David J. Arenillas

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..

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..

Update of the FANTOM web resource: high resolution transcriptome of diverse cell types in mammals

Finn Drabløs, David J. Arenillas, Piero Carninci, 2016, Nucleic Acids Res..

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.

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.

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.

In Silico Detection of Sequence Variations Modifying Transcriptional Regulation

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

Bioinformatics design of MiniPromoters for targeted delivery of expression

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

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..

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..

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.

oPOSSUM: identification of over-represented transcription factor binding sites in co-expressed genes

David J. Arenillas, W. Wasserman, Shannan J. Ho Sui, 2005, Nucleic acids research.

Mechanisms underlying p53 regulation of PIK3CA transcription in ovarian surface epithelium and in ovarian cancer

David J. Arenillas, Gordon B Mills, Wyeth W Wasserman, 2008, Journal of Cell Science.

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

David J. Arenillas, Shubhada R. Kulkarni, A. Sandelin, 2017, Nucleic acids research.

Global mapping of binding sites for Nrf2 identifies novel targets in cell survival response through ChIP-Seq profiling and network analysis

David J. Arenillas, W. Wasserman, E. Portales-Casamar, 2010, Nucleic acids research.

oPOSSUM-3: Advanced Analysis of Regulatory Motif Over-Representation Across Genes or ChIP-Seq Datasets

David J. Arenillas, W. Wasserman, A. T. Kwon, 2012, G3: Genes | Genomes | Genetics.

Systems biology evaluation of immune responses induced by human host defence peptide LL-37 in mononuclear cells.

David J. Arenillas, Tobias R Kollmann, Jennifer Gardy, 2009, Molecular bioSystems.

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

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

NovelFam3000 – Uncharacterized human protein domains conserved across model organisms

David J. Arenillas, Jonathan Lim, Wyeth W Wasserman, 2006, BMC Genomics.

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.

PAX6 MiniPromoters drive restricted expression from rAAV in the adult mouse retina

David J. Arenillas, Andrea J. Korecki, E. Simpson, 2016, Molecular therapy. Methods & clinical development.

A role for YY1 in sex-biased transcription revealed through X-linked promoter activity and allelic binding analyses

David J. Arenillas, Carolyn J. Brown, Piero Carninci, 2016, bioRxiv.

YY1 binding association with sex-biased transcription revealed through X-linked transcript levels and allelic binding analyses

David J. Arenillas, Carolyn J. Brown, Piero Carninci, 2016, Scientific Reports.

Combined serial analysis of gene expression and transcription factor binding site prediction identifies novel-candidate-target genes of Nr2e1 in neocortex development

Steven J. M. Jones, David J. Arenillas, E. Simpson, 2015, BMC Genomics.

A SNP in the HTT promoter alters NF-κB binding and is a bidirectional genetic modifier of Huntington disease

David J. Arenillas, O. Hermanson, M. Hayden, 2015, Nature Neuroscience.

Cis-regulatory somatic mutations and gene-expression alteration in B-cell lymphomas

David J. Arenillas, Wyeth W Wasserman, Anthony Mathelier, 2014, Genome Biology.

GeneYenta: A PhenotypeBased Rare Disease Case Matching Tool Based on Online Dating Algorithms for the Acceleration of Exome Interpretation

David J. Arenillas, Millan Patel, W. Wasserman, 2015, Human mutation.

Complete functional rescue of the ABCA1−/− mouse by human BAC transgenesis Published, JLR Papers in Press, March 16, 2005. DOI 10.1194/jlr.M400506-JLR200

David J. Arenillas, M. Hayden, W. Wasserman, 2005, Journal of Lipid Research.

Combined serial analysis of gene expression and transcription factor binding site prediction identifies novel-candidate-target genes of Nr2e1 in neocortex development

Steven J. M. Jones, David J. Arenillas, E. Simpson, 2015, BMC Genomics.

MANTA2, update of the Mongo database for the analysis of transcription factor binding site alterations

David J. Arenillas, Phillip A. Richmond, W. Wasserman, 2018, Scientific Data.

OnTarget: in silico design of MiniPromoters for targeted delivery of expression

David J. Arenillas, Rachelle A. Farkas, Andrea J. Korecki, 2023, Nucleic Acids Res..

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

David J. Arenillas, Robin van der Lee, Shubhada R. Kulkarni, 2017, Nucleic Acids Res..

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

David J. Arenillas, Robin van der Lee, A. Sandelin, 2017 .

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

David J. Arenillas, Robin van der Lee, A. Sandelin, 2017 .

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

David J. Arenillas, A. Sandelin, W. Wasserman, 2015 .

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

David J. Arenillas, A. Sandelin, W. Wasserman, 2015 .

NovelFam3000 – Uncharacterized human protein domains conserved across model organisms

David J. Arenillas, W. Wasserman, R. Podowski, 2006, BMC Genomics.