Publications | UCSF CoLabs

Global Absence and Targeting of Protective Immune States in Severe COVID-19

Authors: Combes Alexis J., Courau Tristan, Kuhn Nicholas F., Hu Kenneth H., Ray Arja, Chen William S., Chew Nayvin W., Cleary Simon J., Kushnoor Divyashree, Reeder Gabriella C., Shen Alan, Tsui Jessica, Hiam-Galvez Kamir J., Muñoz-Sandoval Priscila, Zhu Wandi S., Lee David S., Sun Yang, You Ran, Magnen Mélia... See more

Journal:

Nature

January 2021

The Type 2 Asthma Mediator IL-13 Inhibits Severe Acute Respiratory Syndrome Coronavirus 2 Infection of Bronchial Epithelium

Authors: Bonser Luke R., Eckalbar Walter L., Rodriguez Lauren, Shen Jiangshan, Koh Kyung Duk, Ghias Khadija, Zlock Lorna T., Christenson Stephanie, Woodruff Prescott G., Finkbeiner Walter E., Erle David J.

Journal:

American Journal of Respiratory Cell and Molecular Biology

January 2021

Universal User-Friendly Single-Cell and Bulk RNA Sequencing Visualization Toolkit

Authors: Bunis Daniel G, Andrews Jared, Fragiadakis Gabriela K, BurtTrevor D, Sirota Marina

Journal:

Bioinformatics

December 2020

SCENITH: A Flow Cytometry-Based Method to Functionally Profile Energy Metabolism with Single-Cell Resolution

Authors: Argüello Rafael J., Combes Alexis J., Char Remy, Gigan Julien-Paul, Baaziz Ania I., Bousiquot Evens, Camosseto Voahirana, Samad Bushra, Tsui Jessica, Yan Peter, Boissonneau Sebastien, Figarella-Branger Dominique, Gatti Evelina, Tabouret Emeline, Krummel Matthew F., Pierre Philippe

Journal:

Cell Metabolism

December 2020

Asthma and its Relationship to Mitochondrial Copy Number: Results from the Asthma Translational Genomics Collaborative (ATGC) of the Trans-Omics for Precision Medicine (TOPMed) Program

Authors: Cocco Maxwell P., White Evan, Xiao Shujie, Hu Donglei, Mak Angel, Sleiman Patrick, Yang Mao, Bobbitt Kevin R., Gui Hongsheng, Levin Albert M., Hochstadt Samantha, Whitehouse Kyle, Rynkowski Dean, Barczak Andrea J., Abecasis Gonçalo, Blackwell Thomas W., Kang Hyun Min, Nickerson Deborah A., Germer So... See more

Journal:

PLOS ONE

November 2020

Genomic characterization of the adolescent idiopathic scoliosis-associated transcriptome and regulome

Authors: Makki Nadja, Zhao Jingjing, Liu Zhaoyang, Eckalbar Walter L, Ushiki Aki, Khanshour Anas M, Wu Joe, Rios Jonathan, Gray Ryan S, Wise Carol A, Ahituv Nadav

Journal:

Human Molecular Genetics

November 2020

A defect in COPI-mediated transport of STING causes immune dysregulation in COPA syndrome

Authors: Deng Zimu, Chong Zhenlu, Law Christopher S., Mukai Kojiro, Ho Frances O., Martinu Tereza, Backes Bradley J., Eckalbar Walter L., Taguchi Tomohiko, Shum Anthony K.

Journal:

Journal of Experimental Medicine

November 2020

Whole-Genome Sequencing Identifies Novel Functional Loci Associated with Lung Function in Puerto Rican Youth

Authors: Lee Eunice Y., Mak Angel C. Y., Hu Donglei, Sajuthi Satria, White Marquitta J., Keys Kevin L., Eckalbar Walter, Bonser Luke, Huntsman Scott, Urbanek Cydney, Eng Celeste, Jain Deepti, Abecasis Gonçalo, Kang Hyun M., Germer Soren, Zody Michael C., Nickerson Deborah A., Erle David, Ziv Elad, Rodriguez-... See more

Journal:

American Journal of Respiratory and Critical Care Medicine

October 2020

Functional CRISPR dissection of gene networks controlling human regulatory T cell identity

Authors: Schumann Kathrin, Raju Siddharth S., Lauber Michael, Kolb Saskia, Shifrut Eric, Cortez Jessica T., Skartsis Nikolaos, Nguyen Vinh Q., Woo Jonathan M., Roth Theodore L., Yu Ruby, Nguyen Michelle L. T., Simeonov Dimitre R., Nguyen David N., Targ Sasha, Gate Rachel E., Tang Qizhi, Bluestone Jeffrey A.,... See more

Journal:

Nature Immunology

September 2020

Genetic Screens Identify Host Factors for SARS-CoV-2 and Common Cold Coronaviruses

Authors: Wang Ruofan, Simoneau Camille R., Kulsuptrakul Jessie, Bouhaddou Mehdi, Travisano Katherine A., Hayashi Jennifer M., Carlson-Stevermer Jared, Zengel James R., Richards Christopher M., Fozouni Parinaz, Oki Jennifer, Rodriguez Lauren, Joehnk Bastian, Walcott Keith, Holden Kevin, Sil Anita, Carette Jan... See more

Journal:

Cell

September 2020

Visualizing Synaptic Transfer of Tumor Antigens among Dendritic Cells

Authors: Ruhland Megan K., Roberts Edward W., Cai En, Mujal Adriana M., Marchuk Kyle, Beppler Casey, Nam David, Serwas Nina K., Binnewies Mikhail, Krummel Matthew F.

Journal:

Cancer Cell

June 2020

Genomic and epigenomic mapping of leptin-responsive neuronal populations involved in body weight regulation

Authors: Inoue Fumitaka, Eckalbar Walter L., Wang Yi, Murphy Karl K., Matharu Navneet, Vaisse Christian, Ahituv Nadav

Journal:

Nature Metabolism

April 2019