Rafał Bachorz

Dr. Rafał Bachorz

Institute of Medical Biology of the Polish of Academy of Sciences, Łódz, Poland
orcid

Research Focus & Metrics

Academic Career Length

19Years (2008-Present)

(Calculated once Scilit publication data is synced: current year − year of first publication + 1)

Representative Publications

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15 February 2008 in Science
Verified
Journal Article
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SESoren N. Eustis
Soren N. Eustis
DRDunja Radisic
Dunja Radisic
KBKit H. Bowen
Kit H. Bowen
Rafał BachorzRafał Bachorz
Rafał Bachorz
AHand Maciej Haranczyka
and Maciej Haranczyka
MGMaciej Gutowski
Maciej Gutowski
In contrast to widely familiar acid-base behavior in solution, single molecules of NH 3 and HCl do not react to form the ionic salt, NH + 4 Cl – , in isolation. We applied anion photoelectron spectroscopy and ab initio theory to investigate the interaction of an excess electron with the hydrogen-bonded complex NH 3 ···HCl. Our results show that an excess electron induces this complex to form the ionic salt. We propose a mechanism that proceeds through a dipole-bound state to form the negative ion of ionic ammonium chloride, a species that can also be characterized as a deformed Rydberg radical, NH 4 , polarized by a chloride anion, Cl – .

31 October 2024 in Applied Sciences
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Journal Article
Open access
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GMGrzegorz Miebs
Grzegorz Miebs
AMAdam Mielniczuk
Adam Mielniczuk
Milosz KadzinskiMilosz Kadzinski
Milosz Kadzinski
Rafał BachorzRafał Bachorz
Rafał Bachorz
Lipinski’s Rule of Five and Ghose filter are empirical guidelines for evaluating the drug-likeness of a compound, suggesting that orally active drugs typically fall within specific ranges for molecular descriptors such as hydrogen bond donors and acceptors, weight, and lipophilicity. We revisit these practices and offer a more analytical perspective using the Dominance-based Rough Set Approach (DRSA). By analyzing representative samples of drug and non-drug molecules and focusing on the same molecular descriptors, we derived decision rules capable of distinguishing between these two classes systematically and reproducibly. This way, we reduced human bias and enabled efficient knowledge extraction from available data. The performance of the DRSA model was rigorously validated against traditional rules and available machine learning (ML) approaches, showing a significant improvement over empirical rules while achieving comparable predictive accuracy to more complex ML methods. Our rules remain simple and interpretable while being characterized by high sensitivity and specificity.

31 January 2020 in Neural Processing Letters
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Journal Article
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GMGrzegorz Miebs
Grzegorz Miebs
MMMałgorzata Mochol-Grzelak
Małgorzata Mochol-Grzelak
AKAdam Karaszewski
Adam Karaszewski
Rafał BachorzRafał Bachorz
Rafał Bachorz

Verified
Journal Article
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JPJoanna Pastwińska
Joanna Pastwińska
KKKaja Karaś
Kaja Karaś
ASAnna Sałkowska
Anna Sałkowska
IKIwona Karwaciak
Iwona Karwaciak
KCKatarzyna Chałaśkiewicz
Katarzyna Chałaśkiewicz
Marcin RatajewskiMarcin Ratajewski
Marcin Ratajewski
RORγT is a protein product of the RORC gene belonging to the nuclear receptor subfamily of retinoic-acid-receptor-related orphan receptors (RORs). RORγT is preferentially expressed in Th17 lymphocytes and drives their differentiation from naive CD4+ cells and is involved in the regulation of the expression of numerous Th17-specific cytokines, such as IL-17. Because Th17 cells are implicated in the pathology of autoimmune diseases (e.g., psoriasis, inflammatory bowel disease, multiple sclerosis), RORγT, whose activity is regulated by ligands, has been recognized as a drug target in potential therapies against these diseases. The identification of such ligands is time-consuming and usually requires the screening of chemical libraries. Herein, using a Tanimoto similarity search, we found corosolic acid and other pentacyclic tritepenes in the library we previously screened as compounds highly similar to the RORγT inverse agonist ursolic acid. Furthermore, using gene reporter assays and Th17 lymphocytes, we distinguished compounds that exert stronger biological effects (ursolic, corosolic, and oleanolic acid) from those that are ineffective (asiatic and maslinic acids), providing evidence that such combinatorial methodology (in silico and experimental) might help wet screenings to achieve more accurate results, eliminating false negatives.

5 December 2023 in ChemRxiv
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Preprint
Open access
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EBEsben Jannik Bjerrum
Esben Jannik Bjerrum
Rafał BachorzRafał Bachorz
Rafał Bachorz
ABAdrien Bitton
Adrien Bitton
OCOh-Hyeon Choung
Oh-Hyeon Choung
YCYa Chen
Ya Chen
APAndreas Poehlmann
Andreas Poehlmann
Scikit-Mol is a open-source toolkit that aims to bridge the gap between two well-established toolkits, RDKit and Scikit-Learn, in order to provide a simple interface for building cheminformatics models. By leveraging the strengths of both RDKit and Scikit-Learn, Scikit-Mol provides a powerful platform for creating predictive modeling in drug discovery and materials design. Unlike other toolkits that often integrate both chemistry and machine learning, Scikit-Mol rather aims to be a simple bridge between the two, reducing the maintenance effort required to keep up with changes and new features in e.g. Scikit-Learn. A simple example of Scikit-Mol's functionality is provided, demonstrating its compatibility with Scikit-Learn pipelines. Overall, Scikit-Mol provides a useful and flexible package for building self-contained and self-documented cheminformatics models with minimal maintenance required.

1 January 2015 in Dyes and Pigments
Verified
Journal Article
Closed access
EKEwa Krystkowiak
Ewa Krystkowiak
Rafał BachorzRafał Bachorz
Rafał Bachorz
JKJacek Koput
Jacek Koput