Maga Rowicka

发表

Comparison of Pattern Detection Methods in Microarray Time Series of the Segmentation Clock

Earl F. Glynn, L. Pachter, H. Edelsbrunner, 2008, PloS one.

Coevolution of Residues Provides Evidence of a Functional Heterodimer of 5-HT2AR and 5-HT2CR Involving Both Intracellular and Extracellular Domains

A. Kudlicki, M. Rowicka, B. Fongang, 2019, Neuroscience.

Protein Co-Evolution Strategies Detect Predicted Functional Interaction Between the Serotonin 5-HT2A and 5-HT2C Receptors

A. Kudlicki, M. Rowicka, B. Fongang, 2019, bioRxiv.

Predicting proteome dynamics using gene expression data

A. Kudlicki, K. Ginalski, Krzysztof Kuchta, 2018, Scientific Reports.

The High-resolution Timeline of Expression of Ribosomal Protein Genes in Yeast

A. Kudlicki, M. Rowicka, D. Homouz, 2017, bioRxiv.

High-resolution timing of cell cycle-regulated gene expression

Andrzej Kudlicki, Zbyszek Otwinowski, Maga Rowicka, 2007, Proceedings of the National Academy of Sciences.

SCEPTRANS: an online tool for analyzing periodic transcription in yeast

Andrzej Kudlicki, Zbyszek Otwinowski, Maga Rowicka, 2007, Bioinform..

Logic of the Yeast Metabolic Cycle: Temporal Compartmentalization of Cellular Processes

A. Kudlicki, M. Rowicka, B. Tu, 2005, Science.

Comprehensive Mapping of Histone Modifications at DNA Double-Strand Breaks Deciphers Repair Pathway Chromatin Signatures

M. Skrzypczak, K. Ginalski, G. Legube, 2018, Molecular cell.

Nucleotide-resolution DNA double-strand breaks mapping by next-generation sequencing

M. Rowicka, Abhishek Mitra, M. Skrzypczak, 2013, Nature Methods.

A probabilistic approach to learn chromatin architecture and accurate inference of the NF-κB/RelA regulatory network using ChIP-Seq

Abhishek Mitra, A. Brasier, Norbert Dojer, 2013, Nucleic acids research.

High-resolution, ultrasensitive and quantitative DNA double-strand break labeling in eukaryotic cells using i-BLESS

M. Skrzypczak, K. Ginalski, P. Pasero, 2020, Nature Protocols.

Genome wide mapping of long range contacts unveils DNA Double Strand Breaks clustering at damaged active genes

M. Skrzypczak, K. Ginalski, P. Fraser, 2017, Nature Structural &Molecular Biology.

Modulation of Gene Expression Regulated by the Transcription Factor NF-κB/RelA*

Andrzej Kudlicki, Allan R. Brasier, Xueling Li, 2014, The Journal of Biological Chemistry.

Ssb1 and Ssb2 cooperate to regulate mouse hematopoietic stem and progenitor cells by resolving replicative stress.

T. Pandita, N. Cloonan, Abhishek Mitra, 2017, Blood.

Inferring proteome dynamics during yeast cell cycle using gene expression data

A. Kudlicki, M. Rowicka, K. Ginalski, 2017, bioRxiv.

Valosin-containing protein (p97) is a regulator of endoplasmic reticulum stress and of the degradation of N-end rule and ubiquitin-fusion degradation pathway substrates in mammalian cells.

A. Kudlicki, M. Rowicka, D. Nowis, 2006, Molecular biology of the cell.

Co-evolutionary analysis accurately predicts details of interactions between the Integrator complex subunits

A. Kudlicki, M. Rowicka, E. Wagner, 2019, bioRxiv.

A Role for the Mre11-Rad50-Xrs2 Complex in Gene Expression and Chromosome Organization.

M. Rowicka, M. Skrzypczak, K. Ginalski, 2020, Molecular cell.

Topoisomerase 1 prevents replication stress at R-loop-enriched transcription termination sites

M. Skrzypczak, K. Ginalski, Ismael Padioleau, 2020, Nature Communications.

Strategies for Achieving High Sequencing Accuracy for Low Diversity Samples and Avoiding Sample Bleeding Using Illumina Platform

M. Rowicka, Abhishek Mitra, M. Skrzypczak, 2015, PloS one.

i-BLESS is an ultra-sensitive method for detection of DNA double-strand breaks

A. Kudlicki, Abhishek Mitra, M. Skrzypczak, 2018, Communications Biology.

qDSB-Seq is a general method for genome-wide quantification of DNA double-strand breaks using sequencing

M. Skrzypczak, K. Ginalski, P. Pasero, 2019, Nature Communications.

qDSB-Seq: quantitative DNA double-strand break sequencing

M. Skrzypczak, K. Ginalski, P. Pasero, 2019 .

Stochasticity of replication forks’ speeds plays a key role in the dynamics of DNA replication

Maga Rowicka, Razie Yousefi, R. Yousefi, 2019, PLoS Comput. Biol..

Comprehensive Structural and Substrate Specificity Classification of the Saccharomyces cerevisiae Methyltransferome

Leszek Rychlewski, Andrzej Kudlicki, Maga Rowicka, 2011, PloS one.

Stochasticity of replication fork speed plays a key role in the dynamics of DNA replication

Maga Rowicka, Razie Yousefi, R. Yousefi, 2019, bioRxiv.

Quantitative DSB sequencing (qDSB-Seq): a method for genome-wide accurate estimation of absolute DNA double-strand break frequencies per cell

M. Skrzypczak, K. Ginalski, P. Pasero, 2017, bioRxiv.

Integrated analysis of patterns of DNA breaks reveals break formation mechanisms and their population distribution during replication stress

A. Kudlicki, Abhishek Mitra, M. Skrzypczak, 2017, bioRxiv.

Integrated analysis of DSB patterns reveals precisely DSB formation mechanisms following replication fork collapse

A. Kudlicki, Abhishek Mitra, M. Skrzypczak, 2017 .

i-BLESS is an ultra-sensitive method for detection of DNA double-strand breaks

A. Kudlicki, Abhishek Mitra, M. Skrzypczak, 2018, Communications Biology.

Analyzing and interpreting DNA double-strand break sequencing data

Maga Rowicka, Abhishek Mitra, Norbert Dojer, 2020, bioRxiv.

the immune response autoimmunity: possible interactions of genes, sex, and B in κ A role for transcription factor NF-

M. Rowicka, Abhishek Mitra, M. Jamaluddin, 2015 .

Predicting proteome dynamics using gene expression data

A. Kudlicki, M. Rowicka, K. Ginalski, 2018, Scientific Reports.

qDSB-Seq is a general method for genome-wide quantification of DNA double-strand breaks using sequencing

M. Skrzypczak, K. Ginalski, P. Pasero, 2019, Nature Communications.

Coevolution combined with molecular dynamics simulations provides structural and mechanistic insights into the interactions between the integrator complex subunits

A. Kudlicki, Yingjie Zhu, Maga Rowicka, 2023, Computational and structural biotechnology journal.