Noah Ollikainen

Affiliations

Division of Biology and Biological Engineering, California Institute of Technology, Pasadena, CA, USA.

Publications (11)

Single-cell measurement of higher-order 3D genome organization with scSPRITE.

Nature biotechnology

Avec: Mary V Arrastia , Joanna W Jachowicz , Noah Ollikainen , Matthew S Curtis , Charlotte Lai , Sofia A Quinodoz , David A Selck , Rustem F Ismagilov , Mitchell Guttman

Three-dimensional chromatin reorganization regulates B cell development during ageing.

Nature cell biology

Avec: Fei Ma , Yaqiang Cao , Hansen Du , Fatima Zohra Braikia , Le Zong , Noah Ollikainen , Marc Bayer , Xiang Qiu , Bongsoo Park , Roshni Roy , Satabdi Nandi , Dimitra Sarantopoulou , Andrew Ziman , Aisha Haley Bianchi , Isabel Beerman , Keji Zhao , Rudolf Grosschedl , Ranjan Sen

Integrated spatial genomics reveals global architecture of single nuclei.

Nature

Avec: Yodai Takei , Jina Yun , Shiwei Zheng , Noah Ollikainen , Nico Pierson , Jonathan White , Sheel Shah , Julian Thomassie , Shengbao Suo , Chee-Huat Linus Eng , Mitchell Guttman , Guo-Cheng Yuan , Long Cai

Macromolecular modeling and design in Rosetta: recent methods and frameworks.

Nature methods

Avec: Julia Koehler Leman , Brian D Weitzner , Steven M Lewis , Jared Adolf-Bryfogle , Nawsad Alam , Rebecca F Alford , Melanie Aprahamian , David Baker , Kyle A Barlow , Patrick Barth , Benjamin Basanta , Brian J Bender , Kristin Blacklock , Jaume Bonet , Scott E Boyken , Phil Bradley , Chris Bystroff , Patrick Conway , Seth Cooper , Bruno E Correia , Brian Coventry , Rhiju Das , René M De Jong , Frank DiMaio , Lorna Dsilva , Roland Dunbrack , Alexander S Ford , Brandon Frenz , Darwin Y Fu , Caleb Geniesse , Lukasz Goldschmidt , Ragul Gowthaman , Jeffrey J Gray , Dominik Gront , Sharon Guffy , Scott Horowitz , Po-Ssu Huang , Thomas Huber , Tim M Jacobs , Jeliazko R Jeliazkov , David K Johnson , Kalli Kappel , John Karanicolas , Hamed Khakzad , Karen R Khar , Sagar D Khare , Firas Khatib , Alisa Khramushin , Indigo C King , Robert Kleffner , Brian Koepnick , Tanja Kortemme , Georg Kuenze , Brian Kuhlman , Daisuke Kuroda , Jason W Labonte , Jason K Lai , Gideon Lapidoth , Andrew Leaver-Fay , Steffen Lindert , Thomas Linsky , Nir London , Joseph H Lubin , Sergey Lyskov , Jack Maguire , Lars Malmström , Enrique Marcos , Orly Marcu , Nicholas A Marze , Jens Meiler , Rocco Moretti , Vikram Khipple Mulligan , Santrupti Nerli , Christoffer Norn , Shane Ó'Conchúir , Noah Ollikainen , Sergey Ovchinnikov , Michael S Pacella , Xingjie Pan , Hahnbeom Park , Ryan E Pavlovicz , Manasi Pethe , Brian G Pierce , Kala Bharath Pilla , Barak Raveh , P Douglas Renfrew , Shourya S Roy Burman , Aliza Rubenstein , Marion F Sauer , Andreas Scheck , William Schief , Ora Schueler-Furman , Yuval Sedan , Alexander M Sevy , Nikolaos G Sgourakis , Lei Shi , Justin B Siegel , Daniel-Adriano Silva , Shannon Smith , Yifan Song , Amelie Stein , Maria Szegedy , Frank D Teets , Summer B Thyme , Ray Yu-Ruei Wang , Andrew Watkins , Lior Zimmerman , Richard Bonneau

SARS-CoV-2 Disrupts Splicing, Translation, and Protein Trafficking to Suppress Host Defenses.

Cell

Avec: Abhik K Banerjee , Mario R Blanco , Emily A Bruce , Drew D Honson , Linlin M Chen , Amy Chow , Prashant Bhat , Noah Ollikainen , Sofia A Quinodoz , Colin Loney , Jasmine Thai , Zachary D Miller , Aaron E Lin , Madaline M Schmidt , Douglas G Stewart , Daniel Goldfarb , Giuditta De Lorenzo , Suzannah J Rihn , Rebecca M Voorhees , Jason W Botten , Devdoot Majumdar , Mitchell Guttman

Systems-level effects of allosteric perturbations to a model molecular switch.

Nature

Avec: Tina Perica , Christopher J P Mathy , Jiewei Xu , Gwendolyn Μ Jang , Yang Zhang , Robyn Kaake , Noah Ollikainen , Hannes Braberg , Danielle L Swaney , David G Lambright , Mark J S Kelly , Nevan J Krogan , Tanja Kortemme

SPRITE: a genome-wide method for mapping higher-order 3D interactions in the nucleus using combinatorial split-and-pool barcoding.

Nature protocols

Avec: Sofia A Quinodoz , Prashant Bhat , Peter Chovanec , Joanna W Jachowicz , Noah Ollikainen , Elizabeth Detmar , Elizabeth Soehalim , Mitchell Guttman

Simultaneous mapping of 3D structure and nascent RNAs argues against nuclear compartments that preclude transcription.

Cell reports

Avec: Isabel N Goronzy , Sofia A Quinodoz , Joanna W Jachowicz , Noah Ollikainen , Prashant Bhat , Mitchell Guttman

Computational design of a modular protein sense-response system.

Science (New York, N.Y.)

Avec: Anum A Glasgow , Yao-Ming Huang , Daniel J Mandell , Michael Thompson , Ryan Ritterson , Amanda L Loshbaugh , Jenna Pellegrino , Cody Krivacic , Roland A Pache , Kyle A Barlow , Noah Ollikainen , Deborah Jeon , Mark J S Kelly , James S Fraser , Tanja Kortemme

RNA promotes the formation of spatial compartments in the nucleus.

Cell

Avec: Sofia A Quinodoz , Joanna W Jachowicz , Prashant Bhat , Noah Ollikainen , Abhik K Banerjee , Isabel N Goronzy , Mario R Blanco , Peter Chovanec , Amy Chow , Yolanda Markaki , Jasmine Thai , Kathrin Plath , Mitchell Guttman

Unraveling the Tcrb interactome.

The Journal of experimental medicine

Avec: Noah Ollikainen , Ranjan Sen

Réseau de co-auteurs

Mitchell Guttman 6 collaborations

Sofia A Quinodoz 5 collaborations

Joanna W Jachowicz 4 collaborations

Prashant Bhat 4 collaborations

Tanja Kortemme 3 collaborations

Ranjan Sen 2 collaborations

Kyle A Barlow 2 collaborations

Abhik K Banerjee 2 collaborations

Mario R Blanco 2 collaborations

Amy Chow 2 collaborations

Jasmine Thai 2 collaborations

Mark J S Kelly 2 collaborations

Peter Chovanec 2 collaborations

Isabel N Goronzy 2 collaborations

Mary V Arrastia 1 collaboration

Matthew S Curtis 1 collaboration

Charlotte Lai 1 collaboration

David A Selck 1 collaboration

Rustem F Ismagilov 1 collaboration

Fei Ma 1 collaboration

Yaqiang Cao 1 collaboration

Hansen Du 1 collaboration

Fatima Zohra Braikia 1 collaboration

Le Zong 1 collaboration

Marc Bayer 1 collaboration

Xiang Qiu 1 collaboration

Bongsoo Park 1 collaboration

Roshni Roy 1 collaboration

Satabdi Nandi 1 collaboration

Dimitra Sarantopoulou 1 collaboration

Andrew Ziman 1 collaboration

Aisha Haley Bianchi 1 collaboration

Isabel Beerman 1 collaboration

Keji Zhao 1 collaboration

Rudolf Grosschedl 1 collaboration

Yodai Takei 1 collaboration

Jina Yun 1 collaboration

Shiwei Zheng 1 collaboration

Nico Pierson 1 collaboration

Jonathan White 1 collaboration

Sheel Shah 1 collaboration

Julian Thomassie 1 collaboration

Shengbao Suo 1 collaboration

Chee-Huat Linus Eng 1 collaboration

Guo-Cheng Yuan 1 collaboration

Long Cai 1 collaboration

Julia Koehler Leman 1 collaboration

Brian D Weitzner 1 collaboration

Steven M Lewis 1 collaboration

Jared Adolf-Bryfogle 1 collaboration

Nawsad Alam 1 collaboration

Rebecca F Alford 1 collaboration

Melanie Aprahamian 1 collaboration

David Baker 1 collaboration

Patrick Barth 1 collaboration

Benjamin Basanta 1 collaboration

Brian J Bender 1 collaboration

Kristin Blacklock 1 collaboration

Jaume Bonet 1 collaboration

Scott E Boyken 1 collaboration

Phil Bradley 1 collaboration

Chris Bystroff 1 collaboration

Patrick Conway 1 collaboration

Seth Cooper 1 collaboration

Bruno E Correia 1 collaboration

Brian Coventry 1 collaboration

Rhiju Das 1 collaboration

René M De Jong 1 collaboration

Frank DiMaio 1 collaboration

Lorna Dsilva 1 collaboration

Roland Dunbrack 1 collaboration

Alexander S Ford 1 collaboration

Brandon Frenz 1 collaboration

Darwin Y Fu 1 collaboration

Caleb Geniesse 1 collaboration

Lukasz Goldschmidt 1 collaboration

Ragul Gowthaman 1 collaboration

Jeffrey J Gray 1 collaboration

Dominik Gront 1 collaboration

Sharon Guffy 1 collaboration

Scott Horowitz 1 collaboration

Po-Ssu Huang 1 collaboration

Thomas Huber 1 collaboration

Tim M Jacobs 1 collaboration

Jeliazko R Jeliazkov 1 collaboration

David K Johnson 1 collaboration

Kalli Kappel 1 collaboration

John Karanicolas 1 collaboration

Hamed Khakzad 1 collaboration

Karen R Khar 1 collaboration

Sagar D Khare 1 collaboration

Firas Khatib 1 collaboration

Alisa Khramushin 1 collaboration

Indigo C King 1 collaboration

Robert Kleffner 1 collaboration

Brian Koepnick 1 collaboration

Georg Kuenze 1 collaboration

Brian Kuhlman 1 collaboration

Daisuke Kuroda 1 collaboration

Jason W Labonte 1 collaboration

Jason K Lai 1 collaboration

Gideon Lapidoth 1 collaboration

Andrew Leaver-Fay 1 collaboration

Steffen Lindert 1 collaboration

Thomas Linsky 1 collaboration

Nir London 1 collaboration

Joseph H Lubin 1 collaboration

Sergey Lyskov 1 collaboration

Jack Maguire 1 collaboration

Lars Malmström 1 collaboration

Enrique Marcos 1 collaboration

Orly Marcu 1 collaboration

Nicholas A Marze 1 collaboration

Jens Meiler 1 collaboration

Rocco Moretti 1 collaboration

Vikram Khipple Mulligan 1 collaboration

Santrupti Nerli 1 collaboration

Christoffer Norn 1 collaboration

Shane Ó'Conchúir 1 collaboration

Sergey Ovchinnikov 1 collaboration

Michael S Pacella 1 collaboration

Xingjie Pan 1 collaboration

Hahnbeom Park 1 collaboration

Ryan E Pavlovicz 1 collaboration

Manasi Pethe 1 collaboration

Brian G Pierce 1 collaboration

Kala Bharath Pilla 1 collaboration

Barak Raveh 1 collaboration

P Douglas Renfrew 1 collaboration

Shourya S Roy Burman 1 collaboration

Aliza Rubenstein 1 collaboration

Marion F Sauer 1 collaboration

Andreas Scheck 1 collaboration

William Schief 1 collaboration

Ora Schueler-Furman 1 collaboration

Yuval Sedan 1 collaboration

Alexander M Sevy 1 collaboration

Nikolaos G Sgourakis 1 collaboration

Lei Shi 1 collaboration

Justin B Siegel 1 collaboration

Daniel-Adriano Silva 1 collaboration

Shannon Smith 1 collaboration

Yifan Song 1 collaboration

Amelie Stein 1 collaboration

Maria Szegedy 1 collaboration

Frank D Teets 1 collaboration

Summer B Thyme 1 collaboration

Ray Yu-Ruei Wang 1 collaboration

Andrew Watkins 1 collaboration

Lior Zimmerman 1 collaboration

Richard Bonneau 1 collaboration

Emily A Bruce 1 collaboration

Drew D Honson 1 collaboration

Linlin M Chen 1 collaboration

Colin Loney 1 collaboration

Zachary D Miller 1 collaboration

Aaron E Lin 1 collaboration

Madaline M Schmidt 1 collaboration

Douglas G Stewart 1 collaboration

Daniel Goldfarb 1 collaboration

Giuditta De Lorenzo 1 collaboration

Suzannah J Rihn 1 collaboration

Rebecca M Voorhees 1 collaboration

Jason W Botten 1 collaboration

Devdoot Majumdar 1 collaboration

Tina Perica 1 collaboration

Christopher J P Mathy 1 collaboration

Jiewei Xu 1 collaboration

Gwendolyn Μ Jang 1 collaboration

Yang Zhang 1 collaboration

Robyn Kaake 1 collaboration

Hannes Braberg 1 collaboration

Danielle L Swaney 1 collaboration

David G Lambright 1 collaboration

Nevan J Krogan 1 collaboration

Elizabeth Detmar 1 collaboration

Elizabeth Soehalim 1 collaboration

Anum A Glasgow 1 collaboration

Yao-Ming Huang 1 collaboration

Daniel J Mandell 1 collaboration

Michael Thompson 1 collaboration

Ryan Ritterson 1 collaboration

Amanda L Loshbaugh 1 collaboration

Jenna Pellegrino 1 collaboration

Cody Krivacic 1 collaboration

Roland A Pache 1 collaboration

Deborah Jeon 1 collaboration

James S Fraser 1 collaboration

Yolanda Markaki 1 collaboration

Kathrin Plath 1 collaboration