Ramya Raviram

Affiliations

Ludwig Institute for Cancer Research, University of California San Diego, La Jolla, CA 92093.

Publications (11)

Integrated analysis of single-cell chromatin state and transcriptome identified common vulnerability despite glioblastoma heterogeneity.

Proceedings of the National Academy of Sciences of the United States of America

Avec: Ramya Raviram , Anugraha Raman , Sebastian Preissl , Jiangfang Ning , Shaoping Wu , Tomoyuki Koga , Kai Zhang , Cameron W Brennan , Chenxu Zhu , Jens Luebeck , Kinsey Van Deynze , Jee Yun Han , Xiaomeng Hou , Zhen Ye , Anna K Mischel , Yang Eric Li , Rongxin Fang , Tomas Baback , Joshua Mugford , Claudia Z Han , Christopher K Glass , Cathy L Barr , Paul S Mischel , Vineet Bafna , Laure Escoubet , Bing Ren , Clark C Chen

Epigenetic dysregulation from chromosomal transit in micronuclei.

Nature

Avec: Albert S Agustinus , Duaa Al-Rawi , Bhargavi Dameracharla , Ramya Raviram , Bailey S C L Jones , Stephanie Stransky , Lorenzo Scipioni , Jens Luebeck , Melody Di Bona , Danguole Norkunaite , Robert M Myers , Mercedes Duran , Seongmin Choi , Britta Weigelt , Shira Yomtoubian , Andrew McPherson , Eléonore Toufektchan , Kristina Keuper , Paul S Mischel , Vivek Mittal , Sohrab P Shah , John Maciejowski , Zuzana Storchova , Enrico Gratton , Peter Ly , Dan Landau , Mathieu F Bakhoum , Richard P Koche , Simone Sidoli , Vineet Bafna , Yael David , Samuel F Bakhoum

Targeting histone acetylation dynamics and oncogenic transcription by catalytic P300/CBP inhibition.

Molecular cell

Avec: Simon J Hogg , Olga Motorna , Leonie A Cluse , Timothy M Johanson , Hannah D Coughlan , Ramya Raviram , Robert M Myers , Matteo Costacurta , Izabela Todorovski , Lizzy Pijpers , Stefan Bjelosevic , Tobias Williams , Shannon N Huskins , Conor J Kearney , Jennifer R Devlin , Zheng Fan , Jafar S Jabbari , Ben P Martin , Mohamed Fareh , Madison J Kelly , Daphné Dupéré-Richer , Jarrod J Sandow , Breon Feran , Deborah Knight , Tiffany Khong , Andrew Spencer , Simon J Harrison , Gareth Gregory , Vihandha O Wickramasinghe , Andrew I Webb , Phillippa C Taberlay , Kenneth D Bromberg , Albert Lai , Anthony T Papenfuss , Gordon K Smyth , Rhys S Allan , Jonathan D Licht , Dan A Landau , Omar Abdel-Wahab , Jake Shortt , Stephin J Vervoort , Ricky W Johnstone

Mutant IDH inhibitors induce lineage differentiation in IDH-mutant oligodendroglioma.

Cancer cell

Avec: Avishay Spitzer , Simon Gritsch , Masashi Nomura , Alexander Jucht , Jerome Fortin , Ramya Raviram , Hannah R Weisman , L Nicolas Gonzalez Castro , Nicholas Druck , Rony Chanoch-Myers , John J Y Lee , Ravindra Mylvaganam , Rachel Lee Servis , Jeremy Man Fung , Christine K Lee , Hiroaki Nagashima , Julie J Miller , Isabel Arrillaga-Romany , David N Louis , Hiroaki Wakimoto , Will Pisano , Patrick Y Wen , Tak W Mak , Marc Sanson , Mehdi Touat , Dan A Landau , Keith L Ligon , Daniel P Cahill , Mario L Suvà , Itay Tirosh

Mapping genotypes to chromatin accessibility profiles in single cells.

Nature

Avec: Franco Izzo , Robert M Myers , Saravanan Ganesan , Levan Mekerishvili , Sanjay Kottapalli , Tamara Prieto , Elliot O Eton , Theo Botella , Andrew J Dunbar , Robert L Bowman , Jesus Sotelo , Catherine Potenski , Eleni P Mimitou , Maximilian Stahl , Sebastian El Ghaity-Beckley , JoAnn Arandela , Ramya Raviram , Daniel C Choi , Ronald Hoffman , Ronan Chaligné , Omar Abdel-Wahab , Peter Smibert , Irene M Ghobrial , Joseph M Scandura , Bridget Marcellino , Ross L Levine , Dan A Landau

Circular ecDNA promotes accessible chromatin and high oncogene expression.

Nature

Avec: Sihan Wu , Kristen M Turner , Nam Nguyen , Ramya Raviram , Marcella Erb , Jennifer Santini , Jens Luebeck , Utkrisht Rajkumar , Yarui Diao , Bin Li , Wenjing Zhang , Nathan Jameson , M Ryan Corces , Jeffrey M Granja , Xingqi Chen , Ceyda Coruh , Armen Abnousi , Jack Houston , Zhen Ye , Rong Hu , Miao Yu , Hoon Kim , Julie A Law , Roel G W Verhaak , Ming Hu , Frank B Furnari , Howard Y Chang , Bing Ren , Vineet Bafna , Paul S Mischel

GATA3-Controlled Nucleosome Eviction Drives

Cancer discovery

Avec: Laura Belver , Alexander Y Yang , Robert Albero , Daniel Herranz , Francesco G Brundu , S Aidan Quinn , Pablo Pérez-Durán , Silvia Álvarez , Francesca Gianni , Marissa Rashkovan , Devya Gurung , Pedro P Rocha , Ramya Raviram , Clara Reglero , Jose R Cortés , Anisha J Cooke , Agnieszka A Wendorff , Valentina Cordó , Jules P Meijerink , Raúl Rabadan , Adolfo A Ferrando

NAD metabolic dependency in cancer is shaped by gene amplification and enhancer remodelling.

Nature

Avec: Sudhir Chowdhry , Ciro Zanca , Utkrisht Rajkumar , Tomoyuki Koga , Yarui Diao , Ramya Raviram , Feng Liu , Kristen Turner , Huijun Yang , Elizabeth Brunk , Junfeng Bi , Frank Furnari , Vineet Bafna , Bing Ren , Paul S Mischel

MAPS: Model-based analysis of long-range chromatin interactions from PLAC-seq and HiChIP experiments.

PLoS computational biology

Avec: Ivan Juric , Miao Yu , Armen Abnousi , Ramya Raviram , Rongxin Fang , Yuan Zhao , Yanxiao Zhang , Yunjiang Qiu , Yuchen Yang , Yun Li , Bing Ren , Ming Hu

Dynamic reorganization of the genome shapes the recombination landscape in meiotic prophase.

Nature structural & molecular biology

Avec: Lucas Patel , Rhea Kang , Scott C Rosenberg , Yunjiang Qiu , Ramya Raviram , Sora Chee , Rong Hu , Bing Ren , Francesca Cole , Kevin D Corbett

Genotype-to-phenotype mapping of somatic clonal mosaicism via single-cell co-capture of DNA mutations and mRNA transcripts.

bioRxiv : the preprint server for biology

Avec: Dennis J Yuan , John Zinno , Theo Botella , Dalia Dhingra , Shu Wang , Allegra Hawkins , Ariel Swett , Jesus Sotelo , Ramya Raviram , Clayton Hughes , Catherine Potenski , Akira Yokoyama , Nobuyuki Kakiuchi , Seishi Ogawa , Dan A Landau

Réseau de co-auteurs

Bing Ren 5 collaborations

Paul S Mischel 4 collaborations

Vineet Bafna 4 collaborations

Dan A Landau 4 collaborations

Jens Luebeck 3 collaborations

Robert M Myers 3 collaborations

Tomoyuki Koga 2 collaborations

Zhen Ye 2 collaborations

Rongxin Fang 2 collaborations

Omar Abdel-Wahab 2 collaborations

Theo Botella 2 collaborations

Jesus Sotelo 2 collaborations

Catherine Potenski 2 collaborations

Utkrisht Rajkumar 2 collaborations

Yarui Diao 2 collaborations

Armen Abnousi 2 collaborations

Rong Hu 2 collaborations

Miao Yu 2 collaborations

Ming Hu 2 collaborations

Yunjiang Qiu 2 collaborations

Anugraha Raman 1 collaboration

Sebastian Preissl 1 collaboration

Jiangfang Ning 1 collaboration

Shaoping Wu 1 collaboration

Kai Zhang 1 collaboration

Cameron W Brennan 1 collaboration

Chenxu Zhu 1 collaboration

Kinsey Van Deynze 1 collaboration

Jee Yun Han 1 collaboration

Xiaomeng Hou 1 collaboration

Anna K Mischel 1 collaboration

Yang Eric Li 1 collaboration

Tomas Baback 1 collaboration

Joshua Mugford 1 collaboration

Claudia Z Han 1 collaboration

Christopher K Glass 1 collaboration

Cathy L Barr 1 collaboration

Laure Escoubet 1 collaboration

Clark C Chen 1 collaboration

Albert S Agustinus 1 collaboration

Duaa Al-Rawi 1 collaboration

Bhargavi Dameracharla 1 collaboration

Bailey S C L Jones 1 collaboration

Stephanie Stransky 1 collaboration

Lorenzo Scipioni 1 collaboration

Melody Di Bona 1 collaboration

Danguole Norkunaite 1 collaboration

Mercedes Duran 1 collaboration

Seongmin Choi 1 collaboration

Britta Weigelt 1 collaboration

Shira Yomtoubian 1 collaboration

Andrew McPherson 1 collaboration

Eléonore Toufektchan 1 collaboration

Kristina Keuper 1 collaboration

Vivek Mittal 1 collaboration

Sohrab P Shah 1 collaboration

John Maciejowski 1 collaboration

Zuzana Storchova 1 collaboration

Enrico Gratton 1 collaboration

Peter Ly 1 collaboration

Dan Landau 1 collaboration

Mathieu F Bakhoum 1 collaboration

Richard P Koche 1 collaboration

Simone Sidoli 1 collaboration

Yael David 1 collaboration

Samuel F Bakhoum 1 collaboration

Simon J Hogg 1 collaboration

Olga Motorna 1 collaboration

Leonie A Cluse 1 collaboration

Timothy M Johanson 1 collaboration

Hannah D Coughlan 1 collaboration

Matteo Costacurta 1 collaboration

Izabela Todorovski 1 collaboration

Lizzy Pijpers 1 collaboration

Stefan Bjelosevic 1 collaboration

Tobias Williams 1 collaboration

Shannon N Huskins 1 collaboration

Conor J Kearney 1 collaboration

Jennifer R Devlin 1 collaboration

Zheng Fan 1 collaboration

Jafar S Jabbari 1 collaboration

Ben P Martin 1 collaboration

Mohamed Fareh 1 collaboration

Madison J Kelly 1 collaboration

Daphné Dupéré-Richer 1 collaboration

Jarrod J Sandow 1 collaboration

Breon Feran 1 collaboration

Deborah Knight 1 collaboration

Tiffany Khong 1 collaboration

Andrew Spencer 1 collaboration

Simon J Harrison 1 collaboration

Gareth Gregory 1 collaboration

Vihandha O Wickramasinghe 1 collaboration

Andrew I Webb 1 collaboration

Phillippa C Taberlay 1 collaboration

Kenneth D Bromberg 1 collaboration

Albert Lai 1 collaboration

Anthony T Papenfuss 1 collaboration

Gordon K Smyth 1 collaboration

Rhys S Allan 1 collaboration

Jonathan D Licht 1 collaboration

Jake Shortt 1 collaboration

Stephin J Vervoort 1 collaboration

Ricky W Johnstone 1 collaboration

Avishay Spitzer 1 collaboration

Simon Gritsch 1 collaboration

Masashi Nomura 1 collaboration

Alexander Jucht 1 collaboration

Jerome Fortin 1 collaboration

Hannah R Weisman 1 collaboration

L Nicolas Gonzalez Castro 1 collaboration

Nicholas Druck 1 collaboration

Rony Chanoch-Myers 1 collaboration

John J Y Lee 1 collaboration

Ravindra Mylvaganam 1 collaboration

Rachel Lee Servis 1 collaboration

Jeremy Man Fung 1 collaboration

Christine K Lee 1 collaboration

Hiroaki Nagashima 1 collaboration

Julie J Miller 1 collaboration

Isabel Arrillaga-Romany 1 collaboration

David N Louis 1 collaboration

Hiroaki Wakimoto 1 collaboration

Will Pisano 1 collaboration

Patrick Y Wen 1 collaboration

Tak W Mak 1 collaboration

Marc Sanson 1 collaboration

Mehdi Touat 1 collaboration

Keith L Ligon 1 collaboration

Daniel P Cahill 1 collaboration

Mario L Suvà 1 collaboration

Itay Tirosh 1 collaboration

Franco Izzo 1 collaboration

Saravanan Ganesan 1 collaboration

Levan Mekerishvili 1 collaboration

Sanjay Kottapalli 1 collaboration

Tamara Prieto 1 collaboration

Elliot O Eton 1 collaboration

Andrew J Dunbar 1 collaboration

Robert L Bowman 1 collaboration

Eleni P Mimitou 1 collaboration

Maximilian Stahl 1 collaboration

Sebastian El Ghaity-Beckley 1 collaboration

JoAnn Arandela 1 collaboration

Daniel C Choi 1 collaboration

Ronald Hoffman 1 collaboration

Ronan Chaligné 1 collaboration

Peter Smibert 1 collaboration

Irene M Ghobrial 1 collaboration

Joseph M Scandura 1 collaboration

Bridget Marcellino 1 collaboration

Ross L Levine 1 collaboration

Sihan Wu 1 collaboration

Kristen M Turner 1 collaboration

Nam Nguyen 1 collaboration

Marcella Erb 1 collaboration

Jennifer Santini 1 collaboration

Bin Li 1 collaboration

Wenjing Zhang 1 collaboration

Nathan Jameson 1 collaboration

M Ryan Corces 1 collaboration

Jeffrey M Granja 1 collaboration

Xingqi Chen 1 collaboration

Ceyda Coruh 1 collaboration

Jack Houston 1 collaboration

Hoon Kim 1 collaboration

Julie A Law 1 collaboration

Roel G W Verhaak 1 collaboration

Frank B Furnari 1 collaboration

Howard Y Chang 1 collaboration

Laura Belver 1 collaboration

Alexander Y Yang 1 collaboration

Robert Albero 1 collaboration

Daniel Herranz 1 collaboration

Francesco G Brundu 1 collaboration

S Aidan Quinn 1 collaboration

Pablo Pérez-Durán 1 collaboration

Silvia Álvarez 1 collaboration

Francesca Gianni 1 collaboration

Marissa Rashkovan 1 collaboration

Devya Gurung 1 collaboration

Pedro P Rocha 1 collaboration

Clara Reglero 1 collaboration

Jose R Cortés 1 collaboration

Anisha J Cooke 1 collaboration

Agnieszka A Wendorff 1 collaboration

Valentina Cordó 1 collaboration

Jules P Meijerink 1 collaboration

Raúl Rabadan 1 collaboration

Adolfo A Ferrando 1 collaboration

Sudhir Chowdhry 1 collaboration

Ciro Zanca 1 collaboration

Feng Liu 1 collaboration

Kristen Turner 1 collaboration

Huijun Yang 1 collaboration

Elizabeth Brunk 1 collaboration

Junfeng Bi 1 collaboration

Frank Furnari 1 collaboration

Ivan Juric 1 collaboration

Yuan Zhao 1 collaboration

Yanxiao Zhang 1 collaboration

Yuchen Yang 1 collaboration

Yun Li 1 collaboration

Lucas Patel 1 collaboration

Rhea Kang 1 collaboration

Scott C Rosenberg 1 collaboration

Sora Chee 1 collaboration

Francesca Cole 1 collaboration

Kevin D Corbett 1 collaboration

Dennis J Yuan 1 collaboration

John Zinno 1 collaboration

Dalia Dhingra 1 collaboration

Shu Wang 1 collaboration

Allegra Hawkins 1 collaboration

Ariel Swett 1 collaboration

Clayton Hughes 1 collaboration

Akira Yokoyama 1 collaboration

Nobuyuki Kakiuchi 1 collaboration

Seishi Ogawa 1 collaboration