Malgorzata Rowicka-Kudlicka, PhD, MS

  • 1296 Citations
  • 12 h-Index
19982023
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Research Output 1998 2019

  • 1296 Citations
  • 12 h-Index
  • 28 Article
  • 1 Conference contribution
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Article
2019
Substance-Related Disorders
Single Nucleotide Polymorphism
Proteins
Appetite
Neurotransmitter Agents
3 Citations (Scopus)

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

Zhu, Y., Biernacka, A., Pardo, B., Dojer, N., Forey, R., Skrzypczak, M., Fongang, B., Nde, J., Yousefi, R., Pasero, P., Ginalski, K. & Rowicka-Kudlicka, M., Dec 1 2019, In : Nature communications. 10, 1, 2313.

Research output: Contribution to journalArticle

Open Access
sequencing
Double-Stranded DNA Breaks
genome
strands
deoxyribonucleic acid
2018
22 Citations (Scopus)

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

Clouaire, T., Rocher, V., Lashgari, A., Arnould, C., Aguirrebengoa, M., Biernacka, A., Skrzypczak, M., Aymard, F., Fongang, B., Dojer, N., Iacovoni, J. S., Rowicka-Kudlicka, M., Ginalski, K., Côté, J. & Legube, G., Oct 18 2018, In : Molecular Cell. 72, 2, p. 250-262 13 p.

Research output: Contribution to journalArticle

Histone Code
Double-Stranded DNA Breaks
Chromatin
Homologous Recombination
Histones
7 Citations (Scopus)

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

Biernacka, A., Zhu, Y., Skrzypczak, M., Forey, R., Pardo, B., Grzelak, M., Nde, J., Mitra, A., Kudlicki, A., Crosetto, N., Pasero, P., Rowicka-Kudlicka, M. & Ginalski, K., Dec 1 2018, In : Communications Biology. 1, 1, 181.

Research output: Contribution to journalArticle

Open Access
Double-Stranded DNA Breaks
Labeling
Genes
DNA
Chromosomes

Predicting proteome dynamics using gene expression data

Kuchta, K., Towpik, J., Biernacka, A., Kutner, J., Kudlicki, A., Ginalski, K. & Rowicka-Kudlicka, M., Dec 1 2018, In : Scientific Reports. 8, 1, 13866.

Research output: Contribution to journalArticle

Proteome
Gene Expression
Proteins
Cell Cycle
Genome
2017
67 Citations (Scopus)

Genome-wide mapping of long-range contacts unveils clustering of DNA double-strand breaks at damaged active genes

Aymard, F., Aguirrebengoa, M., Guillou, E., Javierre, B. M., Bugler, B., Arnould, C., Rocher, V., Iacovoni, J. S., Biernacka, A., Skrzypczak, M., Ginalski, K., Rowicka-Kudlicka, M., Fraser, P. & Legube, G., Apr 1 2017, In : Nature Structural and Molecular Biology. 24, 4, p. 353-361 9 p.

Research output: Contribution to journalArticle

Double-Stranded DNA Breaks
Chromosome Mapping
Cluster Analysis
Genes
Homologous Recombination
8 Citations (Scopus)

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

Shi, W., Vu, T., Boucher, D., Biernacka, A., Nde, J., Pandita, R. K., Straube, J., Boyle, G. M., Al-Ejeh, F., Nag, P., Jeffery, J., Harris, J. L., Bain, A. L., Grzelak, M., Skrzypczak, M., Mitra, A., Dojer, N., Crosetto, N., Cloonan, N., Becherel, O. J. & 8 others, Finnie, J., Skaar, J. R., Walkley, C. R., Pandita, T. K., Rowicka-Kudlicka, M., Ginalski, K., Lane, S. W. & Khanna, K. K., May 4 2017, In : Blood. 129, 18, p. 2471-2478 8 p.

Research output: Contribution to journalArticle

Hematopoietic Stem Cells
DNA
CpG Islands
Single-Stranded DNA
Physiology
2015
39 Citations (Scopus)

Strategies for achieving high sequencing accuracy for low diversity samples and avoiding sample bleeding using Illumina platform

Mitra, A., Skrzypczak, M., Ginalski, K. & Rowicka-Kudlicka, M., Apr 10 2015, In : PLoS One. 10, 4, e0120520.

Research output: Contribution to journalArticle

MicroRNAs
Biological materials
hemorrhage
Hemorrhage
sampling
2014
18 Citations (Scopus)

Modulation of gene expression regulated by the transcription factor nf-κb/rela

Li, X., Zhao, Y., Tian, B., Jamaluddin, M., Mitra, A., Yang, J., Rowicka-Kudlicka, M., Brasier, A. R. & Kudlicki, A., Apr 25 2014, In : Journal of Biological Chemistry. 289, 17, p. 11927-11944 18 p.

Research output: Contribution to journalArticle

Transcription Factor RelA
DNA-Binding Proteins
Gene expression
Modulators
Transcription Factors
12 Citations (Scopus)

Probabilistic Approach to Predicting Substrate Specificity of Methyltransferases

Szczepińska, T., Kutner, J., Kopczyński, M., Pawłowski, K., Dziembowski, A., Kudlicki, A., Ginalski, K. & Rowicka-Kudlicka, M., 2014, In : PLoS Computational Biology. 10, 3, e1003514.

Research output: Contribution to journalArticle

Probabilistic Approach
methyltransferases
Methyltransferases
substrate specificity
Substrate Specificity
2013
28 Citations (Scopus)

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

Yang, J., Mitra, A., Dojer, N., Fu, S., Rowicka-Kudlicka, M. & Brasier, A. R., Aug 2013, In : Nucleic Acids Research. 41, 15, p. 7240-7259 20 p.

Research output: Contribution to journalArticle

Chromatin
Genes
Transcription Factors
Binding Sites
Gene Expression
188 Citations (Scopus)

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

Crosetto, N., Mitra, A., Silva, M. J., Bienko, M., Dojer, N., Wang, Q., Karaca, E., Chiarle, R., Skrzypczak, M., Ginalski, K., Pasero, P., Rowicka-Kudlicka, M. & Dikic, I., Apr 2013, In : Nature Methods. 10, 4, p. 361-365 5 p.

Research output: Contribution to journalArticle

Double-Stranded DNA Breaks
Aphidicolin
Nucleotides
Genes
DNA
2011
32 Citations (Scopus)

Comprehensive structural and substrate specificity classification of the saccharomyces cerevisiae methyltransferome

Wlodarski, T., Kutner, J., Towpik, J., Knizewski, L., Rychlewski, L., Kudlicki, A., Rowicka-Kudlicka, M., Dziembowski, A. & Ginalski, K., 2011, In : PLoS One. 6, 8, e23168.

Research output: Contribution to journalArticle

substrate specificity
Substrate Specificity
methylation
Yeast
Methylation
2008
32 Citations (Scopus)

Comparison of pattern detection methods in microarray time series of the segmentation clock

Dequéant, M. L., Ahnert, S., Edelsbrunner, H., Fink, T. M. A., Glynn, E. F., Hattem, G., Kudlicki, A., Mileyko, Y., Morton, J., Mushegian, A. R., Pachter, L., Rowicka-Kudlicka, M., Shiu, A., Sturmfels, B. & Pourquié, O., Aug 6 2008, In : PLoS One. 3, 8, e2856.

Research output: Contribution to journalArticle

Microarrays
Clocks
Time series
time series analysis
Genes
2007
57 Citations (Scopus)

High-resolution timing of cell cycle-regulated gene expression

Rowicka-Kudlicka, M., Kudlicki, A., Tu, B. P. & Otwinowski, Z., Oct 23 2007, In : Proceedings of the National Academy of Sciences of the United States of America. 104, 43, p. 16892-16897 6 p.

Research output: Contribution to journalArticle

cdc Genes
Cell Cycle
Gene Expression
Yeasts
Macromolecular Substances
26 Citations (Scopus)

SCEPTRANS: An online tool for analyzing periodic transcription in yeast

Kudlicki, A., Rowicka-Kudlicka, M. & Otwinowski, Z., Jun 15 2007, In : Bioinformatics. 23, 12, p. 1559-1561 3 p.

Research output: Contribution to journalArticle

Transcription
Yeast
Genes
Yeasts
Gene
2 Citations (Scopus)

The crystallographic fast Fourier transform. Recursive symmetry reduction

Kudlicki, A., Rowicka-Kudlicka, M. & Otwinowski, Z., Oct 17 2007, In : Acta Crystallographica Section A: Foundations of Crystallography. 63, 6, p. 465-480 16 p.

Research output: Contribution to journalArticle

Fourier Analysis
Fast Fourier transforms
grids
symmetry
Factorization
2006
5 Citations (Scopus)

Let the data speak [3]

Tu, B. P., Kudlicki, A., Rowicka-Kudlicka, M. & McKnight, S. L., Dec 8 2006, In : Nature Reviews Molecular Cell Biology. 7, 12, p. 1-2 2 p.

Research output: Contribution to journalArticle

133 Citations (Scopus)

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

Wójcik, C., Rowicka-Kudlicka, M., Kudlicki, A., Nowis, D., McConnell, E., Kujawa, M. & DeMartino, G. N., Nov 2006, In : Molecular Biology of the Cell. 17, 11, p. 4606-4618 13 p.

Research output: Contribution to journalArticle

Endoplasmic Reticulum Stress
Ubiquitin
RNA Interference
Proteasome Endopeptidase Complex
Proteolysis
2005
4 Citations (Scopus)

An efficient routine for computing symmetric real spherical harmonics for high orders of expansion

Kudlicki, A., Rowicka-Kudlicka, M., Gilski, M. & Otwinowski, Z., Jun 2005, In : Journal of Applied Crystallography. 38, 3, p. 501-504 4 p.

Research output: Contribution to journalArticle

Crystallography
Crystal symmetry
spherical harmonics
Invariance
Viruses
583 Citations (Scopus)

Cell biology: Logic of the yeast metabolic cycle: Temporal compartmentalization of cellular processes

Tu, B. P., Kudlicki, A., Rowicka-Kudlicka, M. & McKnight, S. L., Nov 18 2005, In : Science. 310, 5751, p. 1152-1158 7 p.

Research output: Contribution to journalArticle

Cell Biology
Yeasts
Saccharomycetales
Respiratory Burst
Eukaryotic Cells
2004
4 Citations (Scopus)

Coordinate transformations in modern crystallographic computing

Rowicka-Kudlicka, M., Kudlicki, A., Zelinka, J. & Otwinowski, Z., Nov 2004, In : Acta Crystallographica Section A: Foundations of Crystallography. 60, 6, p. 542-549 8 p.

Research output: Contribution to journalArticle

coordinate transformations
Tensors
coding
tensors
formalism
1 Citation (Scopus)

Exponential Equations Related to the Quantum 'ax + b' Group

Rowicka-Kudlicka, M., Feb 2004, In : Communications in Mathematical Physics. 244, 3, p. 419-453 35 p.

Research output: Contribution to journalArticle

Exponential equation
commutation
operators
Unitary Operator
Unbounded Operators
3 Citations (Scopus)

The crystallographic fast Fourier transform. IV. FFT-asymmetric units in the reciprocal space

Kudlicki, A., Rowicka-Kudlicka, M. & Otwinowski, Z., Mar 2004, In : Acta Crystallographica Section A: Foundations of Crystallography. 60, 2, p. 146-152 7 p.

Research output: Contribution to journalArticle

fast Fourier transformations
Fourier Analysis
Fast Fourier transforms
symmetry
Inverse transforms
2003
5 Citations (Scopus)

The crystallographic fast Fourier transform. II. One-step symmetry reduction

Rowicka-Kudlicka, M., Kudlicki, A. & Otwinowski, Z., Mar 2003, In : Acta Crystallographica Section A: Foundations of Crystallography. 59, 2, p. 172-182 11 p.

Research output: Contribution to journalArticle

fast Fourier transformations
Fourier Analysis
Fast Fourier transforms
symmetry
subroutines
4 Citations (Scopus)

The crystallographic fast Fourier transform. III. Centred lattices

Rowicka-Kudlicka, M., Kudlicki, A. & Otwinowski, Z., Mar 2003, In : Acta Crystallographica Section A: Foundations of Crystallography. 59, 2, p. 183-192 10 p.

Research output: Contribution to journalArticle

Fourier Analysis
Fast Fourier transforms
fast Fourier transformations
Mathematical operators
grids
2002
11 Citations (Scopus)

The crystallographic fast Fourier transform. I. p3 symmetry

Rowicka-Kudlicka, M., Kudlicki, A. & Otwinowski, Z., Nov 2002, In : Acta Crystallographica Section A: Foundations of Crystallography. 58, 6, p. 574-579 6 p.

Research output: Contribution to journalArticle

Fourier Analysis
Fast Fourier transforms
Fourier transforms
symmetry
fast Fourier transformations
1998

An example of a braided category of C*-algebras*

Rowicka-Kudlicka, M., Apr 1998, In : Reports on Mathematical Physics. 41, 2, p. 173-191 19 p.

Research output: Contribution to journalArticle

C*-algebra
algebra
Morphisms
Tensor Product
tensors