Differential chromatin profiles partially determine transcription factor binding.

by Rujian Chen, David K Gifford
Published 2017-01-01

High resolution genome wide binding event finding and motif discovery reveals transcription factor spatial binding constraints.

by Yuchun Guo, Shaun Mahony, David K Gifford
Published 2012-01-01

Visualizing complex feature interactions and feature sharing in genomic deep neural networks

by Ge Liu, Haoyang Zeng, David K. Gifford
Published 2019-07-01

Universal count correction for high-throughput sequencing.

by Tatsunori B Hashimoto, Matthew D Edwards, David K Gifford
Published 2014-03-01

Generative modeling of single-cell time series with PRESCIENT enables prediction of cell trajectories with interventions

by Grace Hui Ting Yeo, Sachit D. Saksena, David K. Gifford
Published 2021-05-01

Automated discovery of functional generality of human gene expression programs.

by Georg K Gerber, Robin D Dowell, Tommi S Jaakkola, David K Gifford
Published 2007-08-01

Control of transcription by cell size.

by Chia-Yung Wu, P Alexander Rolfe, David K Gifford, Gerald R Fink
Published 2010-11-01

Cas9 Functionally Opens Chromatin.

by Amira A Barkal, Sharanya Srinivasan, Tatsunori Hashimoto, David K Gifford, Richard I Sherwood
Published 2016-01-01

MARIS: method for analyzing RNA following intracellular sorting.

by Siniša Hrvatin, Francis Deng, Charles W O'Donnell, David K Gifford, Douglas A Melton
Published 2014-01-01

Ruler arrays reveal haploid genomic structural variation.

by P Alexander Rolfe, Douglas A Bernstein, Paula Grisafi, Gerald R Fink, David K Gifford
Published 2012-01-01

Machine learning based CRISPR gRNA design for therapeutic exon skipping.

by Wilson Louie, Max W Shen, Zakir Tahiry, Sophia Zhang, Daniel Worstell, Christopher A Cassa, Richard I Sherwood, David K Gifford
Published 2021-01-01

An integrated model of multiple-condition ChIP-Seq data reveals predeterminants of Cdx2 binding.

by Shaun Mahony, Matthew D Edwards, Esteban O Mazzoni, Richard I Sherwood, Akshay Kakumanu, Carolyn A Morrison, Hynek Wichterle, David K Gifford
Published 2014-03-01

Small molecule inhibition of ATM kinase increases CRISPR-Cas9 1-bp insertion frequency

by Heysol C. Bermudez-Cabrera, Sannie Culbertson, Sammy Barkal, Benjamin Holmes, Max W. Shen, Sophia Zhang, David K. Gifford, Richard I. Sherwood
Published 2021-08-01

Wnt Signaling Separates the Progenitor and Endocrine Compartments during Pancreas Development

by Nadav Sharon, Jordan Vanderhooft, Juerg Straubhaar, Jonas Mueller, Raghav Chawla, Quan Zhou, Elise N. Engquist, Cole Trapnell, David K. Gifford, Douglas A. Melton
Published 2019-05-01

Detection of gene cis-regulatory element perturbations in single-cell transcriptomes.

by Grace Hui Ting Yeo, Oscar Juez, Qing Chen, Budhaditya Banerjee, Lendy Chu, Max W Shen, May Sabry, Ive Logister, Richard I Sherwood, David K Gifford
Published 2021-03-01

Interpreting black-box models through sufficient input subsets

by Carter, Brandon M.
Published 2019

Machine learning models for functional genomics and therapeutic design

by Zeng, Haoyang,Ph.D.Massachusetts Institute of Technology.
Published 2019

Whole genome regulatory variant evaluation for transcription factor binding

by Zeng, Haoyang, Ph.D. Massachusetts Institute of Technology
Published 2015

Computational discovery of gene modules, regulatory networks and expression programs

by Gerber, Georg Kurt, 1970-
Published 2008

Design and implementation of computational systems based on programmed mutagenesis

by Khodor, Julia, 1974-
Published 2009