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Research

Whole-genome variant detection in long-read sequencing data from ultralow input patient samples

  • Katherine Wang
  • Cera J. Aex
  • Hayan Lee
  • Lucas Finot
  • Kevin Zhu
  • Julianna R. Chang Aaron M. Horning William J. Rowell
  • ... [+3 authors] ...,
  • Philip Li
  • Sarah B. Kingan
  • Michael P. Snyder
  • Graham S. Erwin
  • First Published May 28, 2026
Method

Multicondition and multimodal temporal profile inference during mouse embryonic development

  • Ran Zhang
  • Chengxiang Qiu
  • Galina N. Filippova
  • Gang Li
  • Jay Shendure
  • Jean-Philippe Vert
  • Xinxian Deng
  • William Stafford Noble
  • Christine M. Disteche
  • First Published August 14, 2025
Method

Modeling gene interactions in polygenic prediction via geometric deep learning

  • Han Li
  • Jianyang Zeng
  • Michael P. Snyder
  • Sai Zhang
  • First Published November 19, 2024
Method

Bombyx mori" > High-throughput and genome-scale targeted mutagenesis using CRISPR in a nonmodel multicellular organism, Bombyx mori

  • Sanyuan Ma
  • Tong Zhang
  • Ruolin Wang
  • Pan Wang
  • Yue Liu
  • Jiasong Chang Aoming Wang Xinhui Lan Le Sun Hao Sun Run Shi Wei Lu Dan Liu Na Zhang Wenbo Hu
  • ... [+10 authors] ...,
  • Xiaogang Wang
  • Weiqing Xing
  • Ling Jia
  • Qingyou Xia
  • First Published January 8, 2024
Method

Simultaneous profiling of host expression and microbial abundance by spatial metatranscriptome sequencing

  • Lin Lyu
  • Xue Li
  • Ru Feng
  • Xin Zhou
  • Tuhin K. Guha
  • Xiaofei Yu Guo Qiang Chen Yufeng Yao
  • ... [+3 authors] ...,
  • Bing Su
  • Duowu Zou
  • Michael P. Snyder
  • Lei Chen
  • First Published March 27, 2023
Research

Longitudinal linked-read sequencing reveals ecological and evolutionary responses of a human gut microbiome during antibiotic treatment

  • Morteza Roodgar
  • Benjamin H. Good
  • Nandita R. Garud
  • Stephen Martis
  • Mohan Avula
  • Wenyu Zhou Samuel M. Lancaster Hayan Lee
  • ... [+3 authors] ...,
  • Afshin Babveyh
  • Sophia Nesamoney
  • Katherine S. Pollard
  • Michael P. Snyder
  • First Published July 22, 2021
Resource

Caenorhabditis elegans nematodes" > Comprehensive characterization of tissue-specific chromatin accessibility in L2 Caenorhabditis elegans nematodes

  • Timothy J. Durham
  • Riza M. Daza
  • Louis Gevirtzman
  • Darren A. Cusanovich
  • Olubusayo Bolonduro
  • William Stafford Noble
  • Jay Shendure
  • Robert H. Waterston
  • First Published April 22, 2021
Research

Genome-wide strand asymmetry in massively parallel reporter activity favors genic strands

  • Brian S. Roberts
  • E. Christopher Partridge
  • Bryan A. Moyers
  • Vikram Agarwal
  • Kimberly M. Newberry
  • Beth K. Martin
  • Jay Shendure
  • Richard M. Myers
  • Gregory M. Cooper
  • First Published April 20, 2021
Resource

A limited set of transcriptional programs define major cell types

  • Alessandra Breschi
  • Manuel Muñoz-Aguirre
  • Valentin Wucher
  • Carrie A. Davis
  • Diego Garrido-Martín
  • Sarah Djebali Jesse Gillis Dmitri D. Pervouchine Anna Vlasova Alexander Dobin Chris Zaleski Jorg Drenkow Cassidy Danyko Alexandra Scavelli
  • ... [+9 authors] ...,
  • Ferran Reverter
  • Michael P. Snyder
  • Thomas R. Gingeras
  • Roderic Guigó
  • First Published July 29, 2020
Method

Bombyx mori" > Genome-wide CRISPR screening reveals genes essential for cell viability and resistance to abiotic and biotic stresses in Bombyx mori

  • Jiasong Chang
  • Ruolin Wang
  • Kai Yu
  • Tong Zhang
  • Xiaoxu Chen
  • Yue Liu
  • ... [+1 authors] ...,
  • Run Shi
  • Xiaogang Wang
  • Qingyou Xia
  • Sanyuan Ma
  • First Published May 18, 2020
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