Grad (Chang) — Flynn Lab

Mumbach MR, Satpathy AT, Boyle EA, Dai C, Gowen BG, Cho SW, Nguyen ML, Rubin AJ, Granja JM, Kazane KR, Wei Y, Nguyen T, Greenside PG, Corces MR, Tycko J, Simeonov DR, Suliman N, Li R, Xu J, Flynn RA , Kundaje A, Khavari PA, Marson A, Corn JE, Quert

Mumbach MR, Satpathy AT, Boyle EA, Dai C, Gowen BG, Cho SW, Nguyen ML, Rubin AJ, Granja JM, Kazane KR, Wei Y, Nguyen T, Greenside PG, Corces MR, Tycko J, Simeonov DR, Suliman N, Li R, Xu J, Flynn RA, Kundaje A, Khavari PA, Marson A, Corn JE, Quertermous T, Greenleaf WJ, Chang HY

Enhancer connectome in primary human cells identifies target genes of disease-associated DNA elements

Nat Genetics. November 2017

Simsek D, Tiu GC, Flynn RA , Byeon GW, Leppek K, Xu AF, Chang HY, Barna M The Mammalian Ribo-interactome Reveals Ribosome Functional Diversity and Heterogeneity Cell . June 2017 Pubmed      PDF

Simsek D, Tiu GC, Flynn RA, Byeon GW, Leppek K, Xu AF, Chang HY, Barna M

The Mammalian Ribo-interactome Reveals Ribosome Functional Diversity and Heterogeneity

Cell. June 2017

Lee B, Flynn RA , Kadina A, Guo JK, Kool ET, Chang HY. Comparison of SHAPE Reagents for Mapping RNA Structures Inside Living Cells RNA.  December 2016 Pubmed      PDF

Lee B, Flynn RA, Kadina A, Guo JK, Kool ET, Chang HY.

Comparison of SHAPE Reagents for Mapping RNA Structures Inside Living Cells

RNA. December 2016

HiChIP

HiChIP

Mumbach MR*, Rubin AJ*, Flynn RA*, Dai C, Khavari PA, Greenleaf WJ, Chang HY.

HiChIP: efficient and sensitive analysis of protein-directed genome architecture

Nature Methods. November 2016

DINO

DINO

Schmitt AM*, Garcia JT*, Hung T*, Flynn RA, Shen Y, Qu K, Payumo AY, Peres-da-Silva A, Broz DK, Baum R, Guo S, Chen JK, Attardi LD, Chang HY.

An inducible long noncoding RNA amplifies DNA damage signaling

Nature Genetics. November 2016

Skin Youthfulness

Skin Youthfulness

Xu J, Spitale RC, Guan L, Flynn RA, Torre EA, Li R, Raber I, Qu K, Kern D, Knaggs HE, Chang HY, Chang AL.

Novel Gene Expression Profile of Women with Intrinsic Skin Youthfulness by Whole Transcriptome Sequencing

PLoS One. November 2016

PARIS

PARIS

Lu Z*, Zhang QC*, Lee B, Flynn RA, Smith MA, Robinson JT, Davidovich C, Gooding AR, Goodrich KJ, Mattick JS, Mesirov JP, Cech TR, Chang HY

RNA Duplex Map in Living Cells Reveals Higher-Order Transcriptome Structure

Cell. May 2016

Zarnegar BJ, Flynn RA , Shen Y, Do DT, Chang HY, Khavari PA. Ultraefficient irCLIP platform for characterization of protein-RNA interactions. Nature Methods. April 2016 Highlighted in N ature Methods, News and Views and Molecular Cel

Zarnegar BJ, Flynn RA, Shen Y, Do DT, Chang HY, Khavari PA.

Ultraefficient irCLIP platform for characterization of protein-RNA interactions.

Nature Methods. April 2016

Highlighted in N ature Methods, News and Views and Molecular Cell, Technology Preview

Tan JL, Fogley RD, Flynn RA , Ablain J, Yang S, Saint-André V, Fan ZP, Do BT, Laga AC, Fujinaga K, Santoriello C, Greer CB, Kim YJ, Clohessy JG, Bothmer A, Pandell N, Avagyan S, Brogie JE, van Rooijen E, Hagedorn EJ, Shyh-Chang N, White RM, Price D

Tan JL, Fogley RD, Flynn RA, Ablain J, Yang S, Saint-André V, Fan ZP, Do BT, Laga AC, Fujinaga K, Santoriello C, Greer CB, Kim YJ, Clohessy JG, Bothmer A, Pandell N, Avagyan S, Brogie JE, van Rooijen E, Hagedorn EJ, Shyh-Chang N, White RM, Price DH, Pandolfi PP, Peterlin BM, Zhou Y, Kim TH, Asara JM, Chang HY, Young RA, Zon LI.

Stress from Nucleotide Depletion Activates the Transcriptional Regulator HEXIM1 to Suppress Melanoma.

Molecular Cell. April 2016

Oh S*, Flynn RA* , Floor SN, Purzner J, Martin L, Do BT, Schubert S, Vaka D, Morrissy S, Li Y, Kool M, Hovestadt V, Jones DT, Northcott PA, Risch T, Warnatz HJ, Yaspo ML, Adams CM, Leib RD, Breese M, Marra MA, Malkin D, Lichter P, Doudna JA, Pfiste

Oh S*, Flynn RA*, Floor SN, Purzner J, Martin L, Do BT, Schubert S, Vaka D, Morrissy S, Li Y, Kool M, Hovestadt V, Jones DT, Northcott PA, Risch T, Warnatz HJ, Yaspo ML, Adams CM, Leib RD, Breese M, Marra MA, Malkin D, Lichter P, Doudna JA, Pfister SM, Taylor MD, Chang HY, Cho YJ.

Medulloblastoma-associated DDX3 variant selectively alters the translational response to stress.

Oncotarget. 2016

Flynn RA , Do BT, Rubin AJ, Calo E, Lee B, Kuchelmeister H, Rale M, Chu C, Kool ET, Wysocka J, Khavari PA, Chang HY. 7SK-BAF axis controls pervasive transcription at enhancers. Nature Structural and Molecular Biology . February 2016 Highligh

Flynn RA, Do BT, Rubin AJ, Calo E, Lee B, Kuchelmeister H, Rale M, Chu C, Kool ET, Wysocka J, Khavari PA, Chang HY.

7SK-BAF axis controls pervasive transcription at enhancers.

Nature Structural and Molecular Biology. February 2016

Highlighted in Nature Reviews, Molecular Cell Biology

Flynn RA *, Zhang QC*, Spitale RC, Lee B, Mumbach MR, Chang HY. Transcriptome-wide interrogation of RNA secondary structure in living cells with icSHAPE. Nature Protocols . February 2016 Pubmed     PDF

Flynn RA*, Zhang QC*, Spitale RC, Lee B, Mumbach MR, Chang HY.

Transcriptome-wide interrogation of RNA secondary structure in living cells with icSHAPE.

Nature Protocols. February 2016

Huang W, Thomas B, Flynn RA , Gavzy SJ, Wu L, Kim SV, Hall JA, Miraldi ER, Ng CP, Rigo FW, Meadows S, Montoya NR, Herrera NG, Domingos AI, Rastinejad F, Myers RM, Fuller-Pace FV, Bonneau R, Chang HY, Acuto O, Littman DR. DDX5 and its associated l

Huang W, Thomas B, Flynn RA, Gavzy SJ, Wu L, Kim SV, Hall JA, Miraldi ER, Ng CP, Rigo FW, Meadows S, Montoya NR, Herrera NG, Domingos AI, Rastinejad F, Myers RM, Fuller-Pace FV, Bonneau R, Chang HY, Acuto O, Littman DR.

DDX5 and its associated lncRNA Rmrp modulate TH17 cell effector functions

Nature. December 2015

Mazumdar C, Shen Y, Xavy S, Zhao F, Reinisch A, Li R, Corces MR, Flynn RA , Buenrostro JD, Chan SM, Thomas D, Koenig JL, Hong WJ, Chang HY, Majeti R. Leukemia-Associated Cohesin Mutants Dominantly Enforce Stem Cell Programs and Impair Human Hemat

Mazumdar C, Shen Y, Xavy S, Zhao F, Reinisch A, Li R, Corces MR, Flynn RA, Buenrostro JD, Chan SM, Thomas D, Koenig JL, Hong WJ, Chang HY, Majeti R.

Leukemia-Associated Cohesin Mutants Dominantly Enforce Stem Cell Programs and Impair Human Hematopoietic Progenitor Differentiation

Cell Stem Cell. December 2015

Grow EJ, Flynn RA , Chavez SL, Bayless NL, Wossidlo M, Wesche D, Martin L, Ware C, Blish C, Chang HY, Reijo Pera RA, Wysocka J. Intrinsic retroviral reactivation in human preimplantation embryos and pluripotent cells Nature . April 2015 Pubm

Grow EJ, Flynn RA, Chavez SL, Bayless NL, Wossidlo M, Wesche D, Martin L, Ware C, Blish C, Chang HY, Reijo Pera RA, Wysocka J.

Intrinsic retroviral reactivation in human preimplantation embryos and pluripotent cells

Nature. April 2015

Highlighted in The New York Times and Stanford News

Chi C, Zhang QC, Teixeira da Rocha S, Flynn RA , Bharadqaj M, Calabrese JM, Magnuson T, Heard E, Chang HY. Systematic Discovery of Xist RNA Binding Proteins. Cell . April 2015 Pubmed     PDF Highlighted in Stanford New

Chi C, Zhang QC, Teixeira da Rocha S, Flynn RA, Bharadqaj M, Calabrese JM, Magnuson T, Heard E, Chang HY.

Systematic Discovery of Xist RNA Binding Proteins.

Cell. April 2015

Highlighted in Stanford News and Nature News & Views

Spitale RC*,  Flynn RA *, Zhang QC*, Crisalli P, Lee B, Jung J, Kuchelmeister HY, Batista PJ, Torre EA, Kool ET, Chang HY. Structural imprints in vivo reveal mechanisms of RNA regulation. Nature , March 2015 Pubmed     &nb

Spitale RC*, Flynn RA*, Zhang QC*, Crisalli P, Lee B, Jung J, Kuchelmeister HY, Batista PJ, Torre EA, Kool ET, Chang HY.

Structural imprints in vivo reveal mechanisms of RNA regulation.

Nature, March 2015

Highlighted in Nature News Feature, Nature Reviews Genetics,and Nature Methods

Calo E*, Flynn RA *, Martin L, Spitale RC, Chang HY, Wysocka J. RNA helicase DDX21 coordinates transcription and ribosomal RNA processing. Nature . February 2015 Pubmed     PDF

Calo E*, Flynn RA*, Martin L, Spitale RC, Chang HY, Wysocka J.

RNA helicase DDX21 coordinates transcription and ribosomal RNA processing.

Nature. February 2015

Flynn RA *, Martin L*, Spitale RC, Do BT, Sagan SM, Zarnegar B, Qu K, Khavari PA, Quake SR, Sarnow P, Chang HY. Dissecting noncoding and pathogen RNA-protein interactomes. RNA . January 2015 Pubmed     PDF Highlighted in Na

Flynn RA*, Martin L*, Spitale RC, Do BT, Sagan SM, Zarnegar B, Qu K, Khavari PA, Quake SR, Sarnow P, Chang HY.

Dissecting noncoding and pathogen RNA-protein interactomes.

RNA. January 2015

Highlighted in Nature Reviews Genetics

Spitale RC, Flynn RA , Torre EA, Kool ET, Chang HY. RNA structural analysis by evolving SHAPE chemistry. Wiley Interdiscip Rev RNA . November 2014 Pubmed     PDF

Spitale RC, Flynn RA, Torre EA, Kool ET, Chang HY.

RNA structural analysis by evolving SHAPE chemistry.

Wiley Interdiscip Rev RNA. November 2014

Batista PJ*, Molinie B*, Wang J*, Qu K, Zhang J, Li L, Bouley DM, Lujan E, Haddad B, Daneshvar K, Carter AC, Flynn RA , Zhou C, Lim KS, Dedon P, Wernig M, Mullen AC, Xing Y, Giallourakis CC, Chang HY. m6A RNA Modification Controls Cell Fate Trans

Batista PJ*, Molinie B*, Wang J*, Qu K, Zhang J, Li L, Bouley DM, Lujan E, Haddad B, Daneshvar K, Carter AC, Flynn RA, Zhou C, Lim KS, Dedon P, Wernig M, Mullen AC, Xing Y, Giallourakis CC, Chang HY.

m6A RNA Modification Controls Cell Fate Transition in Mammalian Embryonic Stem Cells.

Cell Stem Cell. October 2014

Flynn RA, Chang HY. Long noncoding RNAs in cell-fate programming and reprogramming. Cell Stem Cell . June 2014 Pubmed     PDF

Flynn RA, Chang HY.

Long noncoding RNAs in cell-fate programming and reprogramming.

Cell Stem Cell. June 2014

Yang YW*, Flynn RA *, Chen Y, Qu K, Wan B, Wang KC, Lei M, Chang HY. Essential role of lncRNA binding for WDR5 maintenance of active chromatin and embryonic stem cell pluripotency. Elife . February 2014 Pubmed     PDF

Yang YW*, Flynn RA*, Chen Y, Qu K, Wan B, Wang KC, Lei M, Chang HY.

Essential role of lncRNA binding for WDR5 maintenance of active chromatin and embryonic stem cell pluripotency.

Elife. February 2014

Wan Y*, Qu K*, Zhang QC, Flynn RA , Manor O, Ouyang Z, Zhang J, Spitale RC, Snyder MP, Segal E, Chang HY. Landscape and variation of RNA secondary structure across the human transcriptome. Nature . January 2014 Pubmed     PDF

Wan Y*, Qu K*, Zhang QC, Flynn RA, Manor O, Ouyang Z, Zhang J, Spitale RC, Snyder MP, Segal E, Chang HY.

Landscape and variation of RNA secondary structure across the human transcriptome.

Nature. January 2014

Spitale RC*, Crisalli P*, Flynn RA *, Torre EA, Kool ET, Chang HY. RNA SHAPE analysis in living cells. Nature Chemical Biology . November 2013 Pubmed      PDF Highlighted in F1000 Prime ,  Nature Methods

Spitale RC*, Crisalli P*, Flynn RA*, Torre EA, Kool ET, Chang HY.

RNA SHAPE analysis in living cells.

Nature Chemical Biology. November 2013

Highlighted in F1000 Prime, Nature Methods, and BioTechniques

Hyun JS, Montoro DT, Lo DD, Flynn RA , Wong V, Chung MT, Longaker MT, Wan DC. The seed and the soil: optimizing stem cells and their environment for tissue regeneration. Ann Plast Surg . February 2013 Pubmed     PDF

Hyun JS, Montoro DT, Lo DD, Flynn RA, Wong V, Chung MT, Longaker MT, Wan DC.

The seed and the soil: optimizing stem cells and their environment for tissue regeneration.

Ann Plast Surg. February 2013

Kretz M, Siprashvili Z, Chu C, Webster DE, Zehnder A, Qu K, Lee CS, Flockhart RJ, Groff AF, Chow J, Johnston D, Kim GE, Spitale RC, Flynn RA , Zheng GX, Aiyer S, Raj A, Rinn JL, Chang HY, Khavari PA. Control of somatic tissue differentiation by t

Kretz M, Siprashvili Z, Chu C, Webster DE, Zehnder A, Qu K, Lee CS, Flockhart RJ, Groff AF, Chow J, Johnston D, Kim GE, Spitale RC, Flynn RA, Zheng GX, Aiyer S, Raj A, Rinn JL, Chang HY, Khavari PA.

Control of somatic tissue differentiation by the long non-coding RNA TINCR.

Nature. January 2013

Highlighted in F1000 Prime

Brunner AL, Beck AH, Edris B, Sweeney RT, Zhu SX, Li R, Montgomery K, Varma S, Gilks T, Guo X, Foley JW, Witten DM, Giacomini CP, Flynn RA , Pollack JR, Tibshirani R, Chang HY, van de Rijn M, West RB. Transcriptional profiling of long non-coding

Brunner AL, Beck AH, Edris B, Sweeney RT, Zhu SX, Li R, Montgomery K, Varma S, Gilks T, Guo X, Foley JW, Witten DM, Giacomini CP, Flynn RA, Pollack JR, Tibshirani R, Chang HY, van de Rijn M, West RB.

Transcriptional profiling of long non-coding RNAs and novel transcribed regions across a diverse panel of archived human cancers.

Genome Biology. August 2012

Flynn RA , Chang HY. Active Chromatin and noncoding RNAs: an intimate relationship. Curr Opin Genet Dev . December 2012 Pubmed     PDF

Flynn RA, Chang HY.

Active Chromatin and noncoding RNAs: an intimate relationship.

Curr Opin Genet Dev. December 2012

Rada-Iglesias A, Bajpai R, Swigut T, Burgmann SA, Flynn RA , Wysocka J. A unique chromatin signature uncovers early developmental enhancers in humans. Nature . December 2011 Pubmed     PDF

Rada-Iglesias A, Bajpai R, Swigut T, Burgmann SA, Flynn RA, Wysocka J.

A unique chromatin signature uncovers early developmental enhancers in humans.

Nature. December 2011

Wang KC, Yang YW*, Liu B*, Sanyal A, Corces-Zimmerman R, Chen Y, Lajoie BR, Protacio A, Flynn RA , Gupta RA, Wysocka J, Lei M, Dekker J, Helms JA, Chang HY. Long noncoding RNA connects chromosomal structure to active chromatin domain and gene exp

Wang KC, Yang YW*, Liu B*, Sanyal A, Corces-Zimmerman R, Chen Y, Lajoie BR, Protacio A, Flynn RA, Gupta RA, Wysocka J, Lei M, Dekker J, Helms JA, Chang HY.

Long noncoding RNA connects chromosomal structure to active chromatin domain and gene expression.

Nature. March 2011

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Mumbach MR, Satpathy AT, Boyle EA, Dai C, Gowen BG, Cho SW, Nguyen ML, Rubin AJ, Granja JM, Kazane KR, Wei Y, Nguyen T, Greenside PG, Corces MR, Tycko J, Simeonov DR, Suliman N, Li R, Xu J, Flynn RA , Kundaje A, Khavari PA, Marson A, Corn JE, Quert

Simsek D, Tiu GC, Flynn RA , Byeon GW, Leppek K, Xu AF, Chang HY, Barna M The Mammalian Ribo-interactome Reveals Ribosome Functional Diversity and Heterogeneity Cell . June 2017 Pubmed      PDF

Lee B, Flynn RA , Kadina A, Guo JK, Kool ET, Chang HY. Comparison of SHAPE Reagents for Mapping RNA Structures Inside Living Cells RNA.  December 2016 Pubmed      PDF

Skin Youthfulness

Zarnegar BJ, Flynn RA , Shen Y, Do DT, Chang HY, Khavari PA. Ultraefficient irCLIP platform for characterization of protein-RNA interactions. Nature Methods. April 2016 Highlighted in N ature Methods, News and Views and Molecular Cel

Tan JL, Fogley RD, Flynn RA , Ablain J, Yang S, Saint-André V, Fan ZP, Do BT, Laga AC, Fujinaga K, Santoriello C, Greer CB, Kim YJ, Clohessy JG, Bothmer A, Pandell N, Avagyan S, Brogie JE, van Rooijen E, Hagedorn EJ, Shyh-Chang N, White RM, Price D

Oh S*, Flynn RA* , Floor SN, Purzner J, Martin L, Do BT, Schubert S, Vaka D, Morrissy S, Li Y, Kool M, Hovestadt V, Jones DT, Northcott PA, Risch T, Warnatz HJ, Yaspo ML, Adams CM, Leib RD, Breese M, Marra MA, Malkin D, Lichter P, Doudna JA, Pfiste

Flynn RA , Do BT, Rubin AJ, Calo E, Lee B, Kuchelmeister H, Rale M, Chu C, Kool ET, Wysocka J, Khavari PA, Chang HY. 7SK-BAF axis controls pervasive transcription at enhancers. Nature Structural and Molecular Biology . February 2016 Highligh

Flynn RA *, Zhang QC*, Spitale RC, Lee B, Mumbach MR, Chang HY. Transcriptome-wide interrogation of RNA secondary structure in living cells with icSHAPE. Nature Protocols . February 2016 Pubmed     PDF

Huang W, Thomas B, Flynn RA , Gavzy SJ, Wu L, Kim SV, Hall JA, Miraldi ER, Ng CP, Rigo FW, Meadows S, Montoya NR, Herrera NG, Domingos AI, Rastinejad F, Myers RM, Fuller-Pace FV, Bonneau R, Chang HY, Acuto O, Littman DR. DDX5 and its associated l

Mazumdar C, Shen Y, Xavy S, Zhao F, Reinisch A, Li R, Corces MR, Flynn RA , Buenrostro JD, Chan SM, Thomas D, Koenig JL, Hong WJ, Chang HY, Majeti R. Leukemia-Associated Cohesin Mutants Dominantly Enforce Stem Cell Programs and Impair Human Hemat

Grow EJ, Flynn RA , Chavez SL, Bayless NL, Wossidlo M, Wesche D, Martin L, Ware C, Blish C, Chang HY, Reijo Pera RA, Wysocka J. Intrinsic retroviral reactivation in human preimplantation embryos and pluripotent cells Nature . April 2015 Pubm

Chi C, Zhang QC, Teixeira da Rocha S, Flynn RA , Bharadqaj M, Calabrese JM, Magnuson T, Heard E, Chang HY. Systematic Discovery of Xist RNA Binding Proteins. Cell . April 2015 Pubmed     PDF Highlighted in Stanford New

Spitale RC*,  Flynn RA *, Zhang QC*, Crisalli P, Lee B, Jung J, Kuchelmeister HY, Batista PJ, Torre EA, Kool ET, Chang HY. Structural imprints in vivo reveal mechanisms of RNA regulation. Nature , March 2015 Pubmed     &nb

Calo E*, Flynn RA *, Martin L, Spitale RC, Chang HY, Wysocka J. RNA helicase DDX21 coordinates transcription and ribosomal RNA processing. Nature . February 2015 Pubmed     PDF

Flynn RA *, Martin L*, Spitale RC, Do BT, Sagan SM, Zarnegar B, Qu K, Khavari PA, Quake SR, Sarnow P, Chang HY. Dissecting noncoding and pathogen RNA-protein interactomes. RNA . January 2015 Pubmed     PDF Highlighted in Na

Spitale RC, Flynn RA , Torre EA, Kool ET, Chang HY. RNA structural analysis by evolving SHAPE chemistry. Wiley Interdiscip Rev RNA . November 2014 Pubmed     PDF

Batista PJ*, Molinie B*, Wang J*, Qu K, Zhang J, Li L, Bouley DM, Lujan E, Haddad B, Daneshvar K, Carter AC, Flynn RA , Zhou C, Lim KS, Dedon P, Wernig M, Mullen AC, Xing Y, Giallourakis CC, Chang HY. m6A RNA Modification Controls Cell Fate Trans

Flynn RA, Chang HY. Long noncoding RNAs in cell-fate programming and reprogramming. Cell Stem Cell . June 2014 Pubmed     PDF

Yang YW*, Flynn RA *, Chen Y, Qu K, Wan B, Wang KC, Lei M, Chang HY. Essential role of lncRNA binding for WDR5 maintenance of active chromatin and embryonic stem cell pluripotency. Elife . February 2014 Pubmed     PDF

Wan Y*, Qu K*, Zhang QC, Flynn RA , Manor O, Ouyang Z, Zhang J, Spitale RC, Snyder MP, Segal E, Chang HY. Landscape and variation of RNA secondary structure across the human transcriptome. Nature . January 2014 Pubmed     PDF

Spitale RC*, Crisalli P*, Flynn RA *, Torre EA, Kool ET, Chang HY. RNA SHAPE analysis in living cells. Nature Chemical Biology . November 2013 Pubmed      PDF Highlighted in F1000 Prime ,  Nature Methods

Hyun JS, Montoro DT, Lo DD, Flynn RA , Wong V, Chung MT, Longaker MT, Wan DC. The seed and the soil: optimizing stem cells and their environment for tissue regeneration. Ann Plast Surg . February 2013 Pubmed     PDF

Kretz M, Siprashvili Z, Chu C, Webster DE, Zehnder A, Qu K, Lee CS, Flockhart RJ, Groff AF, Chow J, Johnston D, Kim GE, Spitale RC, Flynn RA , Zheng GX, Aiyer S, Raj A, Rinn JL, Chang HY, Khavari PA. Control of somatic tissue differentiation by t

Brunner AL, Beck AH, Edris B, Sweeney RT, Zhu SX, Li R, Montgomery K, Varma S, Gilks T, Guo X, Foley JW, Witten DM, Giacomini CP, Flynn RA , Pollack JR, Tibshirani R, Chang HY, van de Rijn M, West RB. Transcriptional profiling of long non-coding

Flynn RA , Chang HY. Active Chromatin and noncoding RNAs: an intimate relationship. Curr Opin Genet Dev . December 2012 Pubmed     PDF

Rada-Iglesias A, Bajpai R, Swigut T, Burgmann SA, Flynn RA , Wysocka J. A unique chromatin signature uncovers early developmental enhancers in humans. Nature . December 2011 Pubmed     PDF

Wang KC, Yang YW*, Liu B*, Sanyal A, Corces-Zimmerman R, Chen Y, Lajoie BR, Protacio A, Flynn RA , Gupta RA, Wysocka J, Lei M, Dekker J, Helms JA, Chang HY. Long noncoding RNA connects chromosomal structure to active chromatin domain and gene exp