Irena Roterman

75 papers Journal 74
YearRankTypeTitle / Venue / Authors
2025 J jnl
DisorderUnetLM: Validating ProteinUnet for efficient protein intrinsic disorder prediction.
Comput. Biol. Medicine
Krzysztof Kotowski, Irena Roterman, Katarzyna Stapor
2024 J jnl
Protein intrinsic disorder prediction using Attention U-Net and ProtTrans protein language model.
CoRR
Krzysztof Kotowski, Irena Roterman, Katarzyna Stapor
2024 J jnl
The outer-membrane componentof the multi-drug efflux system -a structural analysis based onhydrophobicity distribution.
Bio Algorithms Med Syst.
Irena Roterman, Leszek Konieczny, Katarzyna Stapor
2023 J jnl
Ab initio protein structure prediction: the necessary presence of external force field as it is delivered by Hsp40 chaperone.
BMC Bioinform.
Irena Roterman, Katarzyna Stapor, Leszek Konieczny
2023 J jnl
Protein Is an Intelligent Micelle.
Entropy
Irena Roterman, Leszek Konieczny
2023 J jnl
Role of environmental specificity in CASP results.
BMC Bioinform.
Irena Roterman, Katarzyna Stapor, Leszek Konieczny
2022 J jnl
Lightweight ProteinUnet2 network for protein secondary structure prediction: a step towards proper evaluation.
BMC Bioinform.
Katarzyna Stapor, Krzysztof Kotowski, Tomasz Smolarczyk, Irena Roterman
2021 J jnl
Divergence Entropy-Based Evaluation of Hydrophobic Core in Aggressive and Resistant Forms of Transthyretin.
Entropy
Mateusz Banach, Katarzyna Stapor, Piotr Fabian, Leszek Konieczny, Irena Roterman
2020 J jnl
Alternative Hydrophobic Core in Proteins - The Effect of Specific Synergy.
Symmetry
Piotr Fabian, Katarzyna Stapor, Mateusz Banach, Magdalena Ptak-Kaczor, Leszek Konieczny, Irena Roterman
2020 J jnl
Protein folding vs. COVID-19 and the Mediterranean diet.
Bio Algorithms Med Syst.
Irena Roterman, Leszek Konieczny
2020 J jnl
System to simulate the activity of living organism - construction of proteome.
J. Comput. Sci.
Krzysztof Mikuta, Leszek Konieczny, Irena Roterman
2020 J jnl
The Status of Edge Strands in Ferredoxin-Like Fold.
Symmetry
Mateusz Banach, Piotr Fabian, Katarzyna Stapor, Leszek Konieczny, Magdalena Ptak-Kaczor, Irena Roterman
2019 J jnl
Aggregation-promoting conditions necessary to create the complexes by acylphosphatase from the hyperthermophile Sulfolobus solfataricus.
Bio Algorithms Med Syst.
Mateusz Banach, Zdzislaw Wisniowski, Magdalena Ptak, Irena Roterman
2019 J jnl
Personalized precision medicine.
Bio Algorithms Med Syst.
Leszek Konieczny, Irena Roterman
2019 J jnl
Structural analysis of the Aβ(11-42) amyloid fibril based on hydrophobicity distribution.
J. Comput. Aided Mol. Des.
Irena Roterman, Dawid Dulak, Malgorzata Gadzala, Mateusz Banach, Leszek Konieczny
2019 J jnl
Symmetry and Dissymmetry in Protein Structure - System-Coding Its Biological Specificity.
Symmetry
Mateusz Banach, Leszek Konieczny, Irena Roterman
2019 J jnl
The living organism: evolutionary design or an accident.
Bio Algorithms Med Syst.
Irena Roterman, Leszek Konieczny
2018 J jnl
Chromatin 3D - will it make understanding of cancer transformation finally possible?
Bio Algorithms Med Syst.
Grazyna Drabik, Jolanta Kaszuba-Zwoinska, Zdzislaw Wisniowski, Leszek Konieczny, Irena Roterman
2018 J jnl
Comparison of the structure of Aβ(1-40) amyloid with the one in complex with polyphenol ε-viniferin glucoside (EVG).
Bio Algorithms Med Syst.
Dawid Dulak, Mateusz Banach, Zdzislaw Wisniowski, Leszek Konieczny, Irena Roterman
2018 J jnl
Fragment Aβ(18-41) presented within the CDR3 loop region of a shark immunoglobulin new antigen receptor single-variable domain antibody analyzed based on the fuzzy oil drop model.
Bio Algorithms Med Syst.
Mateusz Banach, Leszek Konieczny, Zdzislaw Wisniowski, Irena Roterman
2017 J jnl
Application of the Fuzzy Oil Drop Model Describes Amyloid as a Ribbonlike Micelle.
Entropy
Irena Roterman, Mateusz Banach, Leszek Konieczny
2017 J jnl
Chain-chain complexation and heme binding in haemoglobin with respect to the hydrophobic core structure.
Bio Algorithms Med Syst.
Magdalena Ptak, Mateusz Banach, Zdzislaw Wisniowski, Leszek Konieczny, Irena Roterman
2017 J jnl
Mechanism of ligand binding - PDZ domain taken as example.
Bio Algorithms Med Syst.
Dawid Dulak, Mateusz Banach, Zdzislaw Wisniowski, Leszek Konieczny, Irena Roterman
2017 J jnl
Role of the hydrophobic core in cytoskeleton protein: cardiac myosin binding protein C.
Bio Algorithms Med Syst.
Maria Golda, Mateusz Banach, Zdzislaw Wisniowski, Wojciech Ziajka, Leszek Konieczny, Irena Roterman
2017 J jnl
Structure of hydrophobic core in plant carboxylesterase.
Bio Algorithms Med Syst.
Mateusz Banach, Leszek Konieczny, Zdzislaw Wisniowski, Irena Roterman
2017 J jnl
The variability of protein structure with respect to the hydrophobic core.
Bio Algorithms Med Syst.
Mateusz Banach, Zdzislaw Wisniowski, Barbara Kalinowska, Leszek Konieczny, Irena Roterman
2016 J jnl
Dissimilar sequence: similar structure of proteins.
Bio Algorithms Med Syst.
Mateusz Banach, Leszek Konieczny, Irena Roterman
2016 J jnl
Influence of the Aqueous Environment on Protein Structure - A Plausible Hypothesis Concerning the Mechanism of Amyloidogenesis.
Entropy
Irena Roterman, Mateusz Banach, Barbara Kalinowska, Leszek Konieczny
2016 J jnl
Role of Disulfide Bonds in Stabilizing the Conformation of Selected Enzymes - An Approach Based on Divergence Entropy Applied to the Structure of Hydrophobic Core in Proteins.
Entropy
Mateusz Banach, Barbara Kalinowska, Leszek Konieczny, Irena Roterman
2015 J jnl
Application of Divergence Entropy to Characterize the Structure of the Hydrophobic Core in DNA Interacting Proteins.
Entropy
Barbara Kalinowska, Mateusz Banach, Leszek Konieczny, Irena Roterman
2015 J jnl
Statistical dictionaries for hypothetical in silico model of the early-stage intermediate in protein folding.
J. Comput. Aided Mol. Des.
Barbara Kalinowska, Piotr Fabian, Katarzyna Stapor, Irena Roterman
2015 J jnl
The use of Titan yellow dye as a metal ion binding marker for studies on the formation of specific complexes by supramolecular Congo red.
Bio Algorithms Med Syst.
Katarzyna Chlopas, Anna Jagusiak, Leszek Konieczny, Barbara Piekarska, Irena Roterman, Janina Rybarska, Barbara Stopa, Grzegorz Zemanek, Elzbieta Bielanska, Piotr Piwowar, Krystyna Sadlik
2014 J jnl
Attempt at a systemic outlook on aging and carcinogenesis.
Bio Algorithms Med Syst.
Monika Piwowar, Jacek Dygut, Piotr Piwowar, Leszek Konieczny, Irena Roterman
2014 J jnl
Speaker identification based on artificial neural networks. Case study: the Polish vowel (pilot study).
Bio Algorithms Med Syst.
Kinga Salapa, Agata Trawinska, Irena Roterman, Ryszard Tadeusiewicz
2013 J jnl
Structural role of exon-coded fragments in proteins.
Bio Algorithms Med Syst.
Monika Piwowar, Mateusz Banach, Leszek Konieczny, Irena Roterman
2013 J jnl
Structural role of exons in hemoglobin.
Bio Algorithms Med Syst.
Monika Piwowar, Mateusz Banach, Leszek Konieczny, Jacques Chomilier, Irena Roterman
2012 J jnl
BIOLOGICAL CLOCK - Is the Need for a Clock a Common Issue for Cells and Computers?
Bio Algorithms Med Syst.
Pawel Spólnik, Leszek Konieczny, Irena Roterman, Michal Markiewicz
2012 J jnl
Computations of Protein Hydrophobicity Profile as Virtual Experiment in Gridspace Virtual Laboratory.
Bio Algorithms Med Syst.
Eryk Ciepiela, Tomasz Jadczyk, Daniel Harezlak, Marek Kasztelnik, Piotr Nowakowski, Grzegorz Dyk, Maciej Malawski, Marian Bubak, Irena Roterman
2012 — ch.
Examining Protein Folding Process Simulation and Searching for Common Structure Motifs in a Protein Family as Experiments in the GridSpace2 Virtual Laboratory.
PL-Grid
Tomasz Jadczyk, Maciej Malawski, Marian Bubak, Irena Roterman
2012 J jnl
Measurement of Hydrophobicity Distribution in Proteins - Complete Redundant Protein Data Bank.
Bio Algorithms Med Syst.
Kinga Salapa, Barbara Kalinowska, Tomasz Jadczyk, Irena Roterman
2012 J jnl
Measurement of Hydrophobicity Distribution in Proteins - Non-redundant Protein Data Bank.
Bio Algorithms Med Syst.
Kinga Salapa, Barbara Kalinowska, Tomasz Jadczyk, Irena Roterman
2012 J jnl
Stability of Two Natural Homologous Proteins with Different Folds.
Bio Algorithms Med Syst.
Leszek Konieczny, Mateusz Banach, Irena Roterman
2012 J jnl
Structural Analysis of the Lactoferrin Iron Binding Pockets.
Bio Algorithms Med Syst.
Damian Marchewka, Irena Roterman, Magdalena Strus, Klaudyna Spiewak, Grzegorz Majka
2012 J jnl
Technical Solutions for Bio-Measurements.
Bio Algorithms Med Syst.
Leszek Konieczny, Michal Markiewicz, Piotr Piwowar, Irena Roterman
2011 J jnl
Ab initio protein structure prediction - the hydrophobicity distribution analysis.
Bio Algorithms Med Syst.
Giuseppe Evangelista, Giovanni Minervini, Fabio Polticelli, Maciej Malawski, Tomasz Szepieniec, Lukasz Flis, Katarzyna Prymula, Marek Kochanczyk, Ewa Matczynska, Zdzislaw Wisniowski, Kinga Salapa, Mateusz Banach, Irena Roterman
2011 J jnl
Catalytic residues in hydrolases: analysis of methods designed for ligand-binding site prediction.
J. Comput. Aided Mol. Des.
Katarzyna Prymula, Tomasz Jadczyk, Irena Roterman
2010 J jnl
Automatic Classification of Protein Structures based on Genetic Algorithm alignment of the Hydrophobicity Difference Profiles obtained from the Fuzzy Oil Drop Model.
Bio Algorithms Med Syst.
Lukasz Proszek, Irena Roterman
2010 J jnl
Forty years of medical informatics in Medical Academy (currently) Jagiellonian University - Medical College (JU CM).
Bio Algorithms Med Syst.
Marek Ksiezyk, Jan Trabka, Andrzej Zarnecki, Ryszard Tadeusiewicz, Irena Roterman
2010 J jnl
Identification of protein-protein complexation area.
Bio Algorithms Med Syst.
Mateusz Banach, Irena Roterman
2010 J jnl
In silico "Game" between the patient and his/her disease.
Bio Algorithms Med Syst.
Wiktor Pilat, Irena Roterman
2010 J jnl
Internal force field in protein molecule.
Bio Algorithms Med Syst.
Piotr Marek, Irena Roterman
2009 J jnl
Chemical pathways - visualisation of classical analytical procedures in chemistry by the use of flow charts.
Bio Algorithms Med Syst.
Andrzej A. Kononowicz, Irena Roterman
2009 J jnl
Male portrait head.
Bio Algorithms Med Syst.
Dorota Gorzelany, Jerzy Walocha, Anna Wojas-Pelc, Wladyslaw Lejman, Ryszard Gryglewski, Wieslaw Pyrczak, Irena Roterman
2009 J jnl
Structural Entropy to Characterize Small Proteins (70 aa) and Their Interactions.
Entropy
Katarzyna Prymula, Irena Roterman
2009 J jnl
The XV century patients (as presented on Wit Stwosz altar) diagnozed.
Bio Algorithms Med Syst.
Irena Roterman
2009 J jnl
Unfolding simulation to verify the concept of limited conformational sub-space for early-stage intermediate.
Bio Algorithms Med Syst.
Piotr Kielkowicz, Irena Roterman
2008 J jnl
Ligands database.
Bio Algorithms Med Syst.
Damian Marchewka, Irena Roterman
2008 J jnl
The influence of coffee on an eyeball movement.
Bio Algorithms Med Syst.
Piotr Walecki, Wojciech Lason, Edward Jacek Gorzelanczyk, Irena Roterman
2007 J jnl
An approach to protein folding on the grid - EUChinaGrid experience.
Bio Algorithms Med Syst.
Maciej Malawski, Tomasz Szepieniec, Marek Kochanczyk, Monika Piwowar, Irena Roterman
2007 J jnl
Is the protein folding an aim-oriented process? Human haemoglobin as example.
Int. J. Bioinform. Res. Appl.
Michal Brylinski, Leszek Konieczny, Irena Roterman
2007 J jnl
Massive identification of similarities in DNA materials organized in Grid environment.
Bio Algorithms Med Syst.
Monika Piwowar, Tomasz Szepieniec, Irena Roterman
2007 J jnl
Prediction of Functional Sites Based on the Fuzzy Oil Drop Model.
PLoS Comput. Biol.
Michal Brylinski, Katarzyna Prymula, Wiktor Jurkowski, Marek Kochanczyk, Ewa Stawowczyk, Leszek Konieczny, Irena Roterman
2006 J jnl
Gauss-Function-Based Model of Hydrophobicity Density in Proteins.
Silico Biol.
Leszek Konieczny, Michal Brylinski, Irena Roterman
2006 J jnl
Hydrophobic collapse in (
Comput. Biol. Chem.
Michal Brylinski, Leszek Konieczny, Irena Roterman
2006 J jnl
Sequence-Structure-Function Relation Characterized in silico.
Silico Biol.
Michal Brylinski, Marek Kochanczyk, Leszek Konieczny, Irena Roterman
2006 J jnl
Specific supramolecular ligands with proteins. Possible practical application.
Bio Algorithms Med Syst.
Joanna Grabska-Chrzastowska, Anna Drozd, Leszek Konieczny, Janina Rybarska, Barbara Stopa, Barbara Piekarska, Irena Roterman, Marcin Król, Pawel Spólnik, Grzegorz Zemanek
2006 J jnl
The ligand database server.
Bio Algorithms Med Syst.
Elzbieta Broniatowska, Olga Stepien, Irena Roterman
2004 J jnl
Force-field parametrization and molecular dynamics simulations of Congo red.
J. Comput. Aided Mol. Des.
Marcin Król, Tomasz Borowski, Irena Roterman, Barbara Piekarska, Barbara Stopa, Joanna Rybarska, Leszek Konieczny
2004 J jnl
Limited conformational space for early-stage protein folding simulation.
Bioinform.
Michal Brylinski, Wiktor Jurkowski, Leszek Konieczny, Irena Roterman
2004 J jnl
SPI - Structure predictability index for protein sequences.
Silico Biol.
Michal Brylinski, Leszek Konieczny, Irena Roterman
2003 J jnl
Search for structural similarity in proteins.
Bioinform.
Jacek Leluk, Leszek Konieczny, Irena Roterman
2000 J jnl
The Conformational Characteristics of Congo Red, Evans Blue and Trypan Blue.
Comput. Chem.
Marek Skowronek, Irena Roterman, Leszek Konieczny, Barbara Stopa, Janina Rybarska, Barbara Piekarska, Andrzej Górecki, Marek Król
2000 J jnl
Why do Congo Red, Evans Blue, and Trypan Blue differ in their complexation properties?
J. Comput. Chem.
Marek Skowronek, Irena Roterman, Leszek Konieczny, Barbara Stopa, Janina Rybarska, Barbara Piekarska
1998 J jnl
Congo Red Bound to -1-Proteinase Inhibitor As a Model of Supramolecular Ligand and Protein Complex.
Comput. Chem.
Irena Roterman, Janina Rybarska, Leszek Konieczny, Marek Skowronek, Barbara Stopa, Barbara Piekarska, Grzegorz Bakalarski
1995 J jnl
Geometrical Analysis of Structural Changes in Immunoglobulin Domains' Transition From Native to Molten State.
Comput. Chem.
Irena Roterman, Leszek Konieczny