Brg1 modulates enhancer activation in mesoderm lineage commitment
Abstract
The interplay between different levels of gene regulation in modulating developmental transcriptional programs, such as histone modifications and chromatin remodeling, is not well understood. Here, we show that the chromatin remodeling factor Brg1 is required for enhancer activation in mesoderm induction. In an embryonic stem cell-based directed differentiation assay, the absence of Brg1 results in a failure of cardiomyocyte differentiation and broad deregulation of lineage-specific gene expression during mesoderm induction. We find that Brg1 co-localizes with H3K27ac at distal enhancers and is required for robust H3K27 acetylation at distal enhancers that are activated during mesoderm induction. Brg1 is also required to maintain Polycomb-mediated repression of non-mesodermal developmental regulators, suggesting cooperativity between Brg1 and Polycomb complexes. Thus, Brg1 is essential for modulating active and repressive chromatin states during mesoderm lineage commitment, in particular the activation of developmentally important enhancers. In conclusion, these findings demonstrate interplay between chromatin remodeling complexes and histone modifications that, together, ensure robust and broad gene regulation during crucial lineage commitment decisions.
- Authors:
-
- Gladstone Institute of Cardiovascular Disease, San Francisco, CA (United States); Roddenberry Center for Stem Cell Biology and Medicine at Gladstone, San Francisco, CA (United States)
- Institute of Medical Biology (Singapore). A*STAR
- Lawrence Berkeley National Lab. (LBNL), Berkeley, CA (United States); DOE Joint Genome Institute, Walnut Creek, CA (United States)
- Gladstone Institute of Cardiovascular Disease, San Francisco, CA (United States); Roddenberry Center for Stem Cell Biology and Medicine at Gladstone, San Francisco, CA (United States); Univ. of California, San Francisco, CA (United States)
- Publication Date:
- Research Org.:
- Lawrence Berkeley National Laboratory (LBNL), Berkeley, CA (United States)
- Sponsoring Org.:
- USDOE
- OSTI Identifier:
- 1256947
- Grant/Contract Number:
- AC02-05CH11231; R01HG003988; U54HG006997; U01DE020060NIH
- Resource Type:
- Journal Article: Accepted Manuscript
- Journal Name:
- Development (Cambridge)
- Additional Journal Information:
- Journal Volume: 142; Journal Issue: 8; Journal ID: ISSN 0950-1991
- Country of Publication:
- United States
- Language:
- English
- Subject:
- 59 BASIC BIOLOGICAL SCIENCES; Chromatin; Enhancers; Gene expression; Histone modification; Mesoderm; Stem cells
Citation Formats
Alexander, Jeffrey M., Hota, Swetansu K., He, Daniel, Thomas, Sean, Ho, Lena, Pennacchio, Len A., and Bruneau, B. G. Brg1 modulates enhancer activation in mesoderm lineage commitment. United States: N. p., 2015.
Web. doi:10.1242/dev.109496.
Alexander, Jeffrey M., Hota, Swetansu K., He, Daniel, Thomas, Sean, Ho, Lena, Pennacchio, Len A., & Bruneau, B. G. Brg1 modulates enhancer activation in mesoderm lineage commitment. United States. https://doi.org/10.1242/dev.109496
Alexander, Jeffrey M., Hota, Swetansu K., He, Daniel, Thomas, Sean, Ho, Lena, Pennacchio, Len A., and Bruneau, B. G. 2015.
"Brg1 modulates enhancer activation in mesoderm lineage commitment". United States. https://doi.org/10.1242/dev.109496. https://www.osti.gov/servlets/purl/1256947.
@article{osti_1256947,
title = {Brg1 modulates enhancer activation in mesoderm lineage commitment},
author = {Alexander, Jeffrey M. and Hota, Swetansu K. and He, Daniel and Thomas, Sean and Ho, Lena and Pennacchio, Len A. and Bruneau, B. G.},
abstractNote = {The interplay between different levels of gene regulation in modulating developmental transcriptional programs, such as histone modifications and chromatin remodeling, is not well understood. Here, we show that the chromatin remodeling factor Brg1 is required for enhancer activation in mesoderm induction. In an embryonic stem cell-based directed differentiation assay, the absence of Brg1 results in a failure of cardiomyocyte differentiation and broad deregulation of lineage-specific gene expression during mesoderm induction. We find that Brg1 co-localizes with H3K27ac at distal enhancers and is required for robust H3K27 acetylation at distal enhancers that are activated during mesoderm induction. Brg1 is also required to maintain Polycomb-mediated repression of non-mesodermal developmental regulators, suggesting cooperativity between Brg1 and Polycomb complexes. Thus, Brg1 is essential for modulating active and repressive chromatin states during mesoderm lineage commitment, in particular the activation of developmentally important enhancers. In conclusion, these findings demonstrate interplay between chromatin remodeling complexes and histone modifications that, together, ensure robust and broad gene regulation during crucial lineage commitment decisions.},
doi = {10.1242/dev.109496},
url = {https://www.osti.gov/biblio/1256947},
journal = {Development (Cambridge)},
issn = {0950-1991},
number = 8,
volume = 142,
place = {United States},
year = {Thu Mar 26 00:00:00 EDT 2015},
month = {Thu Mar 26 00:00:00 EDT 2015}
}
Web of Science
Works referenced in this record:
Tissue-specific SMARCA4 binding at active and repressed regulatory elements during embryogenesis
journal, April 2014
- Attanasio, C.; Nord, A. S.; Zhu, Y.
- Genome Research, Vol. 24, Issue 6
Signaling Gradients during Paraxial Mesoderm Development
journal, July 2009
- Aulehla, A.; Pourquie, O.
- Cold Spring Harbor Perspectives in Biology, Vol. 2, Issue 2
A Brg1 mutation that uncouples ATPase activity from chromatin remodeling reveals an essential role for SWI/SNF-related complexes in -globin expression and erythroid development
journal, December 2005
- Bultman, S. J.
- Genes & Development, Vol. 19, Issue 23
Coordinate Nodal and BMP inhibition directs Baf60c-dependent cardiomyocyte commitment
journal, November 2013
- Cai, W.; Albini, S.; Wei, K.
- Genes & Development, Vol. 27, Issue 21
Modification of Enhancer Chromatin: What, How, and Why?
journal, March 2013
- Calo, Eliezer; Wysocka, Joanna
- Molecular Cell, Vol. 49, Issue 5
SDF-1-Enhanced Cardiogenesis Requires CXCR4 Induction in Pluripotent Stem Cells
journal, September 2010
- Chiriac, Anca; Terzic, Andre; Park, Sungjo
- Journal of Cardiovascular Translational Research, Vol. 3, Issue 6
Mapping and analysis of chromatin state dynamics in nine human cell types
journal, March 2011
- Ernst, Jason; Kheradpour, Pouya; Mikkelsen, Tarjei S.
- Nature, Vol. 473, Issue 7345
Diverse Roles and Interactions of the SWI/SNF Chromatin Remodeling Complex Revealed Using Global Approaches
journal, March 2011
- Euskirchen, Ghia M.; Auerbach, Raymond K.; Davidov, Eugene
- PLoS Genetics, Vol. 7, Issue 3
Genome-wide identification of Isw2 chromatin-remodeling targets by localization of a catalytically inactive mutant
journal, April 2005
- Gelbart, M. E.
- Genes & Development, Vol. 19, Issue 8
Bop encodes a muscle-restricted protein containing MYND and SET domains and is essential for cardiac differentiation and morphogenesis
journal, April 2002
- Gottlieb, Paul D.; Pierce, Stephanie A.; Sims, Robert J.
- Nature Genetics, Vol. 31, Issue 1
Chromatin regulation by Brg1 underlies heart muscle development and disease
journal, July 2010
- Hang, Calvin T.; Yang, Jin; Han, Pei
- Nature, Vol. 466, Issue 7302
Super-Enhancers in the Control of Cell Identity and Disease
journal, November 2013
- Hnisz, Denes; Abraham, Brian J.; Lee, Tong Ihn
- Cell, Vol. 155, Issue 4
Chromatin remodelling during development
journal, January 2010
- Ho, Lena; Crabtree, Gerald R.
- Nature, Vol. 463, Issue 7280
An embryonic stem cell chromatin remodeling complex, esBAF, is essential for embryonic stem cell self-renewal and pluripotency
journal, March 2009
- Ho, L.; Ronan, J. L.; Wu, J.
- Proceedings of the National Academy of Sciences, Vol. 106, Issue 13
esBAF facilitates pluripotency by conditioning the genome for LIF/STAT3 signalling and by regulating polycomb function
journal, July 2011
- Ho, Lena; Miller, Erik L.; Ronan, Jehnna L.
- Nature Cell Biology, Vol. 13, Issue 8
Regulation of nucleosome landscape and transcription factor targeting at tissue-specific enhancers by BRG1
journal, July 2011
- Hu, G.; Schones, D. E.; Cui, K.
- Genome Research, Vol. 21, Issue 10
Molecular basis for Flk1 expression in hemato-cardiovascular progenitors in the mouse
journal, December 2011
- Ishitobi, Hiroyuki; Wakamatsu, Asami; Liu, Fang
- Development, Vol. 138, Issue 24
Role for Dpy-30 in ES Cell-Fate Specification by Regulation of H3K4 Methylation within Bivalent Domains
journal, February 2011
- Jiang, Hao; Shukla, Abhijit; Wang, Xiaoling
- Cell, Vol. 144, Issue 4
Stage-Specific Optimization of Activin/Nodal and BMP Signaling Promotes Cardiac Differentiation of Mouse and Human Pluripotent Stem Cell Lines
journal, February 2011
- Kattman, Steven J.; Witty, Alec D.; Gagliardi, Mark
- Cell Stem Cell, Vol. 8, Issue 2
Genomewide Analysis of PRC1 and PRC2 Occupancy Identifies Two Classes of Bivalent Domains
journal, October 2008
- Ku, Manching; Koche, Richard P.; Rheinbay, Esther
- PLoS Genetics, Vol. 4, Issue 10
Nucleosome disruption and enhancement of activator binding by a human SW1/SNF complex
journal, August 1994
- Kwon, Hyockman; Imbalzano, Anthony N.; Khavari, Paul A.
- Nature, Vol. 370, Issue 6489
Ultrafast and memory-efficient alignment of short DNA sequences to the human genome
journal, January 2009
- Langmead, Ben; Trapnell, Cole; Pop, Mihai
- Genome Biology, Vol. 10, Issue 3
Control of Developmental Regulators by Polycomb in Human Embryonic Stem Cells
journal, April 2006
- Lee, Tong Ihn; Jenner, Richard G.; Boyer, Laurie A.
- Cell, Vol. 125, Issue 2
Connecting microRNA Genes to the Core Transcriptional Regulatory Circuitry of Embryonic Stem Cells
journal, August 2008
- Marson, Alexander; Levine, Stuart S.; Cole, Megan F.
- Cell, Vol. 134, Issue 3
Overlapping chromatin-remodeling systems collaborate genome wide at dynamic chromatin transitions
journal, December 2013
- Morris, Stephanie A.; Baek, Songjoon; Sung, Myong-Hee
- Nature Structural & Molecular Biology, Vol. 21, Issue 1
CXCR4 + /FLK-1 + Biomarkers Select a Cardiopoietic Lineage from Embryonic Stem Cells
journal, June 2008
- Nelson, Timothy J.; Faustino, Randolph S.; Chiriac, Anca
- Stem Cells, Vol. 26, Issue 6
Empirical methods for controlling false positives and estimating confidence in ChIP-Seq peaks
journal, December 2008
- Nix, David A.; Courdy, Samir J.; Boucher, Kenneth M.
- BMC Bioinformatics, Vol. 9, Issue 1
DNA Methyltransferases Dnmt3a and Dnmt3b Are Essential for De Novo Methylation and Mammalian Development
journal, October 1999
- Okano, Masaki; Bell, Daphne W.; Haber, Daniel A.
- Cell, Vol. 99, Issue 3
Chromatin stretch enhancer states drive cell-specific gene regulation and harbor human disease risk variants
journal, October 2013
- Parker, S. C. J.; Stitzel, M. L.; Taylor, D. L.
- Proceedings of the National Academy of Sciences, Vol. 110, Issue 44
A unique chromatin signature uncovers early developmental enhancers in humans
journal, December 2010
- Rada-Iglesias, Alvaro; Bajpai, Ruchi; Swigut, Tomek
- Nature, Vol. 470, Issue 7333
Altered control of cellular proliferation in the absence of mammalian brahma (SNF2α)
journal, December 1998
- Reyes, J. C.; Barra, J.; Muchardt, C.
- The EMBO Journal, Vol. 17, Issue 23
Genome-wide characterization of chromatin binding and nucleosome spacing activity of the nucleosome remodelling ATPase ISWI: ISWI chromatin binding and remodelling in higher eukaryotes
journal, March 2011
- Sala, Anna; Toto, Maria; Pinello, Luca
- The EMBO Journal, Vol. 30, Issue 9
Development of an Illumina-based ChIP-exonuclease method provides insight into FoxA1-DNA binding properties
journal, January 2013
- Serandour, Aurelien A.; Brown, Gordon D.; Cohen, Joshua D.
- Genome Biology, Vol. 14, Issue 12
Role of SWI/SNF in acute leukemia maintenance and enhancer-mediated Myc regulation
journal, November 2013
- Shi, J.; Whyte, W. A.; Zepeda-Mendoza, C. J.
- Genes & Development, Vol. 27, Issue 24
Endocardial Brg1 Represses ADAMTS1 to Maintain the Microenvironment for Myocardial Morphogenesis
journal, February 2008
- Stankunas, Kryn; Hang, Calvin T.; Tsun, Zhi-Yang
- Developmental Cell, Vol. 14, Issue 2
Polycomb Group Proteins Set the Stage for Early Lineage Commitment
journal, September 2010
- Surface, Lauren E.; Thornton, Seraphim R.; Boyer, Laurie A.
- Cell Stem Cell, Vol. 7, Issue 3
Directed transdifferentiation of mouse mesoderm to heart tissue by defined factors
journal, April 2009
- Takeuchi, Jun K.; Bruneau, Benoit G.
- Nature, Vol. 459, Issue 7247
Chromatin remodelling complex dosage modulates transcription factor function in heart development
journal, February 2011
- Takeuchi, Jun K.; Lou, Xin; Alexander, Jeffrey M.
- Nature Communications, Vol. 2, Issue 1
brahma: A regulator of Drosophila homeotic genes structurally related to the yeast transcriptional activator SNF2SWI2
journal, February 1992
- Tamkun, John W.; Deuring, Renate; Scott, Matthew P.
- Cell, Vol. 68, Issue 3
Dynamic and Coordinated Epigenetic Regulation of Developmental Transitions in the Cardiac Lineage
journal, September 2012
- Wamstad, Joseph A.; Alexander, Jeffrey M.; Truty, Rebecca M.
- Cell, Vol. 151, Issue 1
Purification and biochemical heterogeneity of the mammalian SWI-SNF complex.
journal, October 1996
- Wang, W.; Côté, J.; Xue, Y.
- The EMBO Journal, Vol. 15, Issue 19
Master Transcription Factors and Mediator Establish Super-Enhancers at Key Cell Identity Genes
journal, April 2013
- Whyte, Warren A.; Orlando, David A.; Hnisz, Denes
- Cell, Vol. 153, Issue 2
Understanding the Words of Chromatin Regulation
journal, January 2009
- Wu, Jiang I.; Lessard, Julie; Crabtree, Gerald R.
- Cell, Vol. 136, Issue 2
Olig2 Targets Chromatin Remodelers to Enhancers to Initiate Oligodendrocyte Differentiation
journal, January 2013
- Yu, Yang; Chen, Ying; Kim, Bongwoo
- Cell, Vol. 152, Issue 1-2
Dense Chromatin Activates Polycomb Repressive Complex 2 to Regulate H3 Lysine 27 Methylation
journal, August 2012
- Yuan, W.; Wu, T.; Fu, H.
- Science, Vol. 337, Issue 6097
Class II Histone Deacetylases Act as Signal-Responsive Repressors of Cardiac Hypertrophy
journal, August 2002
- Zhang, Chun Li; McKinsey, Timothy A.; Chang, Shurong
- Cell, Vol. 110, Issue 4
Charting histone modifications and the functional organization of mammalian genomes
journal, November 2010
- Zhou, Vicky W.; Goren, Alon; Bernstein, Bradley E.
- Nature Reviews Genetics, Vol. 12, Issue 1
Control of Developmental Regulators by Polycomb in Human Embryonic Stem Cells
journal, April 2006
- Lee, Tong Ihn; Jenner, Richard G.; Boyer, Laurie A.
- Cell, Vol. 125, Issue 2
Connecting microRNA Genes to the Core Transcriptional Regulatory Circuitry of Embryonic Stem Cells
journal, August 2008
- Marson, Alexander; Levine, Stuart S.; Cole, Megan F.
- Cell, Vol. 134, Issue 3
Role for Dpy-30 in ES Cell-Fate Specification by Regulation of H3K4 Methylation within Bivalent Domains
journal, February 2011
- Jiang, Hao; Shukla, Abhijit; Wang, Xiaoling
- Cell, Vol. 144, Issue 4
Dynamic and Coordinated Epigenetic Regulation of Developmental Transitions in the Cardiac Lineage
journal, September 2012
- Wamstad, Joseph A.; Alexander, Jeffrey M.; Truty, Rebecca M.
- Cell, Vol. 151, Issue 1
Olig2 Targets Chromatin Remodelers to Enhancers to Initiate Oligodendrocyte Differentiation
journal, January 2013
- Yu, Yang; Chen, Ying; Kim, Bongwoo
- Cell, Vol. 152, Issue 1-2
Master Transcription Factors and Mediator Establish Super-Enhancers at Key Cell Identity Genes
journal, April 2013
- Whyte, Warren A.; Orlando, David A.; Hnisz, Denes
- Cell, Vol. 153, Issue 2
Super-Enhancers in the Control of Cell Identity and Disease
journal, November 2013
- Hnisz, Denes; Abraham, Brian J.; Lee, Tong Ihn
- Cell, Vol. 155, Issue 4
Endocardial Brg1 Represses ADAMTS1 to Maintain the Microenvironment for Myocardial Morphogenesis
journal, February 2008
- Stankunas, Kryn; Hang, Calvin T.; Tsun, Zhi-Yang
- Developmental Cell, Vol. 14, Issue 2
Modification of Enhancer Chromatin: What, How, and Why?
journal, March 2013
- Calo, Eliezer; Wysocka, Joanna
- Molecular Cell, Vol. 49, Issue 5
Polycomb Group Proteins Set the Stage for Early Lineage Commitment
journal, September 2010
- Surface, Lauren E.; Thornton, Seraphim R.; Boyer, Laurie A.
- Cell Stem Cell, Vol. 7, Issue 3
Stage-Specific Optimization of Activin/Nodal and BMP Signaling Promotes Cardiac Differentiation of Mouse and Human Pluripotent Stem Cell Lines
journal, February 2011
- Kattman, Steven J.; Witty, Alec D.; Gagliardi, Mark
- Cell Stem Cell, Vol. 8, Issue 2
Ordered Recruitment of Chromatin Modifying and General Transcription Factors to the IFN-β Promoter
journal, November 2000
- Agalioti, Theodora; Lomvardas, Stavros; Parekh, Bhavin
- Cell, Vol. 103, Issue 4
Transcriptional regulation of Mesp1 and Mesp2 genes: differential usage of enhancers during development
journal, October 2001
- Haraguchi, Seiki; Kitajima, Satoshi; Takagi, Atsuya
- Mechanisms of Development, Vol. 108, Issue 1-2
A Brg1 Null Mutation in the Mouse Reveals Functional Differences among Mammalian SWI/SNF Complexes
journal, December 2000
- Bultman, Scott; Gebuhr, Tom; Yee, Della
- Molecular Cell, Vol. 6, Issue 6
Nucleosome disruption and enhancement of activator binding by a human SW1/SNF complex
journal, August 1994
- Kwon, Hyockman; Imbalzano, Anthony N.; Khavari, Paul A.
- Nature, Vol. 370, Issue 6489
Genome-wide characterization of chromatin binding and nucleosome spacing activity of the nucleosome remodelling ATPase ISWI: ISWI chromatin binding and remodelling in higher eukaryotes
journal, March 2011
- Sala, Anna; Toto, Maria; Pinello, Luca
- The EMBO Journal, Vol. 30, Issue 9
Chromatin remodelling during development
journal, January 2010
- Ho, Lena; Crabtree, Gerald R.
- Nature, Vol. 463, Issue 7280
Chromatin regulation by Brg1 underlies heart muscle development and disease
journal, July 2010
- Hang, Calvin T.; Yang, Jin; Han, Pei
- Nature, Vol. 466, Issue 7302
A unique chromatin signature uncovers early developmental enhancers in humans
journal, December 2010
- Rada-Iglesias, Alvaro; Bajpai, Ruchi; Swigut, Tomek
- Nature, Vol. 470, Issue 7333
Mapping and analysis of chromatin state dynamics in nine human cell types
journal, March 2011
- Ernst, Jason; Kheradpour, Pouya; Mikkelsen, Tarjei S.
- Nature, Vol. 473, Issue 7345
esBAF facilitates pluripotency by conditioning the genome for LIF/STAT3 signalling and by regulating polycomb function
journal, July 2011
- Ho, Lena; Miller, Erik L.; Ronan, Jehnna L.
- Nature Cell Biology, Vol. 13, Issue 8
Uncertainty in soil data can outweigh climate impact signals in global crop yield simulations
journal, June 2016
- Folberth, Christian; Skalský, Rastislav; Moltchanova, Elena
- Nature Communications, Vol. 7, Issue 1
Bop encodes a muscle-restricted protein containing MYND and SET domains and is essential for cardiac differentiation and morphogenesis
journal, April 2002
- Gottlieb, Paul D.; Pierce, Stephanie A.; Sims, Robert J.
- Nature Genetics, Vol. 31, Issue 1
Overlapping chromatin-remodeling systems collaborate genome wide at dynamic chromatin transitions
journal, December 2013
- Morris, Stephanie A.; Baek, Songjoon; Sung, Myong-Hee
- Nature Structural & Molecular Biology, Vol. 21, Issue 1
An embryonic stem cell chromatin remodeling complex, esBAF, is essential for embryonic stem cell self-renewal and pluripotency
journal, March 2009
- Ho, L.; Ronan, J. L.; Wu, J.
- Proceedings of the National Academy of Sciences, Vol. 106, Issue 13
Chromatin stretch enhancer states drive cell-specific gene regulation and harbor human disease risk variants
journal, October 2013
- Parker, S. C. J.; Stitzel, M. L.; Taylor, D. L.
- Proceedings of the National Academy of Sciences, Vol. 110, Issue 44
Altered control of cellular proliferation in the absence of mammalian brahma (SNF2α)
journal, December 1998
- Reyes, J. C.; Barra, J.; Muchardt, C.
- The EMBO Journal, Vol. 17, Issue 23
Signaling Gradients during Paraxial Mesoderm Development
journal, July 2009
- Aulehla, A.; Pourquie, O.
- Cold Spring Harbor Perspectives in Biology, Vol. 2, Issue 2
A Brg1 mutation that uncouples ATPase activity from chromatin remodeling reveals an essential role for SWI/SNF-related complexes in -globin expression and erythroid development
journal, December 2005
- Bultman, S. J.
- Genes & Development, Vol. 19, Issue 23
Coordinate Nodal and BMP inhibition directs Baf60c-dependent cardiomyocyte commitment
journal, November 2013
- Cai, W.; Albini, S.; Wei, K.
- Genes & Development, Vol. 27, Issue 21
Regulation of nucleosome landscape and transcription factor targeting at tissue-specific enhancers by BRG1
journal, July 2011
- Hu, G.; Schones, D. E.; Cui, K.
- Genome Research, Vol. 21, Issue 10
Tissue-specific SMARCA4 binding at active and repressed regulatory elements during embryogenesis
journal, April 2014
- Attanasio, C.; Nord, A. S.; Zhu, Y.
- Genome Research, Vol. 24, Issue 6
Dense Chromatin Activates Polycomb Repressive Complex 2 to Regulate H3 Lysine 27 Methylation
journal, August 2012
- Yuan, W.; Wu, T.; Fu, H.
- Science, Vol. 337, Issue 6097
Histone Demethylase UTX and Chromatin Remodeler BRM Bind Directly to CBP and Modulate Acetylation of Histone H3 Lysine 27
journal, June 2012
- Tie, Feng; Banerjee, Rakhee; Conrad, Patricia A.
- Molecular and Cellular Biology, Vol. 32, Issue 12
The Mouse Snail Gene Encodes a Key Regulator of the Epithelial-Mesenchymal Transition
journal, December 2001
- Carver, Ethan A.; Jiang, Rulang; Lan, Yu
- Molecular and Cellular Biology, Vol. 21, Issue 23
Empirical methods for controlling false positives and estimating confidence in ChIP-Seq peaks
journal, December 2008
- Nix, David A.; Courdy, Samir J.; Boucher, Kenneth M.
- BMC Bioinformatics, Vol. 9, Issue 1
Diverse Roles and Interactions of the SWI/SNF Chromatin Remodeling Complex Revealed Using Global Approaches
journal, March 2011
- Euskirchen, Ghia M.; Auerbach, Raymond K.; Davidov, Eugene
- PLoS Genetics, Vol. 7, Issue 3
CXCR4 + /FLK-1 + Biomarkers Select a Cardiopoietic Lineage from Embryonic Stem Cells
journal, June 2008
- Nelson, Timothy J.; Faustino, Randolph S.; Chiriac, Anca
- Stem Cells, Vol. 26, Issue 6
Development of an Illumina-based ChIP-exonuclease method provides insight into FoxA1-DNA binding properties.
journalarticle, January 2013
- Serandour, Aurelien A.; Brown, Gordon D.; Cohen, Joshua D.
- Springer Science and Business Media LLC
Works referencing / citing this record:
Oncogene-dependent function of BRG1 in hepatocarcinogenesis
journal, February 2020
- Wang, Pan; Song, Xinhua; Cao, Dan
- Cell Death & Disease, Vol. 11, Issue 2
Loss of the Polycomb group protein Rnf2 results in derepression of tbx-transcription factors and defects in embryonic and cardiac development
journal, March 2019
- Chrispijn, Naomi D.; Elurbe, Dei M.; Mickoleit, Michaela
- Scientific Reports, Vol. 9, Issue 1
Baf53a is involved in survival of mouse ES cells, which can be compensated by Baf53b
journal, October 2017
- Zhu, Bo; Ueda, Atsushi; Song, Xiaohong
- Scientific Reports, Vol. 7, Issue 1
The SWI/SNF chromatin remodelling complex is required for maintenance of lineage specific enhancers
journal, March 2017
- Alver, Burak H.; Kim, Kimberly H.; Lu, Ping
- Nature Communications, Vol. 8, Issue 1
Chromatin remodeling and bivalent histone modifications in embryonic stem cells
journal, October 2015
- Harikumar, Arigela; Meshorer, Eran
- EMBO reports, Vol. 16, Issue 12
EOMES interacts with RUNX3 and BRG1 to promote innate memory cell formation through epigenetic reprogramming
journal, July 2019
- Istaces, Nicolas; Splittgerber, Marion; Lima Silva, Viviana
- Nature Communications, Vol. 10, Issue 1
Epigenomes in Cardiovascular Disease
journal, May 2018
- Rosa-Garrido, Manuel; Chapski, Douglas J.; Vondriska, Thomas M.
- Circulation Research, Vol. 122, Issue 11
Genome-wide identification of novel intergenic enhancer-like elements: implications in the regulation of transcription in Plasmodium falciparum
journal, August 2017
- Ubhe, Suyog; Rawat, Mukul; Verma, Srikant
- BMC Genomics, Vol. 18, Issue 1
Pioneering function of Isl1 in the epigenetic control of cardiomyocyte cell fate
journal, April 2019
- Gao, Rui; Liang, Xingqun; Cheedipudi, Sirisha
- Cell Research, Vol. 29, Issue 6
Cdx2 Regulates Gene Expression through Recruitment of Brg1-associated Switch-Sucrose Non-fermentable (SWI-SNF) Chromatin Remodeling Activity
journal, January 2017
- Nguyen, Thinh T.; Savory, Joanne G. A.; Brooke-Bisschop, Travis
- Journal of Biological Chemistry, Vol. 292, Issue 8
Tumor suppressor SMARCB1 suppresses super-enhancers to govern hESC lineage determination
journal, April 2019
- Langer, Lee F.; Ward, James M.; Archer, Trevor K.
- eLife, Vol. 8
Mammalian SWI/SNF collaborates with a polycomb-associated protein to regulate male germ line transcription in the mouse
posted_content, November 2018
- Menon, Debashish U.; Shibata, Yoichiro; Mu, Weipeng
- bioRxiv
Chromatin Remodeling BAF (SWI/SNF) Complexes in Neural Development and Disorders
journal, August 2017
- Sokpor, Godwin; Xie, Yuanbin; Rosenbusch, Joachim
- Frontiers in Molecular Neuroscience, Vol. 10
Dynamic BAF chromatin remodeling complex subunit inclusion promotes temporally distinct gene expression programs in cardiogenesis
journal, February 2019
- Hota, Swetansu K.; Johnson, Jeffrey R.; Verschueren, Erik
- Development, Vol. 146, Issue 19
mSWI/SNF promotes polycomb repression both directly and through genome-wide redistribution
posted_content, December 2020
- Weber, Christopher M.; Hafner, Antonina; Braun, Simon M. G.
- bioRxiv
SMARCB1-mediated SWI/SNF complex function is essential for enhancer regulation
journal, December 2016
- Wang, Xiaofeng; Lee, Ryan S.; Alver, Burak H.
- Nature Genetics, Vol. 49, Issue 2
β‐Actin‐dependent global chromatin organization and gene expression programs control cellular identity
journal, January 2018
- Xie, Xin; Almuzzaini, Bader; Drou, Nizar
- The FASEB Journal, Vol. 32, Issue 3
SMARCA4 loss is synthetic lethal with CDK4/6 inhibition in non-small cell lung cancer
journal, February 2019
- Xue, Yibo; Meehan, Brian; Fu, Zheng
- Nature Communications, Vol. 10, Issue 1
A Mass Spectrometry Survey of Chromatin‐Associated Proteins in Pluripotency and Early Lineage Commitment
journal, July 2019
- Mierlo, Guido; Wester, Roelof Alexander; Marks, Hendrik
- PROTEOMICS
ARID1A loss impairs enhancer-mediated gene regulation and drives colon cancer in mice
journal, December 2016
- Mathur, Radhika; Alver, Burak H.; San Roman, Adrianna K.
- Nature Genetics, Vol. 49, Issue 2
Altered expression of BRG1 and histone demethylases, and aberrant H3K4 methylation in less developmentally competent embryos at the time of embryonic genome activation: H3K4 M ETHYLATION AND E MBRYO D EVELOPMENT
journal, December 2016
- Glanzner, Werner G.; Wachter, Audrey; Coutinho, Ana Rita S.
- Molecular Reproduction and Development, Vol. 84, Issue 1
Chromatin Remodeling Factor BRG1 Regulates Stemness and Chemosensitivity of Glioma Initiating Cells: BRG1 Regulates GBM Stemness and Chemosensitivity
journal, November 2018
- Ganguly, Debolina; Sims, Michelle; Cai, Chun
- STEM CELLS, Vol. 36, Issue 12
The chromatin regulator Brg1 suppresses formation of intraductal papillary mucinous neoplasm and pancreatic ductal adenocarcinoma
journal, February 2014
- von Figura, Guido; Fukuda, Akihisa; Roy, Nilotpal
- Nature Cell Biology, Vol. 16, Issue 3
Role of Epigenetics in Cardiac Development and Congenital Diseases
journal, October 2018
- Moore-Morris, Thomas; van Vliet, Patrick Piet; Andelfinger, Gregor
- Physiological Reviews, Vol. 98, Issue 4
Role of Cdx factors in early mesodermal fate decisions
journal, April 2019
- Foley, Tanya E.; Hess, Bradley; Savory, Joanne G. A.
- Development, Vol. 146, Issue 7
mSWI/SNF promotes Polycomb repression both directly and through genome-wide redistribution
journal, June 2021
- Weber, Christopher M.; Hafner, Antonina; Kirkland, Jacob G.
- Nature Structural & Molecular Biology, Vol. 28, Issue 6
Mammalian SWI/SNF collaborates with a polycomb-associated protein to regulate male germ line transcription in the mouse
journal, January 2019
- Menon, Debashish U.; Shibata, Yoichiro; Mu, Weipeng
- Development
The SWI/SNF chromatin remodelling complex is required for maintenance of lineage specific enhancers
journal, March 2017
- Alver, Burak H.; Kim, Kimberly H.; Lu, Ping
- Nature Communications, Vol. 8, Issue 1
ARID1A loss impairs enhancer-mediated gene regulation and drives colon cancer in mice
journal, December 2016
- Mathur, Radhika; Alver, Burak H.; San Roman, Adrianna K.
- Nature Genetics, Vol. 49, Issue 2
Oncogene-dependent function of BRG1 in hepatocarcinogenesis
journal, February 2020
- Wang, Pan; Song, Xinhua; Cao, Dan
- Cell Death & Disease, Vol. 11, Issue 2
Pioneering function of Isl1 in the epigenetic control of cardiomyocyte cell fate
journal, April 2019
- Gao, Rui; Liang, Xingqun; Cheedipudi, Sirisha
- Cell Research, Vol. 29, Issue 6
EOMES interacts with RUNX3 and BRG1 to promote innate memory cell formation through epigenetic reprogramming
journal, July 2019
- Istaces, Nicolas; Splittgerber, Marion; Lima Silva, Viviana
- Nature Communications, Vol. 10, Issue 1
Baf53a is involved in survival of mouse ES cells, which can be compensated by Baf53b
journal, October 2017
- Zhu, Bo; Ueda, Atsushi; Song, Xiaohong
- Scientific Reports, Vol. 7, Issue 1
BAF chromatin remodeling complex subunit diversity promotes temporally distinct gene expression programs in cardiogenesis
posted_content, October 2018
- Hota, Swetansu K.; Johnson, Jeffrey R.; Verschueren, Erik
- bioRxiv
SWI/SNF component BAF250a coordinates OCT4 and WNT signaling pathway to control cardiac lineage differentiation
posted_content, January 2019
- Lei, Ienglam; Tian, Shuo; Chen, Victor
- bioRxiv
Epigenomes in Cardiovascular Disease
journal, May 2018
- Rosa-Garrido, Manuel; Chapski, Douglas J.; Vondriska, Thomas M.
- Circulation Research, Vol. 122, Issue 11
KMT2D regulates specific programs in heart development via histone H3 lysine 4 di-methylation
journal, March 2016
- Ang, Siang-Yun; Uebersohn, Alec; Spencer, C. Ian
- Development, Vol. 143, Issue 5
Dynamic BAF chromatin remodeling complex subunit inclusion promotes temporally distinct gene expression programs in cardiogenesis
journal, February 2019
- Hota, Swetansu K.; Johnson, Jeffrey R.; Verschueren, Erik
- Development, Vol. 146, Issue 19
Genome-Wide Transcriptional Regulation Mediated by Biochemically Distinct SWI/SNF Complexes
journal, December 2015
- Raab, Jesse R.; Resnick, Samuel; Magnuson, Terry
- PLOS Genetics, Vol. 11, Issue 12
Brg1 chromatin remodeling ATPase balances germ layer patterning by amplifying the transcriptional burst at midblastula transition
journal, May 2017
- Wagner, Gabriele; Singhal, Nishant; Nicetto, Dario
- PLOS Genetics, Vol. 13, Issue 5
BRG1 targeting STAT3/VEGFC signaling regulates lymphangiogenesis in colorectal cancer
journal, April 2016
- Zhu, Xu; Sun, Li; Lan, Jingqin
- Oncotarget, Vol. 7, Issue 24
Activation of TWIST Transcription by Chromatin Remodeling Protein BRG1 Contributes to Liver Fibrosis in Mice
journal, May 2020
- Dong, Wenhui; Kong, Ming; Zhu, Yuwen
- Frontiers in Cell and Developmental Biology, Vol. 8
Tumor suppressor SMARCB1 suppresses super-enhancers to govern hESC lineage determination
journal, April 2019
- Langer, Lee F.; Ward, James M.; Archer, Trevor K.
- eLife, Vol. 8