Works matching AU Kloczkowski, Andrzej

Results: 80

Sulfatase 2 Is Associated with Steroid Resistance in Childhood Nephrotic Syndrome.

Published in:

Journal of Clinical Medicine, 2021, v. 10, n. 3, p. 523, doi. 10.3390/jcm10030523

By:

Agrawal, Shipra;
Ransom, Richard F.;
Saraswathi, Saras;
Garcia-Gonzalo, Esperanza;
Webb, Amy;
Fernandez-Martinez, Juan L.;
Popovic, Milan;
Guess, Adam J.;
Kloczkowski, Andrzej;
Benndorf, Rainer;
Sadee, Wolfgang;
Smoyer, William E.;
Rovin, Brad H.

Publication type:

Article

Three Mathematical Models for COVID-19 Prediction.

Published in:

Mathematics (2227-7390), 2023, v. 11, n. 3, p. 506, doi. 10.3390/math11030506

By:

Martínez-Fernández, Pelayo;
Fernández-Muñiz, Zulima;
Cernea, Ana;
Fernández-Martínez, Juan Luis;
Kloczkowski, Andrzej

Publication type:

Article

Molecular Role of Protein Phosphatases in Alzheimer's and Other Neurodegenerative Diseases.

Published in:

Biomedicines, 2024, v. 12, n. 5, p. 1097, doi. 10.3390/biomedicines12051097

By:

Hassan, Mubashir;
Yasir, Muhammad;
Shahzadi, Saba;
Chun, Wanjoo;
Kloczkowski, Andrzej

Publication type:

Article

Exploration of microRNAs as transcriptional regulator in mumps virus infection through computational studies.

Published in:

Scientific Reports, 2024, v. 14, n. 1, p. 1, doi. 10.1038/s41598-024-67717-z

By:

Hassan, Mubashir;
Shahzadi, Saba;
Iqbal, Muhammad Shahzad;
Yaseeen, Zainab;
Kloczkowski, Andrzej

Publication type:

Article

Predicting protein tertiary structure and its uncertainty analysis via particle swarm sampling.

Published in:

Journal of Molecular Modeling, 2019, v. 25, n. 3, p. N.PAG, doi. 10.1007/s00894-019-3956-0

By:

Álvarez, Óscar;
Fernández-Martínez, Juan Luis;
Corbeanu, Ana Cernea;
Fernández-Muñiz, Zulima;
Kloczkowski, Andrzej

Publication type:

Article

Inferring ideal amino acid interaction forms from statistical protein contact potentials.

Published in:

Proteins, 2005, v. 59, n. 1, p. 49, doi. 10.1002/prot.20380

By:

Pokarowski, Piotr;
Kloczkowski, Andrzej;
Jernigan, Robert L.;
Kothari, Neha S.;
Pokarowska, Maria;
Kolinski, Andrzej

Publication type:

Article

The origin and extent of coarse-grained regularities in protein internal packing.

Published in:

Proteins, 2003, v. 53, n. 1, p. 56, doi. 10.1002/prot.10435

By:

Zerrin Bagci;
Andrzej Kloczkowski;
Robert L. Jernigan;
Ivet Bahar

Publication type:

Article

Consensus Data Mining (CDM) Protein Secondary Structure Prediction Server: Combining GOR V and Fragment Database Mining (FDM).

Published in:

Bioinformatics, 2007, v. 23, n. 19, p. 2628, doi. 10.1093/bioinformatics/btm379

By:

Haitao Cheng;
Taner Z. Sen;
Robert L. Jernigan;
Andrzej Kloczkowski

Publication type:

Article

GOR V server for protein secondary structure prediction.

Published in:

Bioinformatics, 2005, v. 21, n. 11, p. 2787, doi. 10.1093/bioinformatics/bti408

By:

Taner Z. Sen;
Robert L. Jernigan;
Jean Garnier;
Andrzej Kloczkowski

Publication type:

Article

Reoptimized UNRES Potential for Protein Model Quality Assessment.

Published in:

Genes, 2018, v. 9, n. 12, p. 601, doi. 10.3390/genes9120601

By:

Faraggi, Eshel;
Krupa, Pawel;
Mozolewska, Magdalena A.;
Liwo, Adam;
Kloczkowski, Andrzej

Publication type:

Article

Nature's Own Pharmacy: Mushroom-Based Chemical Scaffolds and Their Therapeutic Implications.

Published in:

International Journal of Molecular Sciences, 2023, v. 24, n. 21, p. 15596, doi. 10.3390/ijms242115596

By:

Hassan, Mubashir;
Shahzadi, Saba;
Ransom, Richard F.;
Kloczkowski, Andrzej

Publication type:

Article

Investigation of Flavonoid Scaffolds as DAX1 Inhibitors against Ewing Sarcoma through Pharmacoinformatic and Dynamic Simulation Studies.

Published in:

International Journal of Molecular Sciences, 2023, v. 24, n. 11, p. 9332, doi. 10.3390/ijms24119332

By:

Yasir, Muhammad;
Park, Jinyoung;
Han, Eun-Taek;
Park, Won Sun;
Han, Jin-Hee;
Kwon, Yong-Soo;
Lee, Hee-Jae;
Hassan, Mubashir;
Kloczkowski, Andrzej;
Chun, Wanjoo

Publication type:

Article

Therapeutic Implications of microRNAs in Depressive Disorders: A Review.

Published in:

2022

By:

Hassan, Mubashir;
Amir, Aqsa;
Shahzadi, Saba;
Kloczkowski, Andrzej

Publication type:

Literature Review

Potent Alkaline Phosphatase Inhibitors, Pyrazolo-Oxothiazolidines: Synthesis, Biological Evaluation, Molecular Docking, and Kinetic Studies.

Published in:

International Journal of Molecular Sciences, 2022, v. 23, n. 21, p. 13262, doi. 10.3390/ijms232113262

By:

Hosseini Nasab, Narges;
Raza, Hussain;
Shim, Rok Su;
Hassan, Mubashir;
Kloczkowski, Andrzej;
Kim, Song Ja

Publication type:

Article

Addressing Noise and Estimating Uncertainty in Biomedical Data through the Exploration of Chemical Space.

Published in:

International Journal of Molecular Sciences, 2022, v. 23, n. 21, p. 12975, doi. 10.3390/ijms232112975

By:

deAndrés-Galiana, Enrique J.;
Fernández-Martínez, Juan Luis;
Fernández-Brillet, Lucas;
Cernea, Ana;
Kloczkowski, Andrzej

Publication type:

Article

Hematopoietic Stem and Progenitor Cells (HSPCs) and Hematopoietic Microenvironment: Molecular and Bioinformatic Studies of the Zebrafish Models.

Published in:

2022

By:

Faisal, Muhammad;
Hassan, Mubashir;
Kumar, Aman;
Zubair, Muhammad;
Jamal, Muhammad;
Menghwar, Harish;
Saad, Muhammad;
Kloczkowski, Andrzej

Publication type:

Literature Review

Innovations in Genomics and Big Data Analytics for Personalized Medicine and Health Care: A Review.

Published in:

2022

By:

Hassan, Mubashir;
Awan, Faryal Mehwish;
Naz, Anam;
deAndrés-Galiana, Enrique J.;
Alvarez, Oscar;
Cernea, Ana;
Fernández-Brillet, Lucas;
Fernández-Martínez, Juan Luis;
Kloczkowski, Andrzej

Publication type:

Literature Review

Molecular Dynamics Simulations of a Catalytic Multivalent Peptide–Nanoparticle Complex.

Published in:

International Journal of Molecular Sciences, 2021, v. 22, n. 7, p. 3624, doi. 10.3390/ijms22073624

By:

Dutta, Sutapa;
Corni, Stefano;
Brancolini, Giorgia;
Kloczkowski, Andrzej

Publication type:

Article

Computational Modulation of the V3 Region of Glycoprotein gp125 of HIV-2.

Published in:

International Journal of Molecular Sciences, 2021, v. 22, n. 4, p. 1948, doi. 10.3390/ijms22041948

By:

Serra, Patrícia A.;
Taveira, Nuno;
Guedes, Rita C.;
Kloczkowski, Andrzej

Publication type:

Article

In Silico Investigation of the New UK (B.1.1.7) and South African (501Y.V2) SARS-CoV-2 Variants with a Focus at the ACE2–Spike RBD Interface.

Published in:

International Journal of Molecular Sciences, 2021, v. 22, n. 4, p. 1695, doi. 10.3390/ijms22041695

By:

Villoutreix, Bruno O.;
Calvez, Vincent;
Marcelin, Anne-Geneviève;
Khatib, Abdel-Majid;
Kloczkowski, Andrzej

Publication type:

Article

Robust Sampling of Defective Pathways in Alzheimer's Disease. Implications in Drug Repositioning.

Published in:

International Journal of Molecular Sciences, 2020, v. 21, n. 10, p. 3594, doi. 10.3390/ijms21103594

By:

Fernández-Martínez, Juan Luis;
Álvarez-Machancoses, Óscar;
deAndrés-Galiana, Enrique J.;
Bea, Guillermina;
Kloczkowski, Andrzej

Publication type:

Article

Robust Sampling of Defective Pathways in Multiple Myeloma.

Published in:

International Journal of Molecular Sciences, 2019, v. 20, n. 19, p. 4681, doi. 10.3390/ijms20194681

By:

Fernández-Martínez, Juan Luis;
de Andrés-Galiana, Enrique J.;
Fernández-Ovies, Francisco Javier;
Cernea, Ana;
Kloczkowski, Andrzej

Publication type:

Article

Modeling of Protein Structural Flexibility and Large-Scale Dynamics: Coarse-Grained Simulations and Elastic Network Models.

Published in:

International Journal of Molecular Sciences, 2018, v. 19, n. 11, p. 3496, doi. 10.3390/ijms19113496

By:

Kmiecik, Sebastian;
Kouza, Maksim;
Badaczewska-Dawid, Aleksandra E.;
Kloczkowski, Andrzej;
Kolinski, Andrzej

Publication type:

Article

Rapid discrimination between deleterious and benign missense mutations in the CAGI 6 experiment.

Published in:

Human Genomics, 2024, v. 18, n. 1, p. 1, doi. 10.1186/s40246-024-00655-z

By:

Faraggi, Eshel;
Jernigan, Robert L.;
Kloczkowski, Andrzej

Publication type:

Article

Evolution of the Deformation‐ and Flow‐Induced Crystallization and Characterization of the Microstructure of a Single Spherulite, Lamella, and Chain of Isotactic Polypropylene.

Published in:

Macromolecular Chemistry & Physics, 2024, v. 225, n. 2, p. 1, doi. 10.1002/macp.202300203

By:

Sharaf, Mohammed A.;
Kloczkowski, Andrzej

Publication type:

Article

Synthesis, Kinetics and Computational Explorations of 4‐Phenylpiperazine Bearing N‐(Aryl)‐3‐substituted‐benzamides as Auspicious Tyrosinase Inhibitors.

Published in:

Chemistry & Biodiversity, 2024, v. 21, n. 4, p. 1, doi. 10.1002/cbdv.202400133

By:

Zeb, Aurang;
Abbasi, Muhammad Athar;
Aziz‐ur‐Rehman;
Siddiqui, Sabahat Zahra;
Hassan, Mubashir;
Javed, Qamar;
Rafiq, Muhammad;
Ali, Anser;
Shah, Syed Adnan Ali;
Kloczkowski, Andrzej

Publication type:

Article

A Consensus Data Mining secondary structure prediction by combining GOR V and Fragment Database Mining.

Published in:

Protein Science: A Publication of the Protein Society, 2006, v. 15, n. 11, p. 2499, doi. 10.1110/ps.062125306

By:

Sen, Taner Z.;
Cheng, Haitao;
Kloczkowski, Andrzej;
Jernigan, Robert L.

Publication type:

Article

Monte Carlo Simulations on Nanoparticles in Elastomers. Effects of the Particles on the Dimensions of the Polymer Chains and the Mechanical Properties of the Networks.

Published in:

Macromolecular Symposia, 2007, v. 256, n. 1, p. 40, doi. 10.1002/masy.200751004

By:

Mark, James E.;
Abou-Hussein, Reda;
Sen, Taner Z.;
Kloczkowski, Andrzej

Publication type:

Article

Small-Angle Neutron Scattering from Elastomeric Networks in which the Junctions Alternate Regularly in their Functionality.

Published in:

Macromolecular Theory & Simulations, 2009, v. 18, n. 9, p. 537, doi. 10.1002/mats.200900041

By:

Skliros, Aris;
Mark, James E.;
Kloczkowski, Andrzej

Publication type:

Article

Discovery of novel TACE inhibitors using graph convolutional network, molecular docking, molecular dynamics simulation, and Biological evaluation.

Published in:

PLoS ONE, 2024, v. 19, n. 12, p. 1, doi. 10.1371/journal.pone.0315245

By:

Yasir, Muhammad;
Park, Jinyoung;
Han, Eun-Taek;
Han, Jin-Hee;
Park, Won Sun;
Hassan, Mubashir;
Kloczkowski, Andrzej;
Chun, Wanjoo

Publication type:

Article

MQAPsingle: A quasi single-model approach for estimation of the quality of individual protein structure models.

Published in:

Proteins, 2016, v. 84, n. 8, p. 1021, doi. 10.1002/prot.24787

By:

Pawlowski, Marcin;
Kozlowski, Lukasz;
Kloczkowski, Andrzej

Publication type:

Article

Accurate single-sequence prediction of solvent accessible surface area using local and global features.

Published in:

Proteins, 2014, v. 82, n. 11, p. 3170, doi. 10.1002/prot.24682

By:

Faraggi, Eshel;
Zhou, Yaoqi;
Kloczkowski, Andrzej

Publication type:

Article

Multibody coarse-grained potentials for native structure recognition and quality assessment of protein models.

Published in:

Proteins, 2014, v. 82, n. 7, p. 1549, doi. 10.1002/prot.24578

By:

Pawel, Gniewek;
Leelananda, Sumudu P.;
Andrzej, Kolinski;
Jernigan, Robert L.;
Andrzej, Kloczkowski

Publication type:

Article

A global machine learning based scoring function for protein structure prediction.

Published in:

Proteins, 2014, v. 82, n. 5, p. 752, doi. 10.1002/prot.24454

By:

Faraggi, Eshel;
Kloczkowski, Andrzej

Publication type:

Article

How noise in force fields can affect the structural refinement of protein models?

Published in:

Proteins, 2012, v. 80, n. 2, p. 335, doi. 10.1002/prot.23240

By:

Gniewek, Pawel;
Kolinski, Andrzej;
Jernigan, Robert L;
Kloczkowski, Andrzej

Publication type:

Article

Multibody coarse-grained potentials for native structure recognition and quality assessment of protein models.

Published in:

Proteins, 2011, v. 79, n. 6, p. 1923, doi. 10.1002/prot.23015

By:

Gniewek, Pawel;
Leelananda, Sumudu P.;
Kolinski, Andrzej;
Jernigan, Robert L.;
Kloczkowski, Andrzej

Publication type:

Article

The energy profiles of atomic conformational transition intermediates of adenylate kinase.

Published in:

Proteins, 2009, v. 77, n. 3, p. 551, doi. 10.1002/prot.22467

By:

Feng, Yaping;
Yang, Lei;
Kloczkowski, Andrzej;
Jernigan, Robert L.

Publication type:

Article

Orientational distributions of contact clusters in proteins closely resemble those of an icosahedron.

Published in:

Proteins, 2008, v. 73, n. 3, p. 730, doi. 10.1002/prot.22092

By:

Feng, Yaping;
Jernigan, Robert L.;
Kloczkowski, Andrzej

Publication type:

Article

Predicting the order in which contacts are broken during single molecule protein stretching experiments.

Published in:

Proteins, 2008, v. 71, n. 1, p. 45, doi. 10.1002/prot.21652

By:

Sułkowska, Joanna I.;
Kloczkowski, Andrzej;
Sen, Taner Z.;
Cieplak, Marek;
Jernigan, Robert L.

Publication type:

Article

Ideal amino acid exchange forms for approximating substitution matrices.

Published in:

Proteins, 2007, v. 69, n. 2, p. 379, doi. 10.1002/prot.21509

By:

Pokarowski, Piotr;
Kloczkowski, Andrzej;
Nowakowski, Szymon;
Pokarowska, Maria;
Jernigan, Robert L.;
Kolinski, Andrzej

Publication type:

Article

Four-body contact potentials derived from two protein datasets to discriminate native structures from decoys.

Published in:

Proteins, 2007, v. 68, n. 1, p. 57, doi. 10.1002/prot.21362

By:

Feng, Yaping;
Kloczkowski, Andrzej;
Jernigan, Robert L.

Publication type:

Article

Conditional entropy in variation-adjusted windows detects selection signatures associated with expression quantitative trait loci (eQTLs).

Published in:

BMC Genomics, 2015, v. 16, p. 1, doi. 10.1186/1471-2164-16-S8-S8

By:

Handelman, Samuel K.;
Seweryn, Michal;
Smith, Ryan M.;
Hartmann, Katherine;
Danxin Wang;
Pietrzak, Maciej;
Johnson, Andrew D.;
Kloczkowski, Andrzej;
Sadee, Wolfgang

Publication type:

Article

Protein secondary structure prediction using a small training set (compact model) combined with a Complex-valued neural network approach.

Published in:

BMC Bioinformatics, 2016, v. 17, p. 1, doi. 10.1186/s12859-016-1209-0

By:

Rashid, Shamima;
Saraswathi, Saras;
Kloczkowski, Andrzej;
Sundaram, Suresh;
Kolinski, Andrzej

Publication type:

Article

Fold-specific sequence scoring improves protein sequence matching.

Published in:

BMC Bioinformatics, 2016, v. 17, p. 1, doi. 10.1186/s12859-016-1198-z

By:

Leelananda, Sumudu P.;
Kloczkowski, Andrzej;
Jernigan, Robert L.

Publication type:

Article

Multi-class BCGA-ELM based classifier that identifies biomarkers associated with hallmarks of cancer.

Published in:

BMC Bioinformatics, 2015, v. 16, n. 1, p. 1, doi. 10.1186/s12859-015-0565-5

By:

Sachnev, Vasily;
Saraswathi, Saras;
Niaz, Rashid;
Kloczkowski, Andrzej;
Suresh, Sundaram

Publication type:

Article

A simple derivation of the exponent γ for Gaussian chains with excluded volume.

Published in:

Macromolecular Theory & Simulations, 1995, v. 4, n. 2, p. 245, doi. 10.1002/mats.1995.040040202

By:

Kloczkowski, Andrzej;
Mark, James E.;
Erman, Burak

Publication type:

Article

Robust Prediction of Single and Multiple Point Protein Mutations Stability Changes.

Published in:

Biomolecules (2218-273X), 2020, v. 10, n. 1, p. 1, doi. 10.3390/biom10010067

By:

Álvarez-Machancoses, Óscar;
De Andrés-Galiana, Enrique J.;
Luis Fernández-Martínez, Juan Luis;
Kloczkowski, Andrzej

Publication type:

Article

Entropy, Fluctuations, and Disordered Proteins.

Published in:

Entropy, 2019, v. 21, n. 8, p. 764, doi. 10.3390/e21080764

By:

Faraggi, Eshel;
Dunker, A. Keith;
Jernigan, Robert L.;
Kloczkowski, Andrzej

Publication type:

Article

Structural interpretation of protein-protein interaction network.

Published in:

BMC Structural Biology, 2010, v. 10, p. 1, doi. 10.1186/1472-6807-10-S1-S4

By:

Katebi, Ataur R.;
Kloczkowski, Andrzej;
Jernigan, Robert L.

Publication type:

Article

BioShell-Threading: versatile Monte Carlo package for protein 3D threading.

Published in:

BMC Bioinformatics, 2014, v. 15, n. 1, p. 2, doi. 10.1186/1471-2105-15-22

By:

Gniewek, Pawel;
Kolinski, Andrzej;
Kloczkowski, Andrzej;
Gront, Dominik

Publication type:

Article