Irena Roterman

Affiliations

Department of Bioinformatics and Telemedicine, Jagiellonian University-Medical College, Lazarza 16, 31-533 Krakow, Poland.

ORCID: 0000-0003-3652-9099

Publications (44)

Downhill, Ultrafast and Fast Folding Proteins Revised.

International journal of molecular sciences

Avec: Mateusz Banach , Katarzyna Stapor , Leszek Konieczny , Piotr Fabian , Irena Roterman

Protein Is an Intelligent Micelle.

Entropy (Basel, Switzerland)

Avec: Irena Roterman , Leszek Konieczny

New insights on the catalytic center of proteins from peptidylprolyl isomerase group based on the FOD-M model.

Journal of cellular biochemistry

Avec: Irena Roterman , Katarzyna Stapor , Leszek Konieczny

Engagement of intrinsic disordered proteins in protein-protein interaction.

Frontiers in molecular biosciences

Avec: Irena Roterman , Katarzyna Stapor , Leszek Konieczny

Secondary Structure in Amyloids in Relation to Their Wild Type Forms.

International journal of molecular sciences

Avec: Irena Roterman , Katarzyna Stapor , Leszek Konieczny

Interaction of Supramolecular Congo Red and Congo Red-Doxorubicin Complexes with Proteins for Drug Carrier Design.

Pharmaceutics

Avec: Anna Jagusiak , Katarzyna Chłopaś , Grzegorz Zemanek , Izabela Kościk , Irena Roterman

On the Dependence of Prion and Amyloid Structure on the Folding Environment.

International journal of molecular sciences

Avec: Irena Roterman , Katarzyna Stapor , Krzysztof Gądek , Tomasz Gubała , Piotr Nowakowski , Piotr Fabian , Leszek Konieczny

On the need to introduce environmental characteristics in ab initio protein structure prediction using a coarse-grained UNRES force field.

Journal of molecular graphics & modelling

Avec: Irena Roterman , Adam Sieradzan , Katarzyna Stapor , Piotr Fabian , Patryk Wesołowski , Leszek Konieczny

External Force Field for Protein Folding in Chaperonins-Potential Application in

ACS omega

Avec: Irena Roterman , Katarzyna Stapor , Dawid Dułak , Leszek Konieczny

Connexins and Pannexins-Similarities and Differences According to the FOD-M Model.

Biomedicines

Avec: Irena Roterman , Katarzyna Stapor , Piotr Fabian , Leszek Konieczny

Transmembrane proteins-Different anchoring systems.

Proteins

Avec: Irena Roterman , Katarzyna Stapor , Leszek Konieczny

The COVID-19 Puzzle.

Bioinformation

Avec: Leszek Konieczny , Irena Roterman

The Structure of Amyloid Versus the Structure of Globular Proteins.

International journal of molecular sciences

Avec: Piotr Fabian , Mateusz Banach , Katarzyna Stapor , Leszek Konieczny , Magdalena Ptak-Kaczor , Irena Roterman

Internal force field in selected proteins.

Acta biochimica Polonica

Avec: Magdalena Ptak-Kaczor , Mateusz Banach , Leszek Konieczny , Irena Roterman

Model of Early Stage Intermediate in Respect to Its Final Structure.

Biomolecules

Avec: Piotr Fabian , Katarzyna Stapor , Irena Roterman

Different Synergy in Amyloids and Biologically Active Forms of Proteins.

International journal of molecular sciences

Avec: Piotr Fabian , Katarzyna Stapor , Mateusz Banach , Magdalena Ptak-Kaczor , Leszek Konieczny , Irena Roterman

Divergence Entropy-Based Evaluation of Hydrophobic Core in Aggressive and Resistant Forms of Transthyretin.

Entropy (Basel, Switzerland)

Avec: Mateusz Banach , Katarzyna Stapor , Piotr Fabian , Leszek Konieczny , Irena Roterman

Solubility and Aggregation of Selected Proteins Interpreted on the Basis of Hydrophobicity Distribution.

International journal of molecular sciences

Avec: Magdalena Ptak-Kaczor , Mateusz Banach , Katarzyna Stapor , Piotr Fabian , Leszek Konieczny , Irena Roterman

New insights into disordered proteins and regions according to the FOD-M model.

PloS one

Avec: Irena Roterman , Katarzyna Stapor , Piotr Fabian , Leszek Konieczny

Ab initio protein structure prediction: the necessary presence of external force field as it is delivered by Hsp40 chaperone.

BMC bioinformatics

Avec: Irena Roterman , Katarzyna Stapor , Leszek Konieczny

Role of environmental specificity in CASP results.

BMC bioinformatics

Avec: Irena Roterman , Katarzyna Stapor , Leszek Konieczny

Amyloids, Congo red and the apple-green effect.

Acta biochimica Polonica

Avec: Anna Jagusiak , Joanna Rybarska , Leszek Konieczny , Barbara Piekarska , Barbara Stopa , Katarzyna Chłopaś , Grzegorz Zemanem , Irena Roterman

Secondary and Supersecondary Structure of Proteins in Light of the Structure of Hydrophobic Cores.

Methods in molecular biology (Clifton, N.J.)

Avec: Mateusz Banach , Leszek Konieczny , Irena Roterman

Alternative Structures of α-Synuclein.

Molecules (Basel, Switzerland)

Avec: Dawid Dułak , Małgorzata Gadzała , Mateusz Banach , Leszek Konieczny , Irena Roterman

Impact of Doxorubicin on Self-Organization of Congo Red: Quantum Chemical Calculations and Molecular Dynamics Simulations.

ACS omega

Avec: Klaudia Kwiecińska , Anna Stachowicz-Kuśnierz , Anna Jagusiak , Irena Roterman , Jacek Korchowiec

In Silico Modeling of the Influence of Environment on Amyloid Folding Using FOD-M Model.

International journal of molecular sciences

Avec: Irena Roterman , Katarzyna Stapor , Piotr Fabian , Leszek Konieczny

Model of Environmental Membrane Field for Transmembrane Proteins.

International journal of molecular sciences

Avec: Irena Roterman , Katarzyna Stapor , Piotr Fabian , Leszek Konieczny , Mateusz Banach

Hydrophobicity-Based Force Field In Enzymes.

ACS omega

Avec: Irena Roterman , Leszek Konieczny , Katarzyna Stapor , Mateusz Słupina

The Possible Mechanism of Amyloid Transformation Based on the Geometrical Parameters of Early-Stage Intermediate in Silico Model for Protein Folding.

International journal of molecular sciences

Avec: Irena Roterman , Katarzyna Stapor , Dawid Dułak , Leszek Konieczny

Secondary structure in polymorphic forms of alpha-synuclein amyloids.

Acta biochimica Polonica

Avec: Irena Roterman , Katarzyna Stapor , Dawid Dułak , Leszek Konieczny

Domain swapping: a mathematical model for quantitative assessment of structural effects.

FEBS open bio

Avec: Irena Roterman , Katarzyna Stapor , Dawid Dułak , Leszek Konieczny

The Amyloid as a Ribbon-Like Micelle in Contrast to Spherical Micelles Represented by Globular Proteins.

Molecules (Basel, Switzerland)

Avec: Mateusz Banach , Leszek Konieczny , Irena Roterman

Identification of tunnels as in potato hydrolases.

Bioinformation

Avec: Mateusz Banach , Fabian Piotr , Stapor Katarzyna , Konieczny Leszek , Irena Roterman

Structural analysis of the Aβ(11-42) amyloid fibril based on hydrophobicity distribution.

Journal of computer-aided molecular design

Avec: Irena Roterman , Dawid Dułak , Małgorzata Gadzała , Mateusz Banach , Leszek Konieczny

The aqueous environment as an active participant in the protein folding process.

Journal of molecular graphics & modelling

Avec: Małgorzata Gadzała , Dawid Dułak , Barbara Kalinowska , Zbigniew Baster , Michał Bryliński , Leszek Konieczny , Mateusz Banach , Irena Roterman

Dependence of Protein Structure on Environment: FOD Model Applied to Membrane Proteins.

Membranes

Avec: Irena Roterman , Katarzyna Stapor , Krzysztof Gądek , Tomasz Gubała , Piotr Nowakowski , Piotr Fabian , Leszek Konieczny

The Functional Significance of Hydrophobic Residue Distribution in Bacterial Beta-Barrel Transmembrane Proteins.

Membranes

Avec: Irena Roterman , Katarzyna Stapor , Piotr Fabian , Leszek Konieczny

Glycogen Storage Disease type IA refractory to cornstarch: Can next generation sequencing offer a solution?

European journal of medical genetics

Avec: Or Steg Saban , Ben Pode-Shakked , Bassam Abu-Libdeh , Maya Granot , Galia Barkai , Yael Haberman , Inon Roterman , Avishay Lahad , Dror S Shouval , Batia Weiss , Dina Marek-Yagel , Ortal Barel , Nurit Loberman-Nachum , Smadar Abraham , Raz Somech , David A Weinstein , Yair Anikster

Lightweight ProteinUnet2 network for protein secondary structure prediction: a step towards proper evaluation.

BMC bioinformatics

Avec: Katarzyna Stapor , Krzysztof Kotowski , Tomasz Smolarczyk , Irena Roterman

Congo Red as a Supramolecular Carrier System for Doxorubicin: An Approach to Understanding the Mechanism of Action.

International journal of molecular sciences

Avec: Klaudia Kwiecińska , Anna Stachowicz-Kuśnierz , Beata Korchowiec , Maciej Roman , Wojciech M Kwiatek , Anna Jagusiak , Irena Roterman , Jacek Korchowiec

The Contribution of Hydrophobic Interactions to Conformational Changes of Inward/Outward Transmembrane Transport Proteins.

Membranes

Avec: Irena Roterman , Katarzyna Stapor , Leszek Konieczny

Structural Specificity of Polymorphic Forms of α-Synuclein Amyloid.

Biomedicines

Avec: Irena Roterman , Katarzyna Stapor , Leszek Konieczny

Convolutional ProteinUnetLM competitive with long short-term memory-based protein secondary structure predictors.

Proteins

Avec: Krzysztof Kotowski , Piotr Fabian , Irena Roterman , Katarzyna Stapor

Chameleon Sequences-Structural Effects in Proteins Characterized by Hydrophobicity Disorder.

ACS omega

Avec: Irena Roterman , Mateusz Slupina , Katarzyna Stapor , Leszek Konieczny , Krzysztof Gądek , Piotr Nowakowski

Réseau de co-auteurs

Leszek Konieczny 36 collaborations

Katarzyna Stapor 30 collaborations

Piotr Fabian 15 collaborations

Mateusz Banach 13 collaborations

Dawid Dułak 7 collaborations

Anna Jagusiak 4 collaborations

Magdalena Ptak-Kaczor 4 collaborations

Krzysztof Gądek 3 collaborations

Piotr Nowakowski 3 collaborations

Małgorzata Gadzała 3 collaborations

Katarzyna Chłopaś 2 collaborations

Tomasz Gubała 2 collaborations

Klaudia Kwiecińska 2 collaborations

Anna Stachowicz-Kuśnierz 2 collaborations

Jacek Korchowiec 2 collaborations

Krzysztof Kotowski 2 collaborations

Grzegorz Zemanek 1 collaboration

Izabela Kościk 1 collaboration

Adam Sieradzan 1 collaboration

Patryk Wesołowski 1 collaboration

Joanna Rybarska 1 collaboration

Barbara Piekarska 1 collaboration

Barbara Stopa 1 collaboration

Grzegorz Zemanem 1 collaboration

Mateusz Słupina 1 collaboration

Fabian Piotr 1 collaboration

Stapor Katarzyna 1 collaboration

Konieczny Leszek 1 collaboration

Barbara Kalinowska 1 collaboration

Zbigniew Baster 1 collaboration

Michał Bryliński 1 collaboration

Or Steg Saban 1 collaboration

Ben Pode-Shakked 1 collaboration

Bassam Abu-Libdeh 1 collaboration

Maya Granot 1 collaboration

Galia Barkai 1 collaboration

Yael Haberman 1 collaboration

Inon Roterman 1 collaboration

Avishay Lahad 1 collaboration

Dror S Shouval 1 collaboration

Batia Weiss 1 collaboration

Dina Marek-Yagel 1 collaboration

Ortal Barel 1 collaboration

Nurit Loberman-Nachum 1 collaboration

Smadar Abraham 1 collaboration

Raz Somech 1 collaboration

David A Weinstein 1 collaboration

Yair Anikster 1 collaboration

Tomasz Smolarczyk 1 collaboration

Beata Korchowiec 1 collaboration

Maciej Roman 1 collaboration

Wojciech M Kwiatek 1 collaboration

Mateusz Slupina 1 collaboration