Ten simple rules for writing a response to reviewers.

by William Stafford Noble
Published 2017-10-01

A quick guide to organizing computational biology projects.

by William Stafford Noble
Published 2009-07-01

Predicting co-complexed protein pairs from heterogeneous data.

by Jian Qiu, William Stafford Noble
Published 2008-04-01

Completing the ENCODE3 compendium yields accurate imputations across a variety of assays and human biosamples

by Jacob Schreiber, Jeffrey Bilmes, William Stafford Noble
Published 2020-03-01

Computational and statistical analysis of protein mass spectrometry data.

by William Stafford Noble, Michael J MacCoss
Published 2012-01-01

A pitfall for machine learning methods aiming to predict across cell types

by Jacob Schreiber, Ritambhara Singh, Jeffrey Bilmes, William Stafford Noble
Published 2020-11-01

Avocado: a multi-scale deep tensor factorization method learns a latent representation of the human epigenome

by Jacob Schreiber, Timothy Durham, Jeffrey Bilmes, William Stafford Noble
Published 2020-03-01

A unified multitask architecture for predicting local protein properties.

by Yanjun Qi, Merja Oja, Jason Weston, William Stafford Noble
Published 2012-01-01

Learning a weighted sequence model of the nucleosome core and linker yields more accurate predictions in Saccharomyces cerevisiae and Homo sapiens.

by Sheila M Reynolds, Jeff A Bilmes, William Stafford Noble
Published 2010-07-01

Detecting remote evolutionary relationships among proteins by large-scale semantic embedding.

by Iain Melvin, Jason Weston, William Stafford Noble, Christina Leslie
Published 2011-01-01

Author Correction: Avocado: a multi-scale deep tensor factorization method learns a latent representation of the human epigenome

by Jacob Schreiber, Timothy Durham, Jeffrey Bilmes, William Stafford Noble
Published 2021-09-01

High resolution models of transcription factor-DNA affinities improve in vitro and in vivo binding predictions.

by Phaedra Agius, Aaron Arvey, William Chang, William Stafford Noble, Christina Leslie
Published 2010-09-01

PREDICTD PaRallel Epigenomics Data Imputation with Cloud-based Tensor Decomposition

by Timothy J. Durham, Maxwell W. Libbrecht, J. Jeffry Howbert, Jeff Bilmes, William Stafford Noble
Published 2018-04-01

Transmembrane topology and signal peptide prediction using dynamic bayesian networks.

by Sheila M Reynolds, Lukas Käll, Michael E Riffle, Jeff A Bilmes, William Stafford Noble
Published 2008-11-01

Predicting gene expression in the human malaria parasite Plasmodium falciparum using histone modification, nucleosome positioning, and 3D localization features.

by David F Read, Kate Cook, Yang Y Lu, Karine G Le Roch, William Stafford Noble
Published 2019-09-01

Predicting human nucleosome occupancy from primary sequence.

by Shobhit Gupta, Jonathan Dennis, Robert E Thurman, Robert Kingston, John A Stamatoyannopoulos, William Stafford Noble
Published 2008-08-01

A unified encyclopedia of human functional DNA elements through fully automated annotation of 164 human cell types

by Maxwell W. Libbrecht, Oscar L. Rodriguez, Zhiping Weng, Jeffrey A. Bilmes, Michael M. Hoffman, William Stafford Noble
Published 2019-08-01

MetaGOmics: A Web-Based Tool for Peptide-Centric Functional and Taxonomic Analysis of Metaproteomics Data

by Michael Riffle, Damon H. May, Emma Timmins-Schiffman, Molly P. Mikan, Daniel Jaschob, William Stafford Noble, Brook L. Nunn
Published 2017-12-01

Inferring clonal composition from multiple sections of a breast cancer.

by Habil Zare, Junfeng Wang, Alex Hu, Kris Weber, Josh Smith, Debbie Nickerson, ChaoZhong Song, Daniela Witten, C Anthony Blau, William Stafford Noble
Published 2014-07-01

Capturing cell type-specific chromatin compartment patterns by applying topic modeling to single-cell Hi-C data.

by Hyeon-Jin Kim, Galip Gürkan Yardımcı, Giancarlo Bonora, Vijay Ramani, Jie Liu, Ruolan Qiu, Choli Lee, Jennifer Hesson, Carol B Ware, Jay Shendure, Zhijun Duan, William Stafford Noble
Published 2020-09-01