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The histone deacetylase HDAC11 regulates the expression of interleukin 10 and immune tolerance
Open accessAbstract
Antigen-presenting cells (APCs) induce T cell activation as well as T cell tolerance. The molecular basis of the regulation of this critical 'decision' is not well understood. Here we show that HDAC11, a member of the HDAC histone deacetylase family with no prior defined physiological function, negatively regulated expression of the gene encoding interleukin 10 (IL-10) in APCs. Overexpression of HDAC11 inhibited IL-10 expression and induced inflammatory APCs that were able to prime naive T cells and restore the responsiveness of tolerant CD4+ T cells. Conversely, disruption of HDAC11 in APCs led to upregulation of expression of the gene encoding IL-10 and impairment of antigen-specific T cell responses. Thus, HDAC11 represents a molecular target that influences immune activation versus immune tolerance, a critical 'decision' with substantial implications in autoimmunity, transplantation and cancer immunotherapy.
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TL;DR
HDAC11 is identified as a negative transcriptional regulator of IL-10 in antigen-presenting cells, acting mainly at the distal Il10 promoter and requiring its deacetylase activity. Manipulating HDAC11 changes APC inflammatory status and alters priming versus tolerance of antigen-specific CD4+ T cells.
Key findings
- Overexpression of HDAC11 inhibited LPS-induced IL-10 mRNA in RAW264.7 macrophages, primary mouse macrophages, human dendritic cells and THP-1 cells, while increasing IL-12 mRNA in several of these APC populations; HDAC11 knockdown or stable HDAC11-deficient RAW264.7 clones showed the opposite IL-10 effect.
- HDAC11 acted at the distal Il10 promoter: HDAC11 was detected mainly in the distal region (positions −807 to −1653), and adding this distal Il10 segment to the short Il12 promoter (−1 to −756) conferred strong HDAC11-mediated inhibition. HDAC11 was not detected on the Il12 promoter.
- Intact enzymatic activity was required: wild-type HDAC11 inhibited IL-10 mRNA, whereas an HDAC11 mutant lacking the deacetyltransferase domain failed to inhibit and instead increased IL-10 mRNA, suggesting dominant-negative action.
- Functionally, HDAC11-overexpressing macrophages expressed more CD86 and CD40, produced less IL-10 and more IL-12, activated naive hemagglutinin-specific CD4+ T cells more strongly, and restored IL-2 and IFN-γ production in tolerant CD4+ T cells; APCs lacking HDAC11 impaired antigen-specific CD4+ T cell responses.
Methods
- Used mouse RAW264.7 macrophages, primary mouse peritoneal macrophages, human THP-1 monocytic cells and human monocyte-derived dendritic cells; BALB/c mice and influenza hemagglutinin TCR-transgenic mice were used for T cell studies.
- Overexpressed Flag- and GFP-tagged HDAC4–HDAC11 via adenovirus, knocked down HDAC11 with lentiviral shRNA, and used Il10, Il12 and chimeric Il10-Il12 luciferase reporter assays, ChIP, real-time RT-PCR, immunoblot, ELISA and flow cytometry.
- mRNA was normalized to GAPDH with the Pfaffl method; assays were done in triplicate and repeated at least three times; T cell cytokine production was expressed as pg/ml per 1 × 10² clonotype-positive CD4+ T cells.
Limitations
- The paper does not state limitations.
- Evident from the text: most mechanistic work was done in transformed cell lines and in vitro primary APCs, with human data limited largely to mRNA measurements in dendritic cells and THP-1 cells.
- Evident from the text: HDAC11 was manipulated in APCs in vitro, while the tolerance model involved in vivo peptide-induced T cell tolerance; the proposed distal-to-proximal chromatin “scaffolding” mechanism is presented as plausible rather than directly demonstrated.
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78 Own result · 13 Own interpretation · 9 Not checked yet · 5 Own method · 4 No basis given
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In the paper
“Transduction of PEMs with short hairpin RNA (shRNA) specific for mouse HDAC11 resulted in higher expression of IL-10 mRNA in response to LPS stimulation relative to that of PEMs transduced with nontargeting shRNA (Fig. 2d).”
§ The histone deacetylase HDAC11 regulates the expression of interleukin 10 and immune tolerance > RESULTS > Effects of HDAC11 overexpression in mouse and human APCs
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In the paper
“Similarly, we also noted less IL-10 mRNA and more IL-12 mRNA in primary human dendritic cells (Fig. 2b) and THP-1 human monocytic cells (Fig. 2c) overexpressing HDAC11.”
§ The histone deacetylase HDAC11 regulates the expression of interleukin 10 and immune tolerance > RESULTS > Effects of HDAC11 overexpression in mouse and human APCs
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In the paper
“only HDAC11 overexpression resulted in the inhibition of luciferase activity in response to LPS stimulation (Fig. 1b).”
- Also stated in: § HDAC 11 interacts with the Il10 promoter · boosted
“There was again strong inhibition of lucifease activity in LPS-stimulated cells transfected with the Il10 reporter gene and overexpressing HDAC11 (Fig. 3a).”
§ The histone deacetylase HDAC11 regulates the expression of interleukin 10 and immune tolerance > RESULTS > Histone deacetylases and Il10 expression
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In the paper
“Infection of macrophages with adenovirus encoding HDAC4, HDAC5, HDAC7, HDAC8, HDAC9 or HDAC10 did not affect the ability of these cells to express IL-10 mRNA in response to LPS stimulation.”
§ The histone deacetylase HDAC11 regulates the expression of interleukin 10 and immune tolerance > RESULTS > Histone deacetylases and Il10 expression
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In the paper
“Overexpression of HDAC6 (A001723) in RAW264.7 cells, however, was associated with enhanced IL-10 mRNA expression in response to LPS (Fig. 1a).”
§ The histone deacetylase HDAC11 regulates the expression of interleukin 10 and immune tolerance > RESULTS > Histone deacetylases and Il10 expression
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In the paper
“overexpression of HDAC11 was associated with higher IL-12 mRNA expression in PEMs in response to LPS than that of PEMs infected with adenovirus vector encoding GFP (Fig. 2a).”
§ The histone deacetylase HDAC11 regulates the expression of interleukin 10 and immune tolerance > RESULTS > Effects of HDAC11 overexpression in mouse and human APCs
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In the paper
“PEMs infected with adenovirus encoding HDAC11 did not increase IL-10 mRNA expression in response to LPS (Fig. 2a).”
§ The histone deacetylase HDAC11 regulates the expression of interleukin 10 and immune tolerance > RESULTS > Effects of HDAC11 overexpression in mouse and human APCs
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“we also noted less IL-10 mRNA and more IL-12 mRNA in primary human dendritic cells (Fig. 2b)”
§ The histone deacetylase HDAC11 regulates the expression of interleukin 10 and immune tolerance > RESULTS > Effects of HDAC11 overexpression in mouse and human APCs
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In the paper
“we also noted less IL-10 mRNA and more IL-12 mRNA in primary human dendritic cells (Fig. 2b)”
§ The histone deacetylase HDAC11 regulates the expression of interleukin 10 and immune tolerance > RESULTS > Effects of HDAC11 overexpression in mouse and human APCs
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In the paper
“Here we show that HDAC11, a member of the HDAC histone deacetylase family with no prior defined physiological function, negatively regulated expression of the gene encoding interleukin 10 (IL-10) in APCs.”
- Also stated in: § Abstract · plain
“Here we show that histone deacetylase 11 (HDAC11), by interacting with the distal segment of the promoter of the gene encoding IL-10 (Il10), negatively regulated the expression of this cytokine in mouse and human APCs.”
§ The histone deacetylase HDAC11 regulates the expression of interleukin 10 and immune tolerance > Abstract
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- Probably not a substantial claim. 12
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In the paper
“In macrophages overexpressing HDAC11, we found a similar pattern of phosphorylation; the only difference was that after the peak at 30 min, there was a more rapid decrease in this phosphorylation (Fig. 4a).”
§ The histone deacetylase HDAC11 regulates the expression of interleukin 10 and immune tolerance > RESULTS > Changes in the Il10 promoter induced by HDAC11
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“In macrophages overexpressing HDAC11, binding of PU.1 to the distal promoter was already increased at time 0 and it increased further in response to LPS (Fig. 4g).”
§ The histone deacetylase HDAC11 regulates the expression of interleukin 10 and immune tolerance > RESULTS > Changes in the Il10 promoter induced by HDAC11
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“ChIP analysis of the distal promoter region of control macrophages showed that PU.1 binding reached a peak within 2 h and remained increased for the duration of the analysis (Fig. 4g).”
§ The histone deacetylase HDAC11 regulates the expression of interleukin 10 and immune tolerance > RESULTS > Changes in the Il10 promoter induced by HDAC11
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“binding of STAT3 to the proximal region of the Il10 promoter was evident within 60 min of LPS stimulation and reached its peak within 2 h in control macrophages (Fig. 4f)”
§ The histone deacetylase HDAC11 regulates the expression of interleukin 10 and immune tolerance > RESULTS > Changes in the Il10 promoter induced by HDAC11
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“HDAC11 was barely detected in the distal Il10 promoter of cells in which HDAC11 expression had been inhibited (Fig. 5h).”
§ The histone deacetylase HDAC11 regulates the expression of interleukin 10 and immune tolerance > RESULTS > Changes in the Il10 promoter in cells lacking HDAC11
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“In control macrophages, changes in HDAC11 were detectable 2 h after LPS stimulation, were modest in magnitude and returned to baseline within 3 h (Fig. 4h).”
§ The histone deacetylase HDAC11 regulates the expression of interleukin 10 and immune tolerance > RESULTS > Changes in the Il10 promoter induced by HDAC11
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“Conversely, disruption of HDAC11 in APCs led to upregulation of expression of the gene encoding IL-10 and impairment of antigen-specific T cell responses.”
§ The histone deacetylase HDAC11 regulates the expression of interleukin 10 and immune tolerance > Abstract
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“In macrophages overexpressing HDAC11, there was more binding of this molecule at time 0; it reached its peak within 2 h of LPS stimulation and was followed by a rapid return to baseline within 3 h (Fig. 4h).”
§ The histone deacetylase HDAC11 regulates the expression of interleukin 10 and immune tolerance > RESULTS > Changes in the Il10 promoter induced by HDAC11
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“Overexpression of HDAC11 inhibited IL-10 expression and induced inflammatory APCs that were able to prime naive T cells and restore the responsiveness of tolerant CD4+ T cells.”
§ The histone deacetylase HDAC11 regulates the expression of interleukin 10 and immune tolerance > Abstract
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“Indeed, anti-hemagglutinin CD4+ T cells reisolated from these mice had minimal production of IL-2 and lacked IFN-γ production in response to restimulation with hemagglutinin peptide presented by uninfected control PEMs (Fig. 7b).”
§ The histone deacetylase HDAC11 regulates the expression of interleukin 10 and immune tolerance > RESULTS > HDAC11 influences antigen-specific CD4+ T cell responses
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“This was followed by more acetylation of histones H3 and H4 and subsequent recruitment to the proximal promoter of the transcription factors Sp1 and STAT3.”
§ The histone deacetylase HDAC11 regulates the expression of interleukin 10 and immune tolerance > DISCUSSION
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“Notably, although we detected HDAC11 mainly in the distal promoter region, most inhibitory effects on histone acetylation and recruitment of transcription factors occurred in the proximal region of the Il10 promoter.”
§ The histone deacetylase HDAC11 regulates the expression of interleukin 10 and immune tolerance > DISCUSSION
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“In contrast to naive CD4+ T cells activated by APCs overexpressing HDAC11 (Fig. 7a), clonotypic CD4+ T cells encountering antigen in APCs lacking HDAC11 were functionally impaired, as they produced less IL-2 and lacked IFN-γ production (Fig. 7c) relative to the clonotypic T cells recognizing cognate antigen on wild-type RAW264.7 cells or RAW264.7 cells transduced with nontargeting shRNA.”
§ The histone deacetylase HDAC11 regulates the expression of interleukin 10 and immune tolerance > RESULTS > HDAC11 influences antigen-specific CD4+ T cell responses
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In the paper
“The additional demonstration that genetic manipulation of HDAC11 influenced the inflammatory status of APCs and their ability to determine the functional response of antigen-specific CD4+ T cells indicates that this molecule is a likely target for influencing APC-mediated immune activation versus immune tolerance.”
§ The histone deacetylase HDAC11 regulates the expression of interleukin 10 and immune tolerance > DISCUSSION
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“HDAC11 is a newly identified member of the HDAC family and thus far no known physiological function for HDAC11 has been demonstrated23.”
§ The histone deacetylase HDAC11 regulates the expression of interleukin 10 and immune tolerance > RESULTS > Histone deacetylases and Il10 expression
What the sources say
- Not checked yetcites [23] Gao, L., Cueto, M.A., Asselbergs, F. & Atadja, P. Cloning and functional characterization of HDAC11, a novel member of the human histone deacetylase family. J. Biol. Chem. 277, 25748–25755 (2002). source
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In the paper
“Published studies have shown that phosphorylation of histone H3 at the serine residue at position 10 (Ser10) is needed for transcriptional activation of the Il10 promoter24.”
§ The histone deacetylase HDAC11 regulates the expression of interleukin 10 and immune tolerance > RESULTS > Changes in the Il10 promoter induced by HDAC11
What the sources say
- Not checked yetcites [24] Lucas, M., Zhang, X., Prasanna, V. & Mosser, D.M. ERK activation following macrophage FcγR ligation leads to chromatin modifications at the IL-10 locus. J. Immunol. 175, 469–477 (2005). source
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In the paper
“PU.1 is a transcription repressor that interacts with the Il10 promoter27,28.”
§ The histone deacetylase HDAC11 regulates the expression of interleukin 10 and immune tolerance > RESULTS > Changes in the Il10 promoter induced by HDAC11
What the sources say
- Not checked yetcites [27] Reuss, E. et al. Differential regulation of interleukin-10 production by genetic and environmental factors - a twin study. Genes Immun. 3, 407–413 (2002). source
- Not checked yetcites [28] Suzuki, M., Yamada, T., Kihara-Negishi, F., Sakurai, T. & Oikawa, T. Direct association between PU.1 and MeCP2 that recruits mSin3A-HDAC complex for PU.1-mediated transcriptional repression. Oncogene 22, 8688–8698 (2003). source
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In the paper
“transcription factors known to interact with the Il10 promoter25,26.”
§ The histone deacetylase HDAC11 regulates the expression of interleukin 10 and immune tolerance > RESULTS > Changes in the Il10 promoter induced by HDAC11
What the sources say
- Not checked yetcites [25] Benkhart, E.M., Siedlar, M., Wedel, A., Werner, T. & Ziegler-Heitbrock, H.W. Role of Stat3 in lipopolysaccharide-induced IL-10 gene expression. J. Immunol. 165, 1612–1617 (2000). source
- Not checked yetcites [26] Tone, M., Powell, M.J., Tone, Y., Thompson, S.A.J. & Waldmann, H. IL-10 gene expression is controlled by the transcription factors Sp1 and Sp3. J. Immunol. 165, 286–291 (2000). source
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In the paper
“Such an effect not only determined the inflammatory status of these cells but also influenced priming versus tolerance of antigen-specific CD4+ T cells.”
§ The histone deacetylase HDAC11 regulates the expression of interleukin 10 and immune tolerance > Abstract
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In the paper
“Dynamic changes in the chromatin structure of the Il10 promoter in T cells differentiated into the TH1 or TH2 phenotype closely regulate IL-10 expression32.”
§ The histone deacetylase HDAC11 regulates the expression of interleukin 10 and immune tolerance > DISCUSSION
What the sources say
- Not checked yetcites [32] Im, S.-H., Hueber, A., Monticelli, S., Kang, K.-H. & Rao, A. Chromatin-level regulation of the IL10 gene in T cells. J. Biol. Chem. 279, 46818–46825 (2004). source
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In the paper
“All real-time RT-PCR experiments were repeated at least three times with similar results.”
§ The histone deacetylase HDAC11 regulates the expression of interleukin 10 and immune tolerance > METHODS > Real-time RT-PCR
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In the paper
“In support of that possibility, studies have shown that conformational chromatin changes can regulate the transcription of several genes31.”
§ The histone deacetylase HDAC11 regulates the expression of interleukin 10 and immune tolerance > DISCUSSION
What the sources say
- Not checked yetcites [31] West, A.G. & Fraser, P. Remote control of gene transcription. Hum. Mol. Genet. 14, R101–R111 (2005). source
plaindirect- Asserted: passes — The authors put it forward as true.
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In the paper
“Similarly, in macrophages, more acetylation of the Il10 promoter has been associated with enhanced transcription activity17.”
§ The histone deacetylase HDAC11 regulates the expression of interleukin 10 and immune tolerance > DISCUSSION
What the sources say
- Not checked yetcites [17] Zhang, X., Edwards, J.P. & Mosser, D.M. Dynamic and transient remodeling of the macrophage IL-10 promoter during transcription. J. Immunol. 177, 1282–1288 (2006). source
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In the paper
“These data collectively indicate that whereas overexpression of HDAC11 in APCs effectively activated naive antigen-specific CD4+ T cells and restored the responsiveness of tolerant T cells, APCs devoid of HDAC11 induced the opposite effect, resulting in impairment of antigen-specific CD4+ T cell responses.”
§ The histone deacetylase HDAC11 regulates the expression of interleukin 10 and immune tolerance > RESULTS > HDAC11 influences antigen-specific CD4+ T cell responses
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In the paper
“All assays were done in triplicate and protein expression was evaluated by immunoblot analysis.”
§ The histone deacetylase HDAC11 regulates the expression of interleukin 10 and immune tolerance > METHODS > Adenovirus and lentivirus infection, transient transfection and luciferase reporter assays
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- Based: passes — The paper gives a reason why it holds.
Probably not a substantial claim. The paper’s conclusions may not depend on it. 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
“Cells were infected in conditions and with titrations to minimize cellular death and to obtain at least 70–90% of the cell population expressing the protein of interest.”
§ The histone deacetylase HDAC11 regulates the expression of interleukin 10 and immune tolerance > METHODS > Adenovirus and lentivirus infection, transient transfection and luciferase reporter assays
plain- Asserted: passes — The authors put it forward as true.
- Checkable: passes — It can be checked against evidence.
- Load-bearing: fails — The paper’s conclusions may not depend on it.
- Based: passes — The paper gives a reason why it holds.
Probably 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 shRNA specific for HDAC11 was a combination of five sequences targeting different segments of HDAC11 mRNA. The nontargeting control shRNA was a single random sequence not present in the human or mouse genome.”
§ The histone deacetylase HDAC11 regulates the expression of interleukin 10 and immune tolerance > METHODS > Adenovirus and lentivirus infection, transient transfection and luciferase reporter assays
plain- Asserted: passes — The authors put it forward as true.
- Checkable: passes — It can be checked against evidence.
- Load-bearing: fails — The paper’s conclusions may not depend on it.
- Based: passes — The paper gives a reason why it holds.
Probably not a substantial claim. The paper’s conclusions may not depend on it. It may state two separate claims as one.
The paper relies on this without support.
IL-10 negatively regulates IL-12 expression.
“Given that IL-10 negatively regulates IL-12 expression, the presence of IL-10 in our experimental system might have masked a potential direct regulatory effect of HDAC11 on Il12 expression.”
The paper relies on this without support.
The in vitro antigen-presentation assays with PEMs and RAW264.7 cells reflect the functional response of antigen-specific CD4+ T cells in vivo.
“The additional demonstration that genetic manipulation of HDAC11 influenced the inflammatory status of APCs and their ability to determine the functional response of antigen-specific CD4+ T cells indicates that this molecule is a likely target for influencing APC-mediated immune activation versus immune tolerance.”
The paper relies on this without support.
The molecules involved and the sequence of events mediating chromatin modifications of the Il10 promoter are not fully understood.
“However, the molecules involved and the sequence of events mediating these chromatin modifications are not fully understood.”
The paper relies on this without support.
Little is known about the function of HDAC11 in normal and/or transformed cells.
“Although there is much information about its structure, enzymatic activity and tissue distribution23,30, little is known about the function of this HDAC in normal and/or transformed cells.”
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
“It has been known for several years that HDAC11 negatively controls IL-10 transcriptional activity in antigen-presenting cells and regulates immune tolerance (Villagra et al., 2009).”
From HDACs and the epigenetic plasticity of cancer cells: target the complexity (2022) · cites this paper as Villagra et al., 2009
In the citing paper
“Histone deacetylase 11 has been implicated in immune response cascades and shown to regulate the expression of the anti-inflammatory cytokine interleukin 10 (IL-10) by association with HDAC6 (Villagra et al., 2009).”
From Histone deacetylase 11 is an ε-N-Myristoyllysine hydrolase (2018) · cites this paper as Villagra et al., 2009
In the citing paper
“HDACs have been implicated in diverse biology including metabolism, inflammation, circadian rhythm, as well as neurological development and brain function (Guan et al., 2009; Villagra et al., 2009; Gräff et al., 2012; Jakovcevski and Akbarian, 2012; Falkenberg and Johnstone, 2014; Tough et al., 2016).”
From Histone deacetylase 11 is an ε-N-Myristoyllysine hydrolase (2018) · cites this paper as Villagra et al., 2009
In the citing paper
“It has been known for several years that HDAC11 negatively controls IL-10 transcriptional activity in antigen-presenting cells and regulates immune tolerance (Villagra et al., 2009).”
From HDACs and the epigenetic plasticity of cancer cells: target the complexity (2022) · cites this paper as Villagra et al., 2009
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Metadata
- Authors
- Villagra, A., Cheng, F., Wang, H.-W., Suarez, I., Glozak, M., Maurin, M., Nguyen, D., Wright, K. L., Atadja, P. W., Bhalla, K., Pinilla-Ibarz, J., Seto, E., & Sotomayor, E. M.
- Affiliations
- Moffitt Cancer Center (US)
- University of South Florida (US)
- Augusta University (US)
- Corresponding author
- Villagra, Alejandro
- Sotomayor, Eduardo M
- ORCID
- Venue
- Nature Immunology
- Published
- 2008-11-16
- Volume
- 10
- Issue
- 1
- Pages
- 92-100
- ISSN
- 1529-2908 (ISSN-L)
- 1529-2916
- PMC
- PMC3925685
- OpenAlex
- W1985845937
- Cited by
- 455
- References
- 39
- Citations by year
- 2026: 21 · 2025: 25 · 2024: 18 · 2023: 17 · 2022: 23 · 2021: 24 · 2020: 30 · 2019: 27 · 2018: 29 · 2017: 28 · 2016: 30 · 2015: 25 · 2014: 23 · 2013: 25 · 2012: 31
- FWCI
- 10.99
- Type
- journal article
- Language
- en
- Open access
- green
- www.ncbi.nlm.nih.gov
- Locations
- Nature Immunology (publishedVersion)
- PubMed (publishedVersion)
- Europe PMC (PubMed Central) (acceptedVersion)
- PubMed Central (acceptedVersion)
- Funders
- National Institutes of Health (5k08ca078656-03)
- National Cancer Institute (R01CA087583, CA78656, R01CA134807, R01CA100850, CA87583)
- Topics
- Life Sciences › Immunology and Microbiology › Immunology › T-cell and B-cell Immunology
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › Histone Deacetylase Inhibitors Research
- Life Sciences › Immunology and Microbiology › Immunology › Immunotherapy and Immune Responses
- Keywords
- HDAC11, histone deacetylase, IL-10, immune tolerance, antigen-presenting cells, T cell activation, T cell tolerance, inflammation, gene expression regulation, autoimmunity, transplantation, cancer immunotherapy
- MeSH terms
- Animals, Antigen-Presenting Cells, Cell Line, Gene Expression Regulation, Histone Deacetylases, Humans, Immune Tolerance, Lymphocyte Activation, Male, Mice, Inbred BALB C, CD4-Positive T-Lymphocytes, Down-Regulation, Interleukin-10, Mice
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