Stein Aerts

发表

Prediction of a key role of motifs binding E2F and NR2F in down-regulation of numerous genes during the development of the mouse hippocampus

Bozena Kaminska, Michal Dabrowski, Stein Aerts, 2006, BMC Bioinformatics.

Cis-topic modelling of single-cell epigenomes

Stein Aerts, Carmen Bravo González-Blas, Liesbeth Minnoye, 2018, bioRxiv.

Web-based data collection for uterine adnexal tumors: a case study

Bart De Moor, Dirk Timmerman, Yves Moreau, 2002, Proceedings of 15th IEEE Symposium on Computer-Based Medical Systems (CBMS 2002).

INCLUSive: a web portal and service registry for microarray and regulatory sequence analysis

Kathleen Marchal, Bart De Moor, Yves Moreau, 2003, Nucleic Acids Res..

cisTopic: cis-regulatory topic modeling on single-cell ATAC-seq data

Stein Aerts, Liesbeth Minnoye, Dafni Papasokrati, 2019, Nature Methods.

TOUCAN 2: the all-inclusive open source workbench for regulatory sequence analysis

Bart De Moor, Yves Moreau, Stein Aerts, 2005, Nucleic Acids Res..

Integrative analysis of regulatory tracks for the identification of direct TF-target interactions

Stein Aerts, Gert Hulselmans, Hana Imrichova, 2013 .

i-cisTarget 2015 update: generalized cis-regulatory enrichment analysis in human, mouse and fly

Stein Aerts, Gert Hulselmans, Delphine Potier, 2015, Nucleic Acids Res..

Application of an optimized pipeline for 454 reads identifies potential novel driver mutations in T-ALL

Stein Aerts, Vanessa Brys, Harry Cuppens Harry, 2011 .

Identification of High-Impact cis-Regulatory Mutations Using Transcription Factor Specific Random Forest Models

Stein Aerts, Hana Imrichová, Zeynep Kalender Atak, 2015, PLoS Comput. Biol..

Comparison of automatically extracted text-based annotation and manual annotation of the gene regions

Obi L. Griffith, Stein Aerts, Steven J.M. Jones, 2011 .

A genetic algorithm for the detection of new cis-regulatory modules in sets of coregulated genes

Bart De Moor, Yves Moreau, Stein Aerts, 2004, Bioinform..

Computational detection of cis-regulatory modules

Bart De Moor, Yves Moreau, Stein Aerts, 2003, ECCB.

iRegulon: From a Gene List to a Gene Regulatory Network Using Large Motif and Track Collections

Stein Aerts, Gert Hulselmans, Valerie Christiaens, 2014, PLoS Comput. Biol..

Endeavour update: a web resource for gene prioritization in multiple species

Bart De Moor, Shi Yu, Yves Moreau, 2008, Nucleic Acids Res..

Identifying novel T-ALL drivers from next generation sequencing data

Stein Aerts, Jan Cools, Zeynep Kalender Atak, 2011 .

Computational strategies for the genome-wide identification of cis-regulatory elements and transcriptional targets.

Stein Aerts, S. Aerts, 2012, Current topics in developmental biology.

Comprehensive Analysis of Transcriptome Variation Uncovers Known and Novel Driver Events in T-Cell Acute Lymphoblastic Leukemia

Stein Aerts, Gert Hulselmans, Frank Speleman, 2013, PLoS genetics.

Erratum: Gene prioritization through genomic data fusion

Bart De Moor, Yves Moreau, Stein Aerts, 2006, Nature Biotechnology.

Melanoma addiction to the long non-coding RNA SAMMSON

Stefan Van Aelst, Stein Aerts, Jasper Wouters, 2016, Nature.

Comprehensive analysis of the base composition around the transcription start site in Metazoa

Yves Moreau, Michal Dabrowski, Stein Aerts, 2004, BMC Genomics.

ModuleMiner - improved computational detection of cis-regulatory modules: are there different modes of gene regulation in embryonic development and adult tissues?

Yves Moreau, Stein Aerts, Bart De Moor, 2008, Genome Biology.

TDP-43 loss-of-function causes neuronal loss due to defective steroid receptor-mediated gene program switching in Drosophila.

Stein Aerts, Jean-Charles Lambert, Julien Chapuis, 2013, Cell reports.

COMPARISON OF DIFFERENT METHODOLOGIES TO IDENTIFY DIFFERENTIALLY EXPRESSED GENES IN TWO-SAMPLE cDNA MICROARRAYS

Kathleen Marchal, Bart De Moor, Stein Aerts, 2002 .

Discovery of cancer regulators for co-expressed human genes using large sequence search spaces

Stein Aerts, Rekin's Janky, Bram Van de Sande, 2011 .

Integrating Computational Biology and Forward Genetics in Drosophila

Yves Moreau, Stein Aerts, Roland Barriot, 2009, PLoS genetics.

Robust Target Gene Discovery through Transcriptome Perturbations and Genome-Wide Enhancer Predictions in Drosophila Uncovers a Regulatory Basis for Sensory Specification

Stein Aerts, Bassem A. Hassan, S. Aerts, 2010, PLoS biology.

Fine-Tuning Enhancer Models to Predict Transcriptional Targets across Multiple Genomes

Stein Aerts, Bassem A. Hassan, J. van Helden, 2007, PloS one.

Exome sequencing identifies mutation in CNOT3 and ribosomal genes RPL5 and RPL10 in T-cell acute lymphoblastic leukemia

Stein Aerts, Gert Hulselmans, Jan Cools, 2012, Nature Genetics.

Decoding transcriptional states in cancer.

Stein Aerts, Jasper Wouters, S. Aerts, 2017, Current opinion in genetics & development.

Drosophila Voltage-Gated Sodium Channels Are Only Expressed in Active Neurons and Are Localized to Distal Axonal Initial Segment-like Domains

Burak Tepe, Stein Aerts, Todd C. Holmes, 2020, The Journal of Neuroscience.

Identification of Lineage-Specific Cis-Regulatory Modules Associated with Variation in Transcription Factor Binding and Chromatin Activity Using Ornstein–Uhlenbeck Models

Stein Aerts, Gert Hulselmans, Valerie Christiaens, 2015, Molecular biology and evolution.

Mapping gene regulatory networks in Drosophila eye development by large-scale transcriptome perturbations and motif inference.

Pierre Geurts, Stein Aerts, Gert Hulselmans, 2014, Cell reports.

Gene profiling of hippocampal neuronal culture

Yves Moreau, Michal Dabrowski, Stein Aerts, 2003, Journal of neurochemistry.

Cancer: Mutations close in on gene regulation

Stein Aerts, Jan Cools, S. Aerts, 2013, Nature.

Genome-wide analyses of Shavenbaby target genes reveals distinct features of enhancer organization

Stein Aerts, Marc Santolini, Kevin P White, 2013, Genome Biology.

iRegulon and i‐cisTarget: Reconstructing Regulatory Networks Using Motif and Track Enrichment

Stein Aerts, Hana Imrichova, Annelien Verfaillie, 2015, Current protocols in bioinformatics.

Comparative motif discovery combined with comparative transcriptomics yields accurate targetome and enhancer predictions

Stein Aerts, Valerie Christiaens, Sebastian Munck, 2013, Genome research.

Male-Specific Fruitless Isoforms Target Neurodevelopmental Genes to Specify a Sexually Dimorphic Nervous System

Stein Aerts, Andrea H. Brand, Stephen F. Goodwin, 2014, Current Biology.

High Accuracy Mutation Detection in Leukemia on a Selected Panel of Cancer Genes

Stein Aerts, Vanessa Brys, Jan Cools, 2012, PloS one.