Dariusz Plewczyński (Dariusz Plewczynski)

Loop profile Scopus Author ID ORCID

Publication Activity (10 Years)

Years Active: 2016-2024
Publications (10 Years): 38

Top Topics

Machine Learning

Positive Breast Cancer

Gene Expression

Arabidopsis Thaliana

Top Venues

The EMBO journal

bioRxiv : the preprint server for biology

International journal of molecular sciences

Current issues in molecular biology

This page only lists publications with an associated author ORCID identifier.

Publications

Anup Kumar Halder, Abhishek Agarwal, Karolina Jodkowska, Dariusz Plewczyński
A systematic analyses of different bioinformatics pipelines for genomic data and its impact on deep learning models for chromatin loop prediction. Briefings in functional genomics (2024)
Anna Kokot, Sachin Gadakh, Indrajit Saha, Ewa Gajda, Michał Łaźniewski, Somnath Rakshit, Kaustav Sengupta, Ayatullah Faruk Mollah, Michał Denkiewicz, Katarzyna Górczak, Jürgen Claesen, Tomasz Burzykowski, Dariusz Plewczyński
Unveiling the Molecular Mechanism of Trastuzumab Resistance in SKBR3 and BT474 Cell Lines for HER2 Positive Breast Cancer. Current issues in molecular biology 46 (3) (2024)
Flavien Raynal, Kaustav Sengupta, Dariusz Plewczyński, Benoît Aliaga, Vera Pancaldi
Global chromatin reorganization and regulation of genes of specific evolutionary age in differentiation and cancer. bioRxiv : the preprint server for biology (2024)
Jakub Piotr Fichna, Mateusz Chilinski, Anup Kumar Halder, Paweł Cieszczyk, Dariusz Plewczyński, Cezary Zekanowski, Piotr Janik
Structural Variants and Implicated Processes Associated with Familial Tourette Syndrome. International journal of molecular sciences 25 (11) (2024)
Jakub Piotr Fichna, Mateusz Chilinski, Anup Kumar Halder, Paweł Cieszczyk, Dariusz Plewczyński, Cezary Zekanowski, Piotr Janik
Structural Variants and Implicated Processes Associated with Familial Tourette Syndrome. International journal of molecular sciences 25 (11) (2024)
Maciej Wiśniewski, Peace Babirye, Carol Musubika, Eleni Papakonstantinou, Samuel Kirimunda, Michal Łaźniewski, Teresa Szczepińska, Moses L Joloba, Elias Eliopoulos, Erik Bongcam-Rudloff, Dimitrios Vlachakis, Anup Kumar Halder, Dariusz Plewczyński, Misaki Wayengera
Use of in silico approaches, synthesis and profiling of Pan-filovirus GP-1,2 preprotein specific antibodies. Briefings in functional genomics (2024)
Anna Kokot, Sachin Gadakh, Indrajit Saha, Ewa Gajda, Michał Łaźniewski, Somnath Rakshit, Kaustav Sengupta, Ayatullah Faruk Mollah, Michał Denkiewicz, Katarzyna Górczak, Jürgen Claesen, Tomasz Burzykowski, Dariusz Plewczyński
Unveiling the Molecular Mechanism of Trastuzumab Resistance in SKBR3 and BT474 Cell Lines for HER2 Positive Breast Cancer. Current issues in molecular biology 46 (3) (2024)
Antoni Pietryga, Mateusz Chilinski, Sachin Gadakh, Dariusz Plewczyński
ConsensuSV-ONT - a modern method for accurate structural variant calling. bioRxiv : the preprint server for biology (2024)
Flavien Raynal, Kaustav Sengupta, Dariusz Plewczyński, Benoît Aliaga, Vera Pancaldi
Global chromatin reorganization and regulation of genes of specific evolutionary age in differentiation and cancer. bioRxiv : the preprint server for biology (2024)
Anna Kokot, Sachin Gadakh, Indrajit Saha, Ewa Gajda, Michał Łaźniewski, Somnath Rakshit, Kaustav Sengupta, Ayatullah Faruk Mollah, Michał Denkiewicz, Katarzyna Górczak, Jürgen Claesen, Tomasz Burzykowski, Dariusz Plewczyński
Unveiling the Molecular Mechanism of Trastuzumab Resistance in SKBR3 and BT474 Cell Lines for HER2 Positive Breast Cancer. Current issues in molecular biology 46 (3) (2024)
Karolina Vanickova, Mirko Milosevic, Irina Ribeiro Bas, Monika Burocziova, Asumi Yokota, Petr Danek, Srdjan Grusanovic, Mateusz Chilinski, Dariusz Plewczyński, Jakub Rohlena, Hideyo Hirai, Katerina Rohlenova, Meritxell Alberich-Jorda
Hematopoietic stem cells undergo a lymphoid to myeloid switch in early stages of emergency granulopoiesis. The EMBO journal (2023)
Miguel Montez, Maria Majchrowska, Michal Krzyszton, Grzegorz Bokota, Sebastian P Sacharowski, Magdalena Wrona, Ruslan Yatusevich, Ferran Massana, Dariusz Plewczyński, Szymon Swiezewski
Promoter-pervasive transcription causes RNA polymerase II pausing to boost DOG1 expression in response to salt. The EMBO journal 42 (5) (2023)
Michal Wlasnowolski, Michal Kadlof, Kaustav Sengupta, Dariusz Plewczyński
3D-GNOME 3.0: a three-dimensional genome modelling engine for analysing changes of promoter-enhancer contacts in the human genome. Nucleic acids research (2023)
Miguel Montez, Maria Majchrowska, Michal Krzyszton, Grzegorz Bokota, Sebastian P Sacharowski, Magdalena Wrona, Ruslan Yatusevich, Ferran Massana, Dariusz Plewczyński, Szymon Swiezewski
Promoter-pervasive transcription causes RNA polymerase II pausing to boost DOG1 expression in response to salt. The EMBO journal 42 (5) (2023)
Mateusz Chilinski, Jakub Lipiński, Abhishek Agarwal, Yijun Ruan, Dariusz Plewczyński
Enhanced performance of gene expression predictive models with protein-mediated spatial chromatin interactions. bioRxiv : the preprint server for biology (2023)
Miguel Montez, Maria Majchrowska, Michal Krzyszton, Grzegorz Bokota, Sebastian P Sacharowski, Magdalena Wrona, Ruslan Yatusevich, Ferran Massana, Dariusz Plewczyński, Szymon Swiezewski
Promoter-pervasive transcription causes RNA polymerase II pausing to boost DOG1 expression in response to salt. The EMBO journal 42 (5) (2023)
Abhishek Agarwal, Sevastianos Korsak, Ashutosh Choudhury, Dariusz Plewczyński
The dynamic role of cohesin in maintaining human genome architecture. BioEssays : news and reviews in molecular, cellular and developmental biology (2023)
Miguel Montez, Maria Majchrowska, Michal Krzyszton, Grzegorz Bokota, Sebastian P Sacharowski, Magdalena Wrona, Ruslan Yatusevich, Ferran Massana, Dariusz Plewczyński, Szymon Swiezewski
Promoter-pervasive transcription causes RNA polymerase II pausing to boost DOG1 expression in response to salt. The EMBO journal 42 (5) (2023)
Miguel Montez, Maria Majchrowska, Michal Krzyszton, Grzegorz Bokota, Sebastian P Sacharowski, Magdalena Wrona, Ruslan Yatusevich, Ferran Massana, Dariusz Plewczyński, Szymon Swiezewski
Promoter-pervasive transcription causes RNA polymerase II pausing to boost DOG1 expression in response to salt. The EMBO journal 42 (5) (2023)
Miguel Montez, Maria Majchrowska, Michal Krzyszton, Grzegorz Bokota, Sebastian P Sacharowski, Magdalena Wrona, Ruslan Yatusevich, Ferran Massana, Dariusz Plewczyński, Szymon Swiezewski
Promoter-pervasive transcription causes RNA polymerase II pausing to boost DOG1 expression in response to salt. The EMBO journal (2023)
Xiansong Wang, Wei Hu, XiangChun Li, Dan Huang, Qing Li, Hung Chan, Judeng Zeng, Chuan Xie, Huarong Chen, Xiaodong Liu, Tony Gin, Maggie Haitian Wang, Alfred Sze Lok Cheng, Wei Kang, Ka-Fai To, Dariusz Plewczyński, Qingpeng Zhang, Xiaoting Chen, Danny Cheuk Wing Chan, Ho Ko, Sunny-Hei Wong, Jun Yu, Matthew Tak Vai Chan, Lin Zhang, William Ka Kei Wu
Single-Hit Inactivation Drove Tumor Suppressor Genes Out of the X Chromosome during Evolution. Cancer research 82 (8) (2022)
Sovan Saha, Piyali Chatterjee, Anup Kumar Halder, Mita Nasipuri, Subhadip Basu, Dariusz Plewczyński
ML-DTD: Machine Learning-Based Drug Target Discovery for the Potential Treatment of COVID-19. Vaccines 10 (10) (2022)
Tomas Zelenka, Antonios Klonizakis, Despina Tsoukatou, Dionysios-Alexandros Papamatheakis, Soeren Franzenburg, Petros Tzerpos, Ioannis-Rafail Tzonevrakis, George Papadogkonas, Manouela Kapsetaki, Christoforos Nikolaou, Dariusz Plewczyński, Charalampos G Spilianakis
The 3D enhancer network of the developing T cell genome is shaped by SATB1. Nature communications 13 (1) (2022)
Judith Barbara Zaugg, Pelin Sahlén, Robin Andersson, Meritxell Alberich-Jorda, Wouter de Laat, Bart Deplancke, Jorge Ferrer, Susanne Mandrup, Gioacchino Natoli, Dariusz Plewczyński, Álvaro Rada-Iglesias, Salvatore Spicuglia
Current challenges in understanding the role of enhancers in disease. Nature structural & molecular biology (2022)
Anik Banik, Souvik Podder, Sovan Saha, Piyali Chatterjee, Anup Kumar Halder, Mita Nasipuri, Subhadip Basu, Dariusz Plewczyński
Rule-Based Pruning and In Silico Identification of Essential Proteins in Yeast PPIN. Cells 11 (17) (2022)
Tomasz M Grzywa, Anna Sosnowska, Zuzanna Rydzynska, Michal Lazniewski, Dariusz Plewczyński, Klaudia Klicka, Milena Malecka-Gieldowska, Anna Rodziewicz-Lurzynska, Olga Ciepiela, Magdalena Justyniarska, Paulina Pomper, Marcin M Grzybowski, Roman Błaszczyk, Michał Węgrzynowicz, Agnieszka Tomaszewska, Grzegorz Basak, Jakub Golab, Dominika Nowis
Potent but transient immunosuppression of T-cells is a general feature of CD71+ erythroid cells. Communications biology 4 (1) (2021)
Teresa Szczepińska, Ayatullah Faruk Mollah, Dariusz Plewczyński
Genomic Marks Associated with Chromatin Compartments in the CTCF, RNAPII Loop and Genomic Windows. International journal of molecular sciences 22 (21) (2021)
Dominika Oziębło, Marcin Ludwik Leja, Michal Lazniewski, Anna Sarosiak, Grażyna Tacikowska, Krzysztof Kochanek, Dariusz Plewczyński, Henryk Skarzynski, Monika Ołdak
TBC1D24 emerges as an important contributor to progressive postlingual dominant hearing loss. Scientific reports 11 (1) (2021)
Marta Klopotowska, Malgorzata Bajor, Agnieszka Graczyk-Jarzynka, Agnieszka Kraft, Zofia Pilch, Andriy Zhylko, Malgorzata Firczuk, Iwona Baranowska, Michal Lazniewski, Dariusz Plewczyński, Agnieszka Goral, Karolina Soroczynska, Joanna Domagała, Katsiaryna Marhelava, Aleksander Ślusarczyk, Kuba Retecki, Kavita Ramji, Marta Krawczyk, Madison N Temples, Blanka Sharma, Mieszko Lachota, Herman Netskar, Karl-Johan Malmberg, Radoslaw Zagozdzon, Magdalena Winiarska
PRDX-1 supports the survival and antitumor activity of primary and CAR-modified NK cells under oxidative stress. Cancer immunology research (2021)
Grzegorz Bokota, Jacek Sroka, Subhadip Basu, Nirmal Das, Pawel Trzaskoma, Yana Yushkevich, Agnieszka Grabowska, Adriana Magalska, Dariusz Plewczyński
PartSeg: a tool for quantitative feature extraction from 3D microscopy images for dummies. BMC bioinformatics 22 (1) (2021)
Paweł Trzaskoma, Błażej Ruszczycki, Byoungkoo Lee, Katarzyna K Pels, Katarzyna Krawczyk, Grzegorz Bokota, Andrzej Antoni Szczepankiewicz, Jesse Scott Aaron, Agnieszka Walczak, Małgorzata Alicja Śliwińska, Adriana Magalska, Michal Kadlof, Artur Wolny, Zofia Parteka, Sebastian Arabasz, Magdalena Kiss-Arabasz, Dariusz Plewczyński, Yijun Ruan, Grzegorz M Wilczyński
Ultrastructural visualization of 3D chromatin folding using volume electron microscopy and DNA in situ hybridization. Nature communications 11 (1) (2020)
Michal Sadowski, Agnieszka Kraft, Przemyslaw Szalaj, Michal Wlasnowolski, Zhonghui Tang, Yijun Ruan, Dariusz Plewczyński
Correction to: Spatial chromatin architecture alteration by structural variations in human genomes at the population scale. Genome biology 20 (1) (2019)
Sovan Saha, Piyali Chatterjee, Subhadip Basu, Mita Nasipuri, Dariusz Plewczyński
FunPred 3.0: improved protein function prediction using protein interaction network. PeerJ 7 (2019)
Michal Sadowski, Agnieszka Kraft, Przemyslaw Szalaj, Michal Wlasnowolski, Zhonghui Tang, Yijun Ruan, Dariusz Plewczyński
Spatial chromatin architecture alteration by structural variations in human genomes at the population scale. Genome biology 20 (1) (2019)
Ziad Al Bkhetan, Dariusz Plewczyński
Three-dimensional Epigenome Statistical Model: Genome-wide Chromatin Looping Prediction. Scientific reports 8 (1) (2018)
Maja Malkowska, Julian Zubek, Dariusz Plewczyński, Lucjan S Wyrwicz
ShapeGTB: the role of local DNA shape in prioritization of functional variants in human promoters with machine learning. PeerJ 6 (2018)
Anna A Marusiak, Monika K Prelowska, Dawid Mehlich, Michal Lazniewski, Klaudia Kaminska, Adam Gorczynski, Aleksandra Korwat, Olga Sokolowska, Hanna Kedzierska, Jakub Golab, Wojciech Biernat, Dariusz Plewczyński, John Brognard, Dominika Nowis
Upregulation of MLK4 promotes migratory and invasive potential of breast cancer cells. Oncogene 38 (15) (2018)
Piyali Chatterjee, Subhadip Basu, Julian Zubek, Mahantapas Kundu, Mita Nasipuri, Dariusz Plewczyński
PDP-CON: prediction of domain/linker residues in protein sequences using a consensus approach. Journal of molecular modeling 22 (4) (2016)