Wyeth W. Wasserman

发表

oPOSSUM: integrated tools for analysis of regulatory motif over-representation

Shannan J. Ho Sui, Debra L. Fulton, David J. Arenillas, 2007, Nucleic Acids Res..

Deep Feature Selection: Theory and Application to Identify Enhancers and Promoters

Wyeth W. Wasserman, Yifeng Li, Chih-Yu Chen, 2015, RECOMB.

The wiki-based transcription factor encyclopedia and a model for robust community participation

Wyeth W. Wasserman, W. Wasserman, 2011 .

Introduction to Genomic Analysis Workshop: A catalyst for engaging life-science researchers in high throughput analysis

Wyeth W. Wasserman, Phillip A. Richmond, 2018 .

A new generation of JASPAR, the open-access repository for transcription factor binding site profiles

Wyeth W. Wasserman, Boris Lenhard, Albin Sandelin, 2005, Nucleic Acids Res..

JASPAR 2010: the greatly expanded open-access database of transcription factor binding profiles

David J. Arenillas, Andrew T. Kwon, Wyeth W. Wasserman, 2009, Nucleic Acids Res..

Integration of genomics and metabolomics for prioritization of rare disease variants: a 2018 literature review

Wyeth W. Wasserman, Ron A. Wevers, Emma Graham, 2018, Journal of Inherited Metabolic Disease.

SAGE2Splice: Unmapped SAGE Tags Reveal Novel Splice Junctions

Ying Chen, Wyeth W. Wasserman, Elizabeth M. Simpson, 2006, PLoS Comput. Biol..

JASPAR 2018: update of the open-access database of transcription factor binding profiles and its web framework

David J. Arenillas, Wyeth W. Wasserman, Boris Lenhard, 2017, Nucleic acids research.

ORegAnno: an open-access community-driven resource for regulatory annotation

Obi L. Griffith, Steven J. M. Jones, Enrique Blanco, 2007, Nucleic Acids Res..

Additional file 5

Debra L. Fulton, Wyeth W. Wasserman, Xin Luo, 2012 .

MIR@NT@N: a framework integrating transcription factors, microRNAs and their targets to identify sub-network motifs in a meta-regulation network model

David J. Arenillas, Wyeth W. Wasserman, Antony Le Béchec, 2011, BMC Bioinformatics.

ConSite: web-based prediction of regulatory elements using cross-species comparison

Wyeth W. Wasserman, Boris Lenhard, Albin Sandelin, 2004, Nucleic Acids Res..

Faculty Opinions recommendation of CRISPR-SURF: discovering regulatory elements by deconvolution of CRISPR tiling screen data.

Wyeth W. Wasserman, 2019 .

Usability study of clinical exome analysis software: Top lessons learned and recommendations

Wyeth W. Wasserman, André Kushniruk, Casper Shyr, 2014, J. Biomed. Informatics.

Quantitative biomedical annotation using medical subject heading over-representation profiles (MeSHOPs)

Wyeth W. Wasserman, B. F. Francis Ouellette, Warren A. Cheung, 2012, BMC Bioinformatics.

JASPAR 2014: an extensively expanded and updated open-access database of transcription factor binding profiles

David J. Arenillas, Wyeth W. Wasserman, Chih-Yu Chen, 2013, Nucleic Acids Res..

Validation of Skeletal Muscle cis-Regulatory Module Predictions Reveals Nucleotide Composition Bias in Functional Enhancers

David J. Arenillas, Andrew T. Kwon, Wyeth W. Wasserman, 2011, PLoS Comput. Biol..

CAGEd-oPOSSUM: motif enrichment analysis from CAGE-derived TSSs

David J. Arenillas, Wyeth W. Wasserman, Hideya Kawaji, 2016, bioRxiv.

TFBS: Computational framework for transcription factor binding site analysis

Wyeth W. Wasserman, Boris Lenhard, W. Wasserman, 2002, Bioinform..

MSCAN: identification of functional clusters of transcription factor binding sites

Wyeth W. Wasserman, Jens Lagergren, Wynand Alkema, 2004, Nucleic Acids Res..

TFBSshape: a motif database for DNA shape features of transcription factor binding sites

Lin Yang, Wyeth W. Wasserman, Remo Rohs, 2013, Nucleic Acids Res..

In Silico Detection of Sequence Variations Modifying Transcriptional Regulation

David J. Arenillas, Wyeth W. Wasserman, Boris Lenhard, 2007, PLoS Comput. Biol..

Introduction to Genomic Analysis Workshop: A catalyst for engaging life-science researchers in high throughput analysis

Wyeth W. Wasserman, Phillip A. Richmond, 2019, F1000Research.

Bioinformatics design of MiniPromoters for targeted delivery of expression

David J. Arenillas, Wyeth W. Wasserman, Oriol Fornes, 2018 .

A promoter-level mammalian expression atlas

Cesare Furlanello, Finn Drabløs, Carsten O. Daub, 2015 .

ExpansionHunter Denovo: a computational method for locating known and novel repeat expansions in short-read sequencing data

Wyeth W. Wasserman, Giuseppe Narzisi, Phillip A. Richmond, 2019, Genome Biology.

Development and user evaluation of a rare disease gene prioritization workflow based on cognitive ergonomics

Wyeth W. Wasserman, Jessica J. Y. Lee, Clara D. M. van Karnebeek, 2018, J. Am. Medical Informatics Assoc..

Identification of functional clusters of transcription factor binding motifs in genome sequences: the MSCAN algorithm

Wyeth W. Wasserman, Jens Lagergren, Wynand Alkema, 2003, ISMB.

The PAZAR database of gene regulatory information coupled to the ORCA toolkit for the study of regulatory sequences

David J. Arenillas, Wyeth W. Wasserman, Steven Jiang, 2008, Nucleic Acids Res..

The Next Generation of Transcription Factor Binding Site Prediction

Wyeth W. Wasserman, Anthony Mathelier, W. Wasserman, 2013, PLoS Comput. Biol..

JASPAR 2016: a major expansion and update of the open-access database of transcription factor binding profiles

David J. Arenillas, Wyeth W. Wasserman, Chih-Yu Chen, 2015, Nucleic Acids Res..

JASPAR: an open-access database for eukaryotic transcription factor binding profiles

Wyeth W. Wasserman, Boris Lenhard, Albin Sandelin, 2004, Nucleic Acids Res..

TFEA.ChIP: a tool kit for transcription factor binding site enrichment analysis capitalizing on ChIP-seq datasets

Wyeth W. Wasserman, Laura Puente-Santamaria, Luis del Peso, 2019, Bioinform..

Additional file 7

Debra L. Fulton, Wyeth W. Wasserman, Philip Bradley, 2012 .

Identification of Over-Represented Combinations of Transcription Factor Binding Sites in Sets of Co-Expressed Genes

Shannan J. Ho Sui, Debra L. Fulton, David J. Arenillas, 2005, APBC.

Visualization of complementary systems biology data with parallel heatmaps

Wyeth W. Wasserman, Raf M. Podowski, Brett Miller, 2006, IBM J. Res. Dev..

Deep Feature Selection: Theory and Application to Identify Enhancers and Promoters

Wyeth W. Wasserman, Yifeng Li, Chih-Yu Chen, 2015, RECOMB.

The Gene Set Builder: collation, curation, and distribution of sets of genes

Wyeth W. Wasserman, Dimas Yusuf, Jonathan S. Lim, 2005, BMC Bioinformatics.

JASPAR TFBS LOLA databases - Part 2

Wyeth W. Wasserman, Boris Lenhard, Rafael Riudavets Puig, 2021 .

JASPAR TFBS LOLA databases - Part 1

Wyeth W. Wasserman, Boris Lenhard, Rafael Riudavets Puig, 2021 .

In silico identification of metazoan transcriptional regulatory regions

Wyeth W. Wasserman, William Krivan, W. Wasserman, 2003, Naturwissenschaften.

The role of the clinician in the multi-omics era: are you ready?

Wyeth W. Wasserman, Ron A. Wevers, Clara D. M. van Karnebeek, 2018, Journal of Inherited Metabolic Disease.

JASPAR: an open-access database of transcription factor binding profiles

David J. Arenillas, Wyeth W. Wasserman, Boris Lenhard, 2018 .

Interfaces of Malignant and Immunologic Clonal Dynamics in Ovarian Cancer

Wyeth W. Wasserman, Sohrab P. Shah, Ali Bashashati, 2018, Cell.

Towards resolving the transcription factor network controlling myelin gene expression

Debra L. Fulton, Wyeth W. Wasserman, Eric Denarier, 2011, Nucleic acids research.

Dynamic software design for clinical exome and genome analyses: insights from bioinformaticians, clinical geneticists, and genetic counselors

Wyeth W. Wasserman, André Kushniruk, Casper Shyr, 2015, J. Am. Medical Informatics Assoc..

Gene Characterization Index: Assessing the Depth of Gene Annotation

Wyeth W. Wasserman, Boris Lenhard, Dimas Yusuf, 2008, PloS one.

A regulatory toolbox of MiniPromoters to drive selective expression in the brain

Steven J. M. Jones, Jing Chen, Debra L. Fulton, 2010, Proceedings of the National Academy of Sciences.

Laboratory Animal Management Assistant (LAMA): a LIMS for active research colonies

Wyeth W. Wasserman, Elodie Portales-Casamar, Elizabeth M. Simpson, 2010, Mammalian Genome.

Optic atrophy, cataracts, lipodystrophy/lipoatrophy, and peripheral neuropathy caused by a de novo OPA3 mutation

Wyeth W. Wasserman, Scott A. Lear, Casper Shyr, 2017, Cold Spring Harbor molecular case studies.