List of works - Bartek Wilczynski

A Specialized Histone H1 Variant Is Required for Adaptive Responses to Complex Abiotic Stress and Related DNA Methylation in Arabidopsis

scientific article (publication date: November 2015)

Active enhancer positions can be accurately predicted from chromatin marks and collective sequence motif data

scientific article

Applying dynamic Bayesian networks to perturbed gene expression data

scientific article

Arabidopsis SWI/SNF chromatin remodeling complex binds both promoters and terminators to regulate gene expression

scientific article

Automated inference of gene regulatory networks using explicit regulatory modules

scientific article published on 30 November 2019

BNFinder: exact and efficient method for learning Bayesian networks

scientific article published on 30 September 2008

BPscore: An Effective Metric for Meaningful Comparisons of Structural Chromosome Segmentations

scientific article published on 27 February 2019

Biopython: freely available Python tools for computational molecular biology and bioinformatics

scientific article

Challenges for modeling global gene regulatory networks during development: insights from Drosophila.

scientific article published on 27 October 2009

Coordinated repression and activation of two transcriptional programs stabilizes cell fate during myogenesis

scientific article published on July 2014

Discovering regulatory binding-site modules using rule-based learning.

scientific article

Distributed Bayesian networks reconstruction on the whole genome scale

scientific article published in 2018

Dynamic CRM occupancy reflects a temporal map of developmental progression

scientific article published on June 2010

FastBill: An Improved Tool for Prediction of Cis-Regulatory Modules

scientific article

Finding evolutionarily conserved cis-regulatory modules with a universal set of motifs

scientific article

Genome-Wide Analysis of Drosophila RBf2 Protein Highlights the Diversity of RB Family Targets and Possible Role in Regulation of Ribosome Biosynthesis

scientific article published on 20 May 2015

HiCEnterprise: identifying long range chromosomal contacts in Hi-C data

scientific article published on 26 April 2021

K-mer Content Changes with Node Degree in Promoter–Enhancer Network of Mouse ES Cells ⬇️

journal article from 'International Journal of Molecular Sciences' published in 2021

Mapping chromatin accessibility and active regulatory elements reveals pathological mechanisms in human gliomas

scientific article published on 15 June 2021

Optimally choosing PWM motif databases and sequence scanning approaches based on ChIP-seq data

scientific article

Overweighed mice show coordinated homeostatic and hedonic transcriptional response across brain

scientific article published on 08 January 2018

Potential protective role of Grainyhead-like genes in the development of clear cell renal cell carcinoma.

scientific article

Predicting spatial and temporal gene expression using an integrative model of transcription factor occupancy and chromatin state

scientific article

QChromosomeVisualizer: A new tool for 3D visualization of long simulations of polymer-like chromosome models

scientific article published on 21 August 2019

RECORD: Reference-Assisted Genome Assembly for Closely Related Genomes.

scientific article

Supervised learning method for predicting chromatin boundary associated insulator elements

scientific article published in December 2014

Taking promoters out of enhancers in sequence based predictions of tissue-specific mammalian enhancers

scientific article

The role of epigenetic modifications, long-range contacts, enhancers and topologically associating domains in the regulation of glioma grade-specific genes

scientific article published on 2 August 2021

Tissue-specific analysis of chromatin state identifies temporal signatures of enhancer activity during embryonic development

scientific article published on 8 January 2012

Using local gene expression similarities to discover regulatory binding site modules

scientific article

WeBIAS: a web server for publishing bioinformatics applications

scientific article

List of works by Bartek Wilczynski

A Specialized Histone H1 Variant Is Required for Adaptive Responses to Complex Abiotic Stress and Related DNA Methylation in Arabidopsis

Active enhancer positions can be accurately predicted from chromatin marks and collective sequence motif data

Applying dynamic Bayesian networks to perturbed gene expression data

Arabidopsis SWI/SNF chromatin remodeling complex binds both promoters and terminators to regulate gene expression

Automated inference of gene regulatory networks using explicit regulatory modules

BNFinder: exact and efficient method for learning Bayesian networks

BPscore: An Effective Metric for Meaningful Comparisons of Structural Chromosome Segmentations

Biopython: freely available Python tools for computational molecular biology and bioinformatics

Challenges for modeling global gene regulatory networks during development: insights from Drosophila.

Coordinated repression and activation of two transcriptional programs stabilizes cell fate during myogenesis

Discovering regulatory binding-site modules using rule-based learning.

Distributed Bayesian networks reconstruction on the whole genome scale

Dynamic CRM occupancy reflects a temporal map of developmental progression

FastBill: An Improved Tool for Prediction of Cis-Regulatory Modules

Finding evolutionarily conserved cis-regulatory modules with a universal set of motifs

Genome-Wide Analysis of Drosophila RBf2 Protein Highlights the Diversity of RB Family Targets and Possible Role in Regulation of Ribosome Biosynthesis

HiCEnterprise: identifying long range chromosomal contacts in Hi-C data

K-mer Content Changes with Node Degree in Promoter–Enhancer Network of Mouse ES Cells ⬇️

Mapping chromatin accessibility and active regulatory elements reveals pathological mechanisms in human gliomas

Optimally choosing PWM motif databases and sequence scanning approaches based on ChIP-seq data

Overweighed mice show coordinated homeostatic and hedonic transcriptional response across brain

Potential protective role of Grainyhead-like genes in the development of clear cell renal cell carcinoma.

Predicting spatial and temporal gene expression using an integrative model of transcription factor occupancy and chromatin state

QChromosomeVisualizer: A new tool for 3D visualization of long simulations of polymer-like chromosome models

RECORD: Reference-Assisted Genome Assembly for Closely Related Genomes.

Supervised learning method for predicting chromatin boundary associated insulator elements

Taking promoters out of enhancers in sequence based predictions of tissue-specific mammalian enhancers

The role of epigenetic modifications, long-range contacts, enhancers and topologically associating domains in the regulation of glioma grade-specific genes

Tissue-specific analysis of chromatin state identifies temporal signatures of enhancer activity during embryonic development

Using local gene expression similarities to discover regulatory binding site modules

WeBIAS: a web server for publishing bioinformatics applications