P. Stegmaier

发表

ExPlain™: finding upstream drug targets in disease gene regulatory networks

E. Wingender, A. Kel, O. Kel-Margoulis, 2008, SAR and QSAR in environmental research.

Advanced Computational Biology Methods Identify Molecular Switches for Malignancy in an EGF Mouse Model of Liver Cancer

J. Borlak, E. Wingender, A. Kel, 2011, PloS one.

“Upstream Analysis”: An Integrated Promoter-Pathway Analysis Approach to Causal Interpretation of Microarray Data

Alexander E. Kel, Edgar Wingender, Philip Stegmaier, 2015, Microarrays.

Using systems medicine to identify a therapeutic agent with potential for repurposing in inflammatory bowel disease

V. Poroikov, V. M. D. Martins dos Santos, A. Kel, 2020, Disease Models & Mechanisms.

Identification of a novel therapeutic agent for Inflammatory Bowel Disease guided by systems medicine

V. Poroikov, A. Kel, D. Spiller, 2019 .

DNA methylation and gene expression profiling reveal MFAP5 as a regulatory driver of extracellular matrix remodeling in varicose vein disease.

A. Kel, M. Smetanina, A. Shevela, 2018, Epigenomics.

MicroRNA Expression Profile in Human Macrophages in Response to Leishmaniamajor Infection

K. Hornischer, A. Rasche, F. Kolpakov, 2013 .

Multi-omics “upstream analysis” of regulatory genomic regions helps identifying targets against methotrexate resistance of colon cancer

Alexander E. Kel, Olga V. Kel-Margoulis, Edgar Wingender, 2016, EuPA open proteomics.

Using systems medicine to identify a therapeutic agent with potential for repurposing in Inflammatory Bowel Disease

V. Poroikov, A. Kel, D. Spiller, 2019, bioRxiv.

Master-regulators driving resistance of non-small cell lung cancer cells to p53 reactivator Nutlin-3

F. Kolpakov, A. Kel, S. Pintus, 2017 .

TRANSFAC (cid:1) and its module TRANSCompel (cid:1) : transcriptional gene regulation in eukaryotes

E. Wingender, K. Hornischer, A. Kel, 2005 .

TRANSFAC® and its module TRANSCompel®: transcriptional gene regulation in eukaryotes

Alexander E. Kel, Olga V. Kel-Margoulis, Ines Liebich, 2005, Nucleic Acids Res..

Systematic DNA-binding domain classification of transcription factors.

Edgar Wingender, Philip Stegmaier, Alexander E Kel, 2004, Genome informatics. International Conference on Genome Informatics.

Short sequence motifs, overrepresented in mammalian conserved non-coding sequences

Inna Dubchak, Philip Stegmaier, Simon Minovitsky, 2007, BMC Genomics.

Explaining decisions of graph convolutional neural networks: patient-specific molecular subnetworks responsible for metastasis prediction in breast cancer

Tim Beißbarth, Frank Kramer, Andreas Leha, 2020, Genome Medicine.

Composite Module Analyst: identification of transcription factor binding site combinations using genetic algorithm

E. Wingender, A. Kel, E. Cheremushkin, 2006, Nucleic Acids Res..

Text mining-based word representations for biomedical data analysis and machine learning tasks

Tim Beißbarth, Halima Alachram, Hryhorii Chereda, 2020, bioRxiv.

Molecular mechanistic associations of human diseases

Alexander E. Kel, Edgar Wingender, Mathias Krull, 2010, BMC Systems Biology.

Creating PWMs of transcription factors using 3D structure-based computation of protein-DNA free binding energies

Alexander E. Kel, Philip Stegmaier, Denitsa Alamanova, 2010, BMC Bioinformatics.

Explaining decisions of graph convolutional neural networks: patient-specific molecular subnetworks responsible for metastasis prediction in breast cancer

Florian Auer, T. Beißbarth, A. Leha, 2021, Genome medicine.

Signaling Pathways Potentially Responsible for Foam Cell Formation: Cholesterol Accumulation or Inflammatory Response—What is First?

A. Orekhov, A. Kel, S. Pintus, 2020, International journal of molecular sciences.

Role of Phagocytosis in the Pro-Inflammatory Response in LDL-Induced Foam Cell Formation; a Transcriptome Analysis

A. Orekhov, A. Kel, S. Pintus, 2020, International journal of molecular sciences.

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

Ilya Kiselev, Philip Stegmaier, Ulyana Boyarskikh, 2018, BMC Medical Genomics.

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

F. Kolpakov, A. Kel, S. Pintus, 2018, BMC Medical Genomics.

3DTF: a web server for predicting transcription factor PWMs using 3D structure-based energy calculations

Alexander E. Kel, Razif R. Gabdoulline, Philip Stegmaier, 2012, Nucleic Acids Res..

A Discriminative Approach for Unsupervised Clustering of DNA Sequence Motifs

Alexander E. Kel, Edgar Wingender, Jürgen Borlak, 2013, PLoS Comput. Biol..

geneXplainR: An R interface for the geneXplain platform

Alexander E. Kel, Edgar Wingender, Philip Stegmaier, 2017, J. Open Source Softw..

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

Alexander E. Kel, Olga V. Kel-Margoulis, Edgar Wingender, 2019, BMC Bioinformatics.

Composite Module Analyst: identification of transcription factor binding site combinations using genetic algorithm

A. Kel, E. Cheremushkin, O. Kel-Margoulis, 2006, Nucleic Acids Res..

Molecular mechanistic associations of human diseases

E. Wingender, A. Kel, N. Voss, 2010, BMC Systems Biology.