by 229
Decoding molecular and cellular heterogeneity of mouse nucleus accumbens
Chen, R., Blosser, T. R., Djekidel, M. N., Hao, J., Bhattacherjee, A., Chen, W., Tuesta, L. M., Zhuang, X., & Zhang, Y. (2021) · Nature Neuroscience · doi:10.1038/s41593-021-00938-x · Cited by 191
“Hence, we decided to include non-neuronal cells with more than 800 detected genes, which was regarded as high-quality cells in previous high-throughput scRNA-seq studies 61,62 .”
BackgroundSingle-cell delineation of lineage and genetic identity in the mouse brain
Bandler, R. C., Vitali, I., Delgado, R. N., Ho, M. C., Dvoretskova, E., Molinas, J. S. I., Frazel, P. W., Mohammadkhani, M., Machold, R. P., Mädler, S. C., et al. (2021) · Nature · doi:10.1038/s41586-021-04237-0 · Cited by 206
Self-citationMouse and human share conserved transcriptional programs for interneuron development
Shi, Y., Wang, M., Mi, D., Lu, T., Wang, B., Dong, H., Zhong, S., Chen, Y., Sun, L., Zhou, X., et al. (2021) · Science · doi:10.1126/science.abj6641 · Cited by 196
Individual human cortical progenitors can produce excitatory and inhibitory neurons
Delgado, R. N., Allen, D. E., Keefe, M. G., Mancia, W., Ziffra, R. S., Crouch, E. E., Álvarez-Buylla, A., & Nowakowski, T. J. (2021) · Nature · doi:10.1038/s41586-021-04230-7 · Cited by 211
Interneuron Types as Attractors and Controllers
Fishell, G., & Kepecs, Á. (2019) · Annual Review of Neuroscience · doi:10.1146/annurev-neuro-070918-050421 · Cited by 212
“…by two different groups indicate that, while a small number of regionally expressed genes can be detected within the proliferative zones, subtype identities or even differences between progenitors giving rise to projections versus interneurons were not apparent (Mayer et al. 2018, Mi et al. 2018).”
BackgroundInfluentialSelf-citationRegulation of Neuronal Differentiation, Function, and Plasticity by Alternative Splicing
Furlanis, E., & Scheiffele, P. (2018) · Annual Review of Cell and Developmental Biology · doi:10.1146/annurev-cellbio-100617-062826 · Cited by 177
“These neuronal cell types are specified early in development and single cell sequencing studies have provided molecular markers that unambiguously identify them (Mayer et al., 2018; Mi et al., 2018; Paul et al., 2017).”
BackgroundMolecular design of hypothalamus development
Romanov, R. A., Tretiakov, E. O., Kastriti, M. E., Zupančič, M., Häring, M., Korchynska, S., Popadin, K. Y., Benevento, M., Rebernik, P., Lallemend, F., et al. (2020) · Nature · doi:10.1038/s41586-020-2266-0 · Cited by 178
Tepe, B., Hill, M. C., Pekarek, B. T., Hunt, P. J., Martin, T. J., Martin, J. F., & Arenkiel, B. R. (2018) · Cell Reports · doi:10.1016/j.celrep.2018.11.034 · Cited by 183
“Recent studies that investigated the generation of cortical interneurons during embryonic development highlight the need for such investigations and have provided a great resource for understanding cortical interneuron complexity (Close et al., 2017; Mayer et al., 2018; Mi et al., 2018).”
Floriddia, E. M., Lourenço, T., Zhang, S., van Bruggen, D., Hilscher, M. M., Kukanja, P., dos Santos, J. P. G., Altınkök, M., Yokota, C., Llorens-Bobadilla, E., et al. (2020) · Nature Communications · doi:10.1038/s41467-020-19453-x · Cited by 163
Bhattacherjee, A., Djekidel, M. N., Chen, R., Chen, W., Tuesta, L. M., & Zhang, Y. (2019) · Nature Communications · doi:10.1038/s41467-019-12054-3 · Cited by 174
Birey, F., Li, M.-Y., Gordon, A., Thete, M. V., Valencia, A. M., Revah, O., Pașca, A. M., Geschwind, D. H., & Pașca, S. P. (2022) · Cell stem cell · doi:10.1016/j.stem.2021.11.011 · Cited by 158
Furlanis, E., Traunmüller, L., Fucile, G., & Scheiffele, P. (2019) · Nature Neuroscience · doi:10.1038/s41593-019-0465-5 · Cited by 145
Basal forebrain cholinergic signalling: development, connectivity and roles in cognition
Ananth, M. R., Rajebhosale, P., Kim, R., Talmage, D. A., & Role, L. W. (2023) · Nature Reviews Neuroscience · doi:10.1038/s41583-023-00677-x · Cited by 148
Genetic and epigenetic coordination of cortical interneuron development
Allaway, K. C., Gabitto, M. I., Wapinski, O. L., Saldi, G.-A., Wang, C., Bandler, R. C., Wu, S. J., Bonneau, R., & Fishell, G. (2021) · Nature · doi:10.1038/s41586-021-03933-1 · Cited by 117
Self-citationCortical Somatostatin Interneuron Subtypes Form Cell-Type Specific Circuits
Wu, S. J., Sevier, E., Dwivedi, D., Saldi, G.-A., Hairston, A., Yu, S. Q., Abbott, L., Choi, D. H., Sherer, M., Qiu, Y., et al. (2022) · Neuron · doi:10.1016/j.neuron.2023.05.032 · Cited by 139
Self-citationSERGIO: A Single-Cell Expression Simulator Guided by Gene Regulatory Networks
Dibaeinia, P., & Sinha, S. (2020) · Cell Systems · doi:10.1016/j.cels.2020.08.003 · Cited by 120
“DS4 was compared against a published single-cell RNA-seq data from Medial Ganglionic Eminences (MGE), Caudal Ganglionic Eminences (CGE), and cortical regions of mouse sequenced by 10X chromium (Mayer et al., 2018), while DS5 and DS6 were respectively compared against data from human kidney (Lindström et al.”
InfluentialEmergence of Neuronal Diversity during Vertebrate Brain Development
Raj, B., Farrell, J. A., Liu, J., Kholtei, J. E., Carte, A. N., Acedo, J. N., Du, L. Y., McKenna, A., Relić, Đ., Leslie, J. M., et al. (2020) · Neuron · doi:10.1016/j.neuron.2020.09.023 · Cited by 124
“For example, neural progenitors of the medial and lateral mouse ganglionic eminence, which give rise to cortical interneurons, have been found to converge to a shared mitotic signature regardless of their region of origin, followed by expression of cardinal fatespecific transcription factors post-mitotically (Mayer et…”
BackgroundCell migration promotes dynamic cellular interactions to control cerebral cortex morphogenesis
Silva, C. G., Peyre, E., & Nguyen, L. (2019) · Nature reviews. Neuroscience · doi:10.1038/s41583-019-0148-y · Cited by 125
Resolving organoid brain region identities by mapping single-cell genomic data to reference atlases
Fleck, J. S., Sanchís-Calleja, F., He, Z., Santel, M., Boyle, M. J., Camp, J. G., & Treutlein, B. (2021) · Cell Stem Cell · doi:10.1016/j.stem.2021.02.015 · Cited by 118
Development and plasticity of the corpus callosum
de León-Reyes, N. S., Bragg-Gonzalo, L., & Nieto, M. (2020) · Development · doi:10.1242/dev.189738 · Cited by 122
Shao, Z., Noh, H., Kim, W. B., Ni, P., Nguyen, C. L., Cote, S. E., Noyes, E. A., Zhao, J., Parsons, T. J., Park, J. M., et al. (2019) · Nature Neuroscience · doi:10.1038/s41593-018-0313-z · Cited by 113
“Consistent with their MGE-derived phenotype, many grafted cINs express either MEF2C, a marker enriched in PV + interneuron precursors in mice 28 , or SST (Figure 7e), regardless of their disease status.”
Herrero-Navarro, Á., Puche-Aroca, L., Moreno-Juan, V., Sempere-Ferràndez, A., Espinosa, A., Susín, R., Torres-Masjoan, L., Leyva-Díaz, E., Karow, M., Figueres-Oñate, M., et al. (2021) · Science Advances · doi:10.1126/sciadv.abe8978 · Cited by 117
The development and evolution of inhibitory neurons in primate cerebrum
Schmitz, M. T., Sandoval, K., Chen, C. P., Mostajo-Radji, M. A., Seeley, W. W., Nowakowski, T. J., Ye, C. J., Paredes, M. F., & Pollen, A. A. (2022) · Nature · doi:10.1038/s41586-022-04510-w · Cited by 111
Lindtner, S., Catta-Preta, R., Tian, H., Su-Feher, L., Price, J. D., Dickel, D. E., Greiner, V. J., Silberberg, S. N., McKinsey, G. L., McManus, M. T., et al. (2019) · Cell Reports · doi:10.1016/j.celrep.2019.07.022 · Cited by 102
“Recent single-cell RNA-sequencing (scRNA-seq) experiments have illuminated the transcriptional changes in developing GE cells, highlighting the role of key TFs including the DLX proteins (Chen et al., 2017; Mayer et al., 2018; Mi et al., 2018).”
BackgroundPostnatal connectomic development of inhibition in mouse barrel cortex
Gour, A., Boergens, K. M., Heike, N., Hua, Y., Laserstein, P., Song, K., & Helmstaedter, M. N. (2020) · Science · doi:10.1126/science.abb4534 · Cited by 91
Integrated analysis of multimodal single-cell data with structural similarity
Cao, Y., Fu, L., Wu, J., Peng, Q., Nie, Q. H., Zhang, J., & Xie, X. S. (2022) · Nucleic Acids Research · doi:10.1093/nar/gkac781 · Cited by 109
“Moreover, the Mef2c motif is also reported to be involved in the development of Pvalb interneurons (52), and also shown enriched as one of the differential motifs (Figure 5, Supplementary Figure S9).”
Rbfox1 Mediates Cell-type-Specific Splicing in Cortical Interneurons
Wamsley, B., Jaglin, X. H., Favuzzi, E., Quattrocolo, G., Nigro, M. J., Yusuf, N., Khodadadi‐Jamayran, A., Rudy, B., & Fishell, G. (2018) · Neuron · doi:10.1016/j.neuron.2018.09.026 · Cited by 101
Self-citationInterneuron origin and molecular diversity in the human fetal brain
Yu, Y., Zeng, Z., Xie, D., Chen, R., Sha, Y., Huang, S., Cai, W., Chen, W., Li, W., Ke, R., et al. (2021) · Nature Neuroscience · doi:10.1038/s41593-021-00940-3 · Cited by 108
Mossink, B., van Rhijn, J.-R., Wang, S., Linda, K., Vitale, M. R., Zöller, J. E. M., van Hugte, E., Bak, J., Verboven, A. H. A., Selten, M. M., et al. (2021) · Molecular Psychiatry · doi:10.1038/s41380-021-01117-x · Cited by 109
“IP immunoprecipitation. soma targeting SYT2-positive GABAergic synapses onto iGLUNgn2 neurons in our cultures and the recent finding that in both, SST+ and PV+ GABAergic neurons synapse targeting specificity follows distinct molecular programs [39], this implies that these MEF2C+ neurons represent PV+ precursor cells…”
InfluentialSingle-cell droplet microfluidics for biomedical applications
Liu, D., Sun, M., Zhang, J., Hu, R. H., Fu, W., Xuanyuan, T., & Liu, W. (2022) · The Analyst · doi:10.1039/d1an02321g · Cited by 108
Wang, M., Song, W., Chen, M., Wang, Q., Zhou, X., Xu, P., Krek, A., Yoon, Y., Ho, L., Orr, M. E., et al. (2022) · Molecular Neurodegeneration · doi:10.1186/s13024-022-00517-z · Cited by 104
Luppi, M. P., Azcorra, M., Caronia, G., Poulin, J.-F., Gaertner, Z. A., Gatica, S., Moreno-Ramos, O. A., Nouri, N., Dubois, M., Ma, Y. C., et al. (2021) · Cell Reports · doi:10.1016/j.celrep.2021.109975 · Cited by 103
“on stable states through a process of gradient descent, using “configurational codes” that are somewhat plastic and evolve during development (Mayer et al., 2018).”
BackgroundIn vivo pulse labeling of isochronic cohorts of cells in the central nervous system using FlashTag
Govindan, S., Oberst, P., & Jabaudon, D. (2018) · Nature Protocols · doi:10.1038/s41596-018-0038-1 · Cited by 77
The accessible chromatin landscape of the murine hippocampus at single-cell resolutionPreprint
Sinnamon, J. R., Torkenczy, K. A., Linhoff, M. W., Vitak, S. A., Mulqueen, R. M., Pliner, H. A., Trapnell, C., Steemers, F. J., Mandel, G., & Adey, A. (2019) · Genome Research · doi:10.1101/gr.243725.118 · Cited by 70
Ghatak, S., Talantova, M. V., McKercher, S. R., & Lipton, S. A. (2020) · The Annual Review of Pharmacology and Toxicology · doi:10.1146/annurev-pharmtox-032320-015420 · Cited by 90
Emerging roles for MEF2 in brain development and mental disorders
Assali, A., Harrington, A. J., & Cowan, C. W. (2019) · Current Opinion in Neurobiology · doi:10.1016/j.conb.2019.04.008 · Cited by 92
Perez, J. D., Dieck, S. T., Alvarez‐Castelao, B., Tushev, G., Chan, I. C. W., & Schuman, E. M. (2021) · eLife · doi:10.7554/elife.63092 · Cited by 78
Micali, N., Ma, S., Li, M., Kim, S., Mato-Blanco, X., Sindhu, S. K., Arellano, J. I., Gao, T., Shibata, M., Gobeske, K. T., et al. (2023) · Science · doi:10.1126/science.adf3786 · Cited by 82
“consistedof threemajorbranches:CRABP1 interneurons recently reported to be enriched in primates (55, 56), LHX8 branch enriched at E37-43 likely contributing to cholinergic neurons (57), and LHX6/CRABP1 interneurons dominating the MGE-derived interneurons and giving rise to majority of the SST and PVALB interneurons.”
BackgroundKelly, N. H., Huynh, N. P. T., & Guilak, F. (2019) · Matrix Biology · doi:10.1016/j.matbio.2019.12.004 · Cited by 77
Single cell transcriptomics in neuroscience: cell classification and beyond
Tasic, B. (2018) · Current Opinion in Neurobiology · doi:10.1016/j.conb.2018.04.021 · Cited by 83
Evolution of glutamatergic signaling and synapses
Moroz, L. L., Nikitin, M. A., Poličar, P. G., Kohn, A. B., & Romanova, D. Y. (2021) · Neuropharmacology · doi:10.1016/j.neuropharm.2021.108740 · Cited by 81
Human neuronal maturation comes of age: cellular mechanisms and species differences
Wallace, J. L., & Pollen, A. A. (2024) · Nature Reviews Neuroscience · doi:10.1038/s41583-023-00760-3 · Cited by 82
“These atlases indicate that many transcriptional distinctions between closely related cell types become clear only after neurons become postmitotic 30,45,48–50 .”
Folding brains: from development to disease modeling
Del-Valle-Anton, L., & Borrell, V. (2021) · Physiological Reviews · doi:10.1152/physrev.00016.2021 · Cited by 79
Borrett, M. J., Innes, B. T., Jeong, D., Tahmasian, N., Storer, M. A., Bader, G. D., Kaplan, D. R., & Miller, F. D. (2020) · Cell Reports · doi:10.1016/j.celrep.2020.108022 · Cited by 75
Ketamine exerts its sustained antidepressant effects via cell-type-specific regulation of Kcnq2
López, J. P., Luecken, M. D., Brivio, E., Karamihalev, S., Kos, A., Donno, C. D., Benjamin, A., Yang, H., Dick, A. L. W., Stoffel, R., et al. (2022) · Neuron · doi:10.1016/j.neuron.2022.05.001 · Cited by 85
“In a second step, we fit a regularized negative binomial model to each gene as described in (Mayer et al., 2018).”
Tosoni, G., Ayyildiz, D., Bryois, J., Macnair, W., Fitzsimons, C. P., Lucassen, P. J., & Salta, E. (2023) · Neuron · doi:10.1016/j.neuron.2023.03.010 · Cited by 79
Transcriptomic mapping uncovers Purkinje neuron plasticity driving learning
Chen, X., Du, Y., Broussard, G. J., Kislin, M., Yuede, C. M., Zhang, S., Dietmann, S., Gabel, H. W., Zhao, G., Wang, S. S. ‐., et al. (2022) · Nature · doi:10.1038/s41586-022-04711-3 · Cited by 70
Biological and Medical Importance of Cellular Heterogeneity Deciphered by Single-Cell RNA Sequencing
Gupta, R. K., & Kuźnicki, J. (2020) · Cells · doi:10.3390/cells9081751 · Cited by 74
Kim, D. W., Liu, K., Wang, Z. Q., Zhang, Y. S., Bathini, A., Brown, M. P., Lin, S. H., Washington, P. W., Sun, C., Lindtner, S., et al. (2021) · Communications Biology · doi:10.1038/s42003-020-01616-7 · Cited by 54
Moreau, M. X., Saillour, Y., Cwetsch, A. W., Pierani, A., & Causeret, F. (2021) · Development · doi:10.1242/dev.197962 · Cited by 73
Wester, J. C., Mahadevan, V., Rhodes, C. T., Calvigioni, D., Venkatesh, S., Maric, D., Hunt, S., Yuan, X. Q., Zhang, Y., Petros, T. J., et al. (2019) · Neuron · doi:10.1016/j.neuron.2019.03.036 · Cited by 68
Precision in the development of neocortical architecture: From progenitors to cortical networks
Kast, R. J., & Levitt, P. R. (2019) · Progress in Neurobiology · doi:10.1016/j.pneurobio.2019.01.003 · Cited by 73
Modeling neuropsychiatric disorders using human induced pluripotent stem cells
Wang, M., Zhang, L., & Gage, F. H. (2019) · Protein & Cell · doi:10.1007/s13238-019-0638-8 · Cited by 76
Modeling Psychiatric Disorder Biology with Stem Cells
Das, D., Feuer, K. L., Wahbeh, M. H., & Avramopoulos, D. (2020) · Current Psychiatry Reports · doi:10.1007/s11920-020-01148-1 · Cited by 49
Human pallial MGE-type GABAergic interneuron cell therapy for chronic focal epilepsy
Bershteyn, M., Bröer, S., Parekh, M. B., Maury, Y., Havlicek, S., Kriks, S., Fuentealba, L. C., Lee, S., Zhou, R., Subramanyam, G., et al. (2023) · Cell stem cell · doi:10.1016/j.stem.2023.08.013 · Cited by 76
Holmes, G., Gonzalez-Reiche, A. S., Lü, N., Zhou, X., Rivera, J., Kriti, D., Sebra, R., Williams, A. A., Donovan, M. J., Potter, S. S., et al. (2020) · Cell Reports · doi:10.1016/j.celrep.2020.107871 · Cited by 70
“We preserved differences between proliferating and non-proliferating cells, as these are tightly linked to embryonic development and cell differentiation (Mayer et al., 2018).”
Semaphorins and Plexins in central nervous system patterning: the key to it all?
Limoni, G., & Niquille, M. (2021) · Current Opinion in Neurobiology · doi:10.1016/j.conb.2020.12.014 · Cited by 61
“According to recent single-cell transcriptional analysis, INs express several PLXNs embryonically, and these may be differentially upregulated according to their site of origin and/or to their phase of development [29].”
Harrington, A. J., Bridges, C. M., Berto, S., Blankenship, K., Cho, J. Y., Assali, A., Siemsen, B. M., Moore, H. W., Tsvetkov, E., Thielking, A. M., et al. (2020) · Biological Psychiatry · doi:10.1016/j.biopsych.2020.03.011 · Cited by 63
A marmoset brain cell census reveals regional specialization of cellular identities
Krienen, F. M., Levandowski, K. M., Zaniewski, H., del Rosario, R. C. H., Schroeder, M. E., Goldman, M., Wienisch, M., Lutservitz, A., Beja-Glasser, V. F., Chen, C., et al. (2023) · Science Advances · doi:10.1126/sciadv.adk3986 · Cited by 67
“Interneurons distribute distinctly across primate neocortex and striatum Our analysis of RNA expression from the single-nucleus dataset indicates that developmentally linked telencephalic GABAergic populations (48, 49) retain globally similar identities in adulthood.”
BackgroundPerspectives on defining cell types in the brain
Mukamel, E. A., & Ngai, J. (2019) · Current Opinion in Neurobiology · doi:10.1016/j.conb.2018.11.007 · Cited by 56
Boulting, G. L., Durresi, E., Ataman, B., Sherman, M. A., Mei, K., Harmin, D. A., Carter, A. C., Hochbaum, D. R., Granger, A. J., Engreitz, J., et al. (2021) · Nature Neuroscience · doi:10.1038/s41593-020-00786-1 · Cited by 62
Identification of a Zeb1 expressing basal stem cell subpopulation in the prostate
Wang, X., Xu, H., Cheng, C., Ji, Z., Zhao, H., Sheng, Y., Li, X., Wang, J., Shu, Y., He, Y., et al. (2020) · Nature Communications · doi:10.1038/s41467-020-14296-y · Cited by 60
SnapATAC: A Comprehensive Analysis Package for Single Cell ATAC-seqPreprint
Fang, R.-X., Preissl, S., Li, Y., Hou, X.-M., Lucero, J., Wang, X.-X., Motamedi, A., Shiau, A., Zhou, X.-Z., Xie, F.-M., et al. (2019) · bioRxiv · doi:10.1101/615179 · Cited by 44
The Organization and Development of Cortical Interneuron Presynaptic Circuits is Area Specific
Pouchelon, G., Dwivedi, D., Bollmann, Y., Agba, C. K., Xu, Q., Mirow, A. M., Kim, S., Qiu, Y., Sevier, E., Ritola, K., et al. (2021) · Cell Reports · doi:10.1016/j.celrep.2021.109993 · Cited by 57
“Lhx6 progenitors give rise to both PV and SST cINs and provide an early marker for both populations (Flandin et al., 2011; Mayer et al., 2018; Tyson et al., 2015; Vogt et al., 2014).”
Self-citationRod and cone interactions in the retina
Fain, G., & Sampath, A. P. (2018) · F1000Research · doi:10.12688/f1000research.14412.1 · Cited by 60
Deciphering Brain Complexity using Single-Cell Sequencing
Mu, Q., Chen, Y., & Wang, J. (2019) · Genomics Proteomics & Bioinformatics · doi:10.1016/j.gpb.2018.07.007 · Cited by 61
“5 Heterogeneity within progenitors and interneurons across developmental time points by diffusion map and Monocle [114] 2018 60,000 scRNA-seq scGESTALT & inDrop Nanodroplet dilution Zebrafish Whole brain 23–25 days post- fertilization Over 100 cell types in juvenile zebrafish brain and their lineage trees by Seurat an…”
BackgroundInfluentialEarly role for a Na + ,K + -ATPase ( ATP1A3 ) in brain development
Smith, R. S., Florio, M., Akula, S. K., Partlow, J. N., Wang, Y., Hill, R. S., Goldman, M., Mullally, C. D., Reed, N. M., Bello‐Espinosa, L. E., et al. (2021) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.2023333118 · Cited by 64
“Within the IN clade, cells stratified by developmental origin (caudal or medial ganglionic eminence) and major “cardinal types,” according to previous studies (35).”
Metadata
- Authors
- Mayer, C., Hafemeister, C., Bandler, R. C., Machold, R., Batista Brito, R., Jaglin, X., Allaway, K., Butler, A., Fishell, G., & Satija, R.
- Affiliations
- Broad Institute (US)
- New York Genome Center (US)
- NYU Langone Health (US)
- Harvard University (US)
- Corresponding author
- Fishell, Gord
- Satija, Rahul
- ORCID
- Venue
- Nature
- Published
- 2018-03-05
- Volume
- 555
- Issue
- 7697
- Pages
- 457-462
- ISSN
- 0028-0836 (ISSN-L)
- 1476-4687
- PMC
- PMC6052457
- OpenAlex
- W2791731597
- Semantic Scholar
- 7450ce01a65bcf74dd0dabd3df9b6cf350b4401b
- Cited by
- 492
- References
- 42
- Citations by year
- 2026: 39 · 2025: 43 · 2024: 50 · 2023: 53 · 2022: 65 · 2021: 76 · 2020: 73 · 2019: 59 · 2018: 34
- FWCI
- 22.24
- Type
- journal article
- Language
- en
- Open access
- green
- doi.org
- Licence
- Locations
- Nature (publishedVersion)
- bioRxiv (Cold Spring Harbor Laboratory) (acceptedVersion)
- PubMed (publishedVersion)
- Europe PMC (PubMed Central) (acceptedVersion)
- PubMed Central (acceptedVersion)
- RePEc: Research Papers in Economics (submittedVersion)
- Funders
- National Science Foundation (1342536)
- Simons Foundation (P01 NS074972)
- Deutsche Forschungsgemeinschaft
- National Institutes of Health (NIH DP2, 1dp2hg009623-01, MH071679, NS074972)
- National Institute of Mental Health (F30MH114462, R01MH111529, R01MH071679, R37MH071679)
- National Human Genome Research Institute (DP2-HG-009623)
- National Institute of General Medical Sciences (T32GM007308)
- National Institute of Neurological Disorders and Stroke (P01NS074972, F31NS103398, R01NS039007, R01NS081297)
- Topics
- Life Sciences › Neuroscience › Developmental Neuroscience › Neurogenesis and neuroplasticity mechanisms
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › Single-cell and spatial transcriptomics
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › Developmental Biology and Gene Regulation
- Keywords
- cortical interneurons, MEF2C, parvalbumin neurons, ganglionic eminence, transcriptional heterogeneity, interneuron subtypes, developmental trajectories, transcription factors, neuropsychiatric disorders, mouse embryo
- MeSH terms
- Animals, Cell Differentiation, Embryo, Mammalian, Female, Ganglia, Humans, Interneurons, Male, Mitosis, Neural Inhibition, Parvalbumins, Visual Cortex, RNA, Small Cytoplasmic, Gene Expression Profiling, Mice, Single-Cell Analysis, MEF2 Transcription Factors
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