Modular combinatorial binding among human trans-acting factors reveals direct and indirect factor binding

Tekijä Guo, Yuchun, Gifford, David K.
Julkaisussa BMC Genomics (2017)

Predicting the impact of non-coding variants on DNA methylation

Tekijä Zeng, Haoyang, Gifford, David K.
Julkaisussa Nucleic Acids Res (2017)

Differential chromatin profiles partially determine transcription factor binding

Tekijä Chen, Rujian, Gifford, David K.
Julkaisussa PLoS One (2017)

DeepLigand: accurate prediction of MHC class I ligands using peptide embedding

Tekijä Zeng, Haoyang, Gifford, David K
Julkaisussa Bioinformatics (2019)

Quantification of uncertainty in peptide-MHC binding prediction improves high-affinity peptide selection for therapeutic design

Tekijä Zeng, Haoyang, Gifford, David K.
Julkaisussa Cell Syst (2019)

ReadDB Provides Efficient Storage for Mapped Short Reads

Tekijä Rolfe, P Alexander, Gifford, David K
Julkaistu 2011

High-resolution genetic mapping with pooled sequencing

Tekijä Edwards, Matthew D, Gifford, David K
Julkaistu 2012

High Resolution Genome Wide Binding Event Finding and Motif Discovery Reveals Transcription Factor Spatial Binding Constraints

Tekijä Guo, Yuchun, Mahony, Shaun, Gifford, David K.
Julkaistu 2012

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

Tekijä Liu, Ge, Zeng, Haoyang, Gifford, David K.
Julkaisussa BMC Bioinformatics (2019)

IDR2D identifies reproducible genomic interactions

Tekijä Krismer, Konstantin, Guo, Yuchun, Gifford, David K
Julkaisussa Nucleic Acids Res (2020)

Predicted Cellular Immunity Population Coverage Gaps for SARS-CoV-2 Subunit Vaccines and Their Augmentation by Compact Peptide Sets

Tekijä Liu, Ge, Carter, Brandon, Gifford, David K.
Julkaisussa Cell Syst (2021)

Universal Count Correction for High-Throughput Sequencing

Tekijä Hashimoto, Tatsunori B., Edwards, Matthew D., Gifford, David K.
Julkaistu 2014

Convolutional neural network architectures for predicting DNA–protein binding

Tekijä Zeng, Haoyang, Edwards, Matthew D., Liu, Ge, Gifford, David K.
Julkaisussa Bioinformatics (2016)

Accurate eQTL prioritization with an ensemble-based framework

Tekijä Zeng, Haoyang, Edwards, Matthew D., Guo, Yuchun, Gifford, David K.
Julkaisussa Hum Mutat (2017)

GERV: a statistical method for generative evaluation of regulatory variants for transcription factor binding

Tekijä Zeng, Haoyang, Hashimoto, Tatsunori, Kang, Daniel D., Gifford, David K.
Julkaisussa Bioinformatics (2016)

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

Tekijä Yeo, Grace Hui Ting, Saksena, Sachit D., Gifford, David K.
Julkaisussa Nat Commun (2021)

Automated Discovery of Functional Generality of Human Gene Expression Programs

Tekijä Gerber, Georg K, Dowell, Robin D, Jaakkola, Tommi S, Gifford, David K
Julkaistu 2007

High resolution discovery of chromatin interactions

Tekijä Guo, Yuchun, Krismer, Konstantin, Closser, Michael, Wichterle, Hynek, Gifford, David K
Julkaisussa Nucleic Acids Res (2019)

Comparing the continuous representation of time-series expression profiles to identify differentially expressed genes

Tekijä Bar-Joseph, Ziv, Gerber, Georg, Simon, Itamar, Gifford, David K., Jaakkola, Tommi S.
Julkaistu 2003

Control of Transcription by Cell Size

Tekijä Wu, Chia-Yung, Rolfe, P. Alexander, Gifford, David K., Fink, Gerald R.
Julkaistu 2010