List of works - Fedor Kolpakov

A modular model of the apoptosis machinery

scientific article published in January 2012

BioUML: an integrated environment for systems biology and collaborative analysis of biomedical data

scientific article published on 01 July 2019

BioUML—towards a universal research platform

scientific article published in 2022

CYCLONET--an integrated database on cell cycle regulation and carcinogenesis

scientific article

Computational master-regulator search reveals mTOR and PI3K pathways responsible for low sensitivity of NCI-H292 and A427 lung cancer cell lines to cytotoxic action of p53 activator Nutlin-3.

scientific article published on 13 February 2018

Databases on transcriptional regulation: TRANSFAC, TRRD and COMPEL

scientific article published in January 1998

Erratum: The Systems Biology Graphical Notation

scholarly article published in Nature Biotechnology

GTRD: a database of transcription factor binding sites identified by ChIP-seq experiments.

scientific article published on 24 October 2016

GTRD: a database on gene transcription regulation-2019 update.

scientific article published in January 2019

GTRD: an integrated view of transcription regulation

scientific article published on 24 November 2020

GeneNet: a gene network database and its automated visualization ⬇️

scientific article published on January 1, 1998

Genome-wide map of human and mouse transcription factor binding sites aggregated from ChIP-Seq data

article

HOCOMOCO: expansion and enhancement of the collection of transcription factor binding sites models.

scientific article

HOCOMOCO: towards a complete collection of transcription factor binding models for human and mouse via large-scale ChIP-Seq analysis

scientific article published on 11 November 2017

Model composition through model reduction: a combined model of CD95 and NF-κB signaling pathways

scientific article

Reproducible computational biology experiments with SED-ML--the Simulation Experiment Description Markup Language

scientific article

Transcriptome Characteristics and X-Chromosome Inactivation Status in Cultured Rat Pluripotent Stem Cells.

scientific article published on 29 September 2015

List of works by Fedor Kolpakov

A modular model of the apoptosis machinery

BioUML: an integrated environment for systems biology and collaborative analysis of biomedical data

BioUML—towards a universal research platform

CYCLONET--an integrated database on cell cycle regulation and carcinogenesis

Computational master-regulator search reveals mTOR and PI3K pathways responsible for low sensitivity of NCI-H292 and A427 lung cancer cell lines to cytotoxic action of p53 activator Nutlin-3.

Databases on transcriptional regulation: TRANSFAC, TRRD and COMPEL

Erratum: The Systems Biology Graphical Notation

GTRD: a database of transcription factor binding sites identified by ChIP-seq experiments.

GTRD: a database on gene transcription regulation-2019 update.

GTRD: an integrated view of transcription regulation

GeneNet: a gene network database and its automated visualization ⬇️

Genome-wide map of human and mouse transcription factor binding sites aggregated from ChIP-Seq data

HOCOMOCO: expansion and enhancement of the collection of transcription factor binding sites models.

HOCOMOCO: towards a complete collection of transcription factor binding models for human and mouse via large-scale ChIP-Seq analysis

Model composition through model reduction: a combined model of CD95 and NF-κB signaling pathways

Reproducible computational biology experiments with SED-ML--the Simulation Experiment Description Markup Language

Transcriptome Characteristics and X-Chromosome Inactivation Status in Cultured Rat Pluripotent Stem Cells.

Walking pathways with positive feedback loops reveal DNA methylation biomarkers of colorectal cancer