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Method

Deep learning the TF regulatory code for gene expression

  • Yuanyuan Li
  • Xiaohui Huang
  • Yixuan Qi
  • Zheng Zhang
  • Hui Ding
  • Quan Zou
  • Li Liu
  • First Published May 15, 2026
Methods

Sequence and structural variation in a human genome uncovered by short-read, massively parallel ligation sequencing using two-base encoding

  • Kevin Judd McKernan
  • Heather E. Peckham
  • Gina L. Costa
  • Stephen F. McLaughlin
  • Yutao Fu
  • Eric F. Tsung Christopher R. Clouser Cisyla Duncan Jeffrey K. Ichikawa Clarence C. Lee Zheng Zhang Swati S. Ranade Eileen T. Dimalanta Fiona C. Hyland Tanya D. Sokolsky Lei Zhang Andrew Sheridan Haoning Fu Cynthia L. Hendrickson Bin Li Lev Kotler Jeremy R. Stuart Joel A. Malek Jonathan M. Manning Alena A. Antipova Damon S. Perez Michael P. Moore Kathleen C. Hayashibara Michael R. Lyons Robert E. Beaudoin Brittany E. Coleman Michael W. Laptewicz Adam E. Sannicandro Michael D. Rhodes Rajesh K. Gottimukkala Shan Yang Vineet Bafna Ali Bashir Andrew MacBride Can Alkan Jeffrey M. Kidd
  • ... [+36 authors] ...,
  • Evan E. Eichler
  • Martin G. Reese
  • Francisco M. De La Vega
  • Alan P. Blanchard
  • First Published June 22, 2009
Methods

Rapid whole-genome mutational profiling using next-generation sequencing technologies

  • Douglas R. Smith
  • Aaron R. Quinlan
  • Heather E. Peckham
  • Kathryn Makowsky
  • Wei Tao
  • Betty Woolf Lei Shen William F. Donahue Nadeem Tusneem Michael P. Stromberg Donald A. Stewart Lu Zhang Swati S. Ranade Jason B. Warner Clarence C. Lee Brittney E. Coleman Zheng Zhang Stephen F. McLaughlin Joel A. Malek Jon M. Sorenson Alan P. Blanchard Jarrod Chapman David Hillman Feng Chen Daniel S. Rokhsar
  • ... [+20 authors] ...,
  • Kevin J. McKernan
  • Thomas W. Jeffries
  • Gabor T. Marth
  • Paul M. Richardson
  • First Published September 4, 2008
METHODS

Human–Mouse Alignments with BLASTZ

  • Scott Schwartz
  • W. James Kent
  • Arian Smit
  • Zheng Zhang
  • Robert Baertsch
  • Ross C. Hardison
  • David Haussler
  • Webb Miller
  • First Published December 30, 2002
RESOURCE

PipMaker—A Web Server for Aligning Two Genomic DNA Sequences

  • Scott Schwartz
  • Zheng Zhang
  • Kelly A. Frazer
  • Arian Smit
  • Cathy Riemer
  • John Bouck
  • Richard Gibbs
  • Ross Hardison
  • Webb Miller
  • First Published April 1, 2000
GENOME METHODS

A Computer Program for Aligning a cDNA Sequence with a Genomic DNA Sequence

  • Liliana Florea
  • George Hartzell
  • Zheng Zhang
  • Gerald M. Rubin
  • Webb Miller
  • First Published September 1, 1998
RESEARCH

Comparative Sequence Analysis of a Gene-Rich Cluster at Human Chromosome 12p13 and its Syntenic Region in Mouse Chromosome 6

  • M. Ali Ansari-Lari
  • John C. Oeltjen
  • Scott Schwartz
  • Zheng Zhang
  • Donna M. Muzny
  • Jing Lu James H. Gorrell
  • ... [+2 authors] ...,
  • A. Craig Chinault
  • John W. Belmont
  • Webb Miller
  • Richard A. Gibbs
  • First Published January 1, 1998
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