Idit Kosti

Affiliations

Bakar Computational Health Sciences Institute, University of California San Francisco, San Francisco, CA. USA.
Department of Pediatrics. University of California San Francisco, San Francisco, CA. USA.
March of Dimes Prematurity Research Center at the University of California San Francisco, San Francisco, CA USA.

Publications (18)

VMAP: Vaginal Microbiome Atlas During Pregnancy.

medRxiv : the preprint server for health sciences

Avec: Antonio Parraga-Leo , Tomiko T Oskotsky , Boris Oskotsky , Camilla Wibrand , Alennie Roldan , Alice Tang , Connie W Y Ha , Ronald J Wong , Samuel S Minot , Gaia Andreoletti , Idit Kosti , Kevin R Theis , Sherrianne Ng , Yun S Lee , Patricia Diaz-Gimeno , Phillip R Bennett , David A MacIntyre , Susan V Lynch , Roberto Romero , Adi L Tarca , David K Stevenson , Nima Aghaeepour , Jonathan Golob , Marina Sirota

Decreased Mortality Rate Among COVID-19 Patients Prescribed Statins: Data From Electronic Health Records in the US.

Frontiers in medicine

Avec: Ivana Marić , Tomiko Oskotsky , Idit Kosti , Brian Le , Ronald J Wong , Gary M Shaw , Marina Sirota , David K Stevenson

Microbiome Preterm Birth DREAM Challenge: Crowdsourcing Machine Learning Approaches to Advance Preterm Birth Research.

medRxiv : the preprint server for health sciences

Avec: Jonathan L Golob , Tomiko T Oskotsky , Alice S Tang , Alennie Roldan , Verena Chung , Connie W Y Ha , Ronald J Wong , Kaitlin J Flynn , Antonio Parraga-Leo , Camilla Wibrand , Samuel S Minot , Gaia Andreoletti , Idit Kosti , Julie Bletz , Amber Nelson , Jifan Gao , Zhoujingpeng Wei , Guanhua Chen , Zheng-Zheng Tang , Pierfrancesco Novielli , Donato Romano , Ester Pantaleo , Nicola Amoroso , Alfonso Monaco , Mirco Vacca , Maria De Angelis , Roberto Bellotti , Sabina Tangaro , Abigail Kuntzleman , Isaac Bigcraft , Stephen Techtmann , Daehun Bae , Eunyoung Kim , Jongbum Jeon , Soobok Joe , Auteur inconnu , Kevin R Theis , Sherrianne Ng , Yun S Lee Li , Patricia Diaz-Gimeno , Phillip R Bennett , David A MacIntyre , Gustavo Stolovitzky , Susan V Lynch , Jake Albrecht , Nardhy Gomez-Lopez , Roberto Romero , David K Stevenson , Nima Aghaeepour , Adi L Tarca , James C Costello , Marina Sirota

Proteomic profiles of cytokines and chemokines in moderate to severe depression: Implications for comorbidities and biomarker discovery.

Brain, behavior, & immunity - health

Avec: Kathleen T Watson , Jennifer Keller , Caleb M Spiro , Isaac B Satz , Samantha V Goncalves , Heather Pankow , Idit Kosti , Benoit Lehallier , Adolfo Sequeira , William E Bunney , Natalie L Rasgon , Alan F Schatzberg

Transcriptomics-based drug repositioning pipeline identifies therapeutic candidates for COVID-19.

Scientific reports

Avec: Brian L Le , Gaia Andreoletti , Tomiko Oskotsky , Albert Vallejo-Gracia , Romel Rosales , Katharine Yu , Idit Kosti , Kristoffer E Leon , Daniel G Bunis , Christine Li , G Renuka Kumar , Kris M White , Adolfo García-Sastre , Melanie Ott , Marina Sirota

Global endometrial DNA methylation analysis reveals insights into mQTL regulation and associated endometriosis disease risk and endometrial function.

Communications biology

Avec: Sally Mortlock , Sahar Houshdaran , Idit Kosti , Nilufer Rahmioglu , Camran Nezhat , Allison F Vitonis , Shan V Andrews , Parker Grosjean , Manish Paranjpe , Andrew W Horne , Alison Jacoby , Jeannette Lager , Jessica Opoku-Anane , Kim Chi Vo , Evelina Manvelyan , Sushmita Sen , Zhanna Ghukasyan , Frances Collins , Xavier Santamaria , Philippa Saunders , Kord Kober , Allan F McRae , Kathryn L Terry , Júlia Vallvé-Juanico , Christian Becker , Peter A W Rogers , Juan C Irwin , Krina Zondervan , Grant W Montgomery , Stacey Missmer , Marina Sirota , Linda Giudice

Experimental and real-world evidence supporting the computational repurposing of bumetanide for

Nature aging

Avec: Alice Taubes , Phil Nova , Kelly A Zalocusky , Idit Kosti , Mesude Bicak , Misha Y Zilberter , Yanxia Hao , Seo Yeon Yoon , Tomiko Oskotsky , Silvia Pineda , Bin Chen , Emily A Aery Jones , Krishna Choudhary , Brian Grone , Maureen E Balestra , Fayzan Chaudhry , Ishan Paranjpe , Jessica De Freitas , Nicole Koutsodendris , Nuo Chen , Celine Wang , William Chang , Alice An , Benjamin S Glicksberg , Marina Sirota , Yadong Huang

Target-agnostic drug prediction integrated with medical record analysis uncovers differential associations of statins with increased survival in COVID-19 patients.

PLoS computational biology

Avec: Megan M Sperry , Tomiko T Oskotsky , Ivana Marić , Shruti Kaushal , Takako Takeda , Viktor Horvath , Rani K Powers , Melissa Rodas , Brooke Furlong , Mercy Soong , Pranav Prabhala , Girija Goyal , Kenneth E Carlson , Ronald J Wong , Idit Kosti , Brian L Le , James Logue , Holly Hammond , Matthew Frieman , David K Stevenson , Donald E Ingber , Marina Sirota , Richard Novak

Identifying therapeutic candidates for endometriosis through a transcriptomics-based drug repositioning approach.

iScience

Avec: Tomiko T Oskotsky , Arohee Bhoja , Daniel Bunis , Brian L Le , Alice S Tang , Idit Kosti , Christine Li , Sahar Houshdaran , Sushmita Sen , Júlia Vallvé-Juanico , Wanxin Wang , Erin Arthurs , Arpita Govil , Lauren Mahoney , Lindsey Lang , Brice Gaudilliere , David K Stevenson , Juan C Irwin , Linda C Giudice , Stacy L McAllister , Marina Sirota

Microbiome preterm birth DREAM challenge: Crowdsourcing machine learning approaches to advance preterm birth research.

Cell reports. Medicine

Avec: Jonathan L Golob , Tomiko T Oskotsky , Alice S Tang , Alennie Roldan , Verena Chung , Connie W Y Ha , Ronald J Wong , Kaitlin J Flynn , Antonio Parraga-Leo , Camilla Wibrand , Samuel S Minot , Boris Oskotsky , Gaia Andreoletti , Idit Kosti , Julie Bletz , Amber Nelson , Jifan Gao , Zhoujingpeng Wei , Guanhua Chen , Zheng-Zheng Tang , Pierfrancesco Novielli , Donato Romano , Ester Pantaleo , Nicola Amoroso , Alfonso Monaco , Mirco Vacca , Maria De Angelis , Roberto Bellotti , Sabina Tangaro , Abigail Kuntzleman , Isaac Bigcraft , Stephen Techtmann , Daehun Bae , Eunyoung Kim , Jongbum Jeon , Soobok Joe , Auteur inconnu , Kevin R Theis , Sherrianne Ng , Yun S Lee , Patricia Diaz-Gimeno , Phillip R Bennett , David A MacIntyre , Gustavo Stolovitzky , Susan V Lynch , Jake Albrecht , Nardhy Gomez-Lopez , Roberto Romero , David K Stevenson , Nima Aghaeepour , Adi L Tarca , James C Costello , Marina Sirota

VMAP: Vaginal Microbiome Atlas during Pregnancy.

JAMIA open

Avec: Antonio Parraga-Leo , Tomiko T Oskotsky , Boris Oskotsky , Camilla Wibrand , Alennie Roldan , Alice S Tang , Connie W Y Ha , Ronald J Wong , Samuel S Minot , Gaia Andreoletti , Idit Kosti , Kevin R Theis , Sherrianne Ng , Yun S Lee , Patricia Diaz-Gimeno , Phillip R Bennett , David A MacIntyre , Susan V Lynch , Roberto Romero , Adi L Tarca , David K Stevenson , Nima Aghaeepour , Jonathan L Golob , Marina Sirota

Transcriptomics-based drug repositioning pipeline identifies therapeutic candidates for COVID-19.

Research square

Whole-Tissue Deconvolution and scRNAseq Analysis Identify Altered Endometrial Cellular Compositions and Functionality Associated With Endometriosis.

Frontiers in immunology

Avec: Daniel G Bunis , Wanxin Wang , Júlia Vallvé-Juanico , Sahar Houshdaran , Sushmita Sen , Isam Ben Soltane , Idit Kosti , Kim Chi Vo , Juan C Irwin , Linda C Giudice , Marina Sirota

Target-agnostic drug prediction integrated with medical record analysis uncovers differential associations of statins with increased survival in COVID-19 patients.

medRxiv : the preprint server for health sciences

Avec: Megan M Sperry , Tomiko Oskotsky , Ivana MariÄ , Shruti Kaushal , Takako Takeda , Viktor Horvath , Rani K Powers , Melissa Rodas , Brooke Furlong , Mercy Soong , Pranav Prabhala , Girija Goyal , Kenneth E Carlson , Ronald J Wong , Idit Kosti , Brian L Le , James Logue , Holly Hammond , Matthew Frieman , David K Stevenson , Donald E Ingber , Marina Sirota , Richard Novak

Leveraging electronic health records to identify risk factors for recurrent pregnancy loss across two medical centers: a case-control study.

Research square

Avec: Jacquelyn Roger , Feng Xie , Jean Costello , Alice Tang , Jay Liu , Tomiko Oskotsky , Sarah Woldemariam , Idit Kosti , Brian Le , Michael P Snyder , Linda C Giudice , Dara Torgerson , Gary M Shaw , David K Stevenson , Aleksandar Rajkovic , M Maria Glymour , Nima Aghaeepour , Hakan Cakmak , Ruth B Lathi , Marina Sirota

Meta-Analysis of Vaginal Microbiome Data Provides New Insights Into Preterm Birth.

Frontiers in microbiology

Avec: Idit Kosti , Svetlana Lyalina , Katherine S Pollard , Atul J Butte , Marina Sirota

Drugs in COVID-19 Clinical Trials: Predicting Transporter-Mediated Drug-Drug Interactions Using In Vitro Assays and Real-World Data.

Clinical pharmacology and therapeutics

Avec: Sook Wah Yee , Bianca Vora , Tomiko Oskotsky , Ling Zou , Sebastian Jakobsen , Osatohanmwen J Enogieru , Megan L Koleske , Idit Kosti , Mattias Rödin , Marina Sirota , Kathleen M Giacomini

Dense phenotyping from electronic health records enables machine learning-based prediction of preterm birth.

BMC medicine

Avec: Abin Abraham , Brian Le , Idit Kosti , Peter Straub , Digna R Velez-Edwards , Lea K Davis , J M Newton , Louis J Muglia , Antonis Rokas , Cosmin A Bejan , Marina Sirota , John A Capra

Réseau de co-auteurs

Marina Sirota 17 collaborations

David K Stevenson 9 collaborations

Ronald J Wong 7 collaborations

Tomiko Oskotsky 7 collaborations

Tomiko T Oskotsky 6 collaborations

Gaia Andreoletti 6 collaborations

Nima Aghaeepour 5 collaborations

Brian L Le 5 collaborations

Antonio Parraga-Leo 4 collaborations

Camilla Wibrand 4 collaborations

Alennie Roldan 4 collaborations

Connie W Y Ha 4 collaborations

Samuel S Minot 4 collaborations

Kevin R Theis 4 collaborations

Sherrianne Ng 4 collaborations

Patricia Diaz-Gimeno 4 collaborations

Phillip R Bennett 4 collaborations

David A MacIntyre 4 collaborations

Susan V Lynch 4 collaborations

Roberto Romero 4 collaborations

Adi L Tarca 4 collaborations

Alice S Tang 4 collaborations

Boris Oskotsky 3 collaborations

Yun S Lee 3 collaborations

Brian Le 3 collaborations

Jonathan L Golob 3 collaborations

Daniel G Bunis 3 collaborations

Christine Li 3 collaborations

Sahar Houshdaran 3 collaborations

Sushmita Sen 3 collaborations

Júlia Vallvé-Juanico 3 collaborations

Juan C Irwin 3 collaborations

Linda C Giudice 3 collaborations

Alice Tang 2 collaborations

Ivana Marić 2 collaborations

Gary M Shaw 2 collaborations

Verena Chung 2 collaborations

Kaitlin J Flynn 2 collaborations

Julie Bletz 2 collaborations

Amber Nelson 2 collaborations

Jifan Gao 2 collaborations

Zhoujingpeng Wei 2 collaborations

Guanhua Chen 2 collaborations

Zheng-Zheng Tang 2 collaborations

Pierfrancesco Novielli 2 collaborations

Donato Romano 2 collaborations

Ester Pantaleo 2 collaborations

Nicola Amoroso 2 collaborations

Alfonso Monaco 2 collaborations

Mirco Vacca 2 collaborations

Maria De Angelis 2 collaborations

Roberto Bellotti 2 collaborations

Sabina Tangaro 2 collaborations

Abigail Kuntzleman 2 collaborations

Isaac Bigcraft 2 collaborations

Stephen Techtmann 2 collaborations

Daehun Bae 2 collaborations

Eunyoung Kim 2 collaborations

Jongbum Jeon 2 collaborations

Soobok Joe 2 collaborations

None None 2 collaborations

Gustavo Stolovitzky 2 collaborations

Jake Albrecht 2 collaborations

Nardhy Gomez-Lopez 2 collaborations

James C Costello 2 collaborations

Albert Vallejo-Gracia 2 collaborations

Romel Rosales 2 collaborations

Katharine Yu 2 collaborations

Kristoffer E Leon 2 collaborations

G Renuka Kumar 2 collaborations

Kris M White 2 collaborations

Adolfo García-Sastre 2 collaborations

Melanie Ott 2 collaborations

Kim Chi Vo 2 collaborations

Megan M Sperry 2 collaborations

Shruti Kaushal 2 collaborations

Takako Takeda 2 collaborations

Viktor Horvath 2 collaborations

Rani K Powers 2 collaborations

Melissa Rodas 2 collaborations

Brooke Furlong 2 collaborations

Mercy Soong 2 collaborations

Pranav Prabhala 2 collaborations

Girija Goyal 2 collaborations

Kenneth E Carlson 2 collaborations

James Logue 2 collaborations

Holly Hammond 2 collaborations

Matthew Frieman 2 collaborations

Donald E Ingber 2 collaborations

Richard Novak 2 collaborations

Wanxin Wang 2 collaborations

Jonathan Golob 1 collaboration

Yun S Lee Li 1 collaboration

Kathleen T Watson 1 collaboration

Jennifer Keller 1 collaboration

Caleb M Spiro 1 collaboration

Isaac B Satz 1 collaboration

Samantha V Goncalves 1 collaboration

Heather Pankow 1 collaboration

Benoit Lehallier 1 collaboration

Adolfo Sequeira 1 collaboration

William E Bunney 1 collaboration

Natalie L Rasgon 1 collaboration

Alan F Schatzberg 1 collaboration

Sally Mortlock 1 collaboration

Nilufer Rahmioglu 1 collaboration

Camran Nezhat 1 collaboration

Allison F Vitonis 1 collaboration

Shan V Andrews 1 collaboration

Parker Grosjean 1 collaboration

Manish Paranjpe 1 collaboration

Andrew W Horne 1 collaboration

Alison Jacoby 1 collaboration

Jeannette Lager 1 collaboration

Jessica Opoku-Anane 1 collaboration

Evelina Manvelyan 1 collaboration

Zhanna Ghukasyan 1 collaboration

Frances Collins 1 collaboration

Xavier Santamaria 1 collaboration

Philippa Saunders 1 collaboration

Kord Kober 1 collaboration

Allan F McRae 1 collaboration

Kathryn L Terry 1 collaboration

Christian Becker 1 collaboration

Peter A W Rogers 1 collaboration

Krina Zondervan 1 collaboration

Grant W Montgomery 1 collaboration

Stacey Missmer 1 collaboration

Linda Giudice 1 collaboration

Alice Taubes 1 collaboration

Phil Nova 1 collaboration

Kelly A Zalocusky 1 collaboration

Mesude Bicak 1 collaboration

Misha Y Zilberter 1 collaboration

Yanxia Hao 1 collaboration

Seo Yeon Yoon 1 collaboration

Silvia Pineda 1 collaboration

Bin Chen 1 collaboration

Emily A Aery Jones 1 collaboration

Krishna Choudhary 1 collaboration

Brian Grone 1 collaboration

Maureen E Balestra 1 collaboration

Fayzan Chaudhry 1 collaboration

Ishan Paranjpe 1 collaboration

Jessica De Freitas 1 collaboration

Nicole Koutsodendris 1 collaboration

Nuo Chen 1 collaboration

Celine Wang 1 collaboration

William Chang 1 collaboration

Alice An 1 collaboration

Benjamin S Glicksberg 1 collaboration

Yadong Huang 1 collaboration

Arohee Bhoja 1 collaboration

Daniel Bunis 1 collaboration

Erin Arthurs 1 collaboration

Arpita Govil 1 collaboration

Lauren Mahoney 1 collaboration

Lindsey Lang 1 collaboration

Brice Gaudilliere 1 collaboration

Stacy L McAllister 1 collaboration

Isam Ben Soltane 1 collaboration

Ivana MariÄ 1 collaboration

Jacquelyn Roger 1 collaboration

Feng Xie 1 collaboration

Jean Costello 1 collaboration

Jay Liu 1 collaboration

Sarah Woldemariam 1 collaboration

Michael P Snyder 1 collaboration

Dara Torgerson 1 collaboration

Aleksandar Rajkovic 1 collaboration

M Maria Glymour 1 collaboration

Hakan Cakmak 1 collaboration

Ruth B Lathi 1 collaboration

Svetlana Lyalina 1 collaboration

Katherine S Pollard 1 collaboration

Atul J Butte 1 collaboration

Sook Wah Yee 1 collaboration

Bianca Vora 1 collaboration

Ling Zou 1 collaboration

Sebastian Jakobsen 1 collaboration

Osatohanmwen J Enogieru 1 collaboration

Megan L Koleske 1 collaboration

Mattias Rödin 1 collaboration

Kathleen M Giacomini 1 collaboration

Abin Abraham 1 collaboration

Peter Straub 1 collaboration

Digna R Velez-Edwards 1 collaboration

Lea K Davis 1 collaboration

J M Newton 1 collaboration

Louis J Muglia 1 collaboration

Antonis Rokas 1 collaboration

Cosmin A Bejan 1 collaboration

John A Capra 1 collaboration