A. Kloczkowski

发表

Elastic network normal modes provide a basis for protein structure refinement.

A. Kolinski, R. Jernigan, P. Gniewek, 2012, The Journal of chemical physics.

Predicting the complex structure and functional motions of the outer membrane transporter and signal transducer FecA.

Taner Z Sen, Andrzej Kloczkowski, Robert L Jernigan, 2008, Biophysical journal.

A superposition test for the emergence of nonlinearities in a laser irradiated spherical absorber

A. Kloczkowski, E. Faraggi, B. Gerstman, 2014, 1711.02986.

Distributions of amino acids suggest that certain residue types more effectively determine protein secondary structure

R. L. Jernigan, S. Saraswathi, J. L. Fernández-Martínez, 2013, Journal of Molecular Modeling.

Human telomerase model shows the role of the TEN domain in advancing the double helix for the next polymerization step

Benjamin A. Lewis, A. Kolinski, R. Jernigan, 2011, Proceedings of the National Academy of Sciences.

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

Sumudu P. Leelananda, A. Kolinski, R. Jernigan, 2011, Proteins.

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

Aleksandra E. Badaczewska-Dawid, A. Kolinski, A. Kloczkowski, 2018, International journal of molecular sciences.

The energy profiles of atomic conformational transition intermediates of adenylate kinase

R. Jernigan, Lei Yang, A. Kloczkowski, 2009, Proteins.

Oligomerization of FVFLM peptides and their ability to inhibit beta amyloid peptides aggregation: consideration as a possible model.

A Kolinski, A. Kolinski, A. Kloczkowski, 2017, Physical chemistry chemical physics : PCCP.

Molecular modeling of phosphorylation sites in proteins using a database of local structure segments

Dariusz Plewczynski, Leszek Rychlewski, Andrzej Kloczkowski, 2005, Journal of molecular modeling.

Combining statistical potentials with dynamics-based entropies improves selection from protein decoys and docking poses.

Andrzej Kloczkowski, Robert L Jernigan, Sumudu P Leelananda, 2012, The journal of physical chemistry. B.

Distance matrix-based approach to protein structure prediction

Andrzej Kloczkowski, Robert L. Jernigan, Guang Song, 2009, Journal of Structural and Functional Genomics.

Fast and Accurate Accessible Surface Area Prediction Without a Sequence Profile.

Yaoqi Zhou, A. Kloczkowski, M. Kouza, 2017, Methods in molecular biology.

Chapter 10 Fast and Accurate Accessible Surface Area Prediction Without a Sequence Profi le

Yaoqi Zhou, A. Kloczkowski, M. Kouza, 2016 .

Protein Secondary Structure Assignments and Their Usefulness for Dihedral Angle Prediction

A. Kloczkowski, E. Faraggi, 2018, Springer Series on Bio- and Neurosystems.

Accurate Prediction of One-Dimensional Protein Structure Features Using SPINE-X.

Andrzej Kloczkowski, Eshel Faraggi, A. Kloczkowski, 2017, Methods in molecular biology.

Protein secondary structure prediction based on the GOR algorithm incorporating multiple sequence alignment information

Andrzej Kloczkowski, Robert L. Jernigan, J. Garnier, 2002 .

Combinin gth eGO RV Algorith mWit hEvolutionary Informatio nfo rProtei nSecondar yStructur ePrediction Fro mAmin oAci dSequence

R. Jernigan, A. Kloczkowski, K. Ting, 2002 .

Use of machine learning algorithms to classify binary protein sequences as highly-designable or poorly-designable

Vasant Honavar, Andrzej Kloczkowski, Robert L. Jernigan, 2008, BMC Bioinformatics.

Exploration of the relationship between topology and designability of conformations.

Sumudu P. Leelananda, R. Jernigan, A. Kloczkowski, 2011, The Journal of chemical physics.

Efficient method to count and generate compact protein lattice conformations

R. Jernigan, A. Kloczkowski, 1997 .

Generation and enumeration of compact conformations on the two-dimensional triangular and three-dimensional fcc lattices.

Taner Z Sen, Andrzej Kloczkowski, Robert L Jernigan, 2007, The Journal of chemical physics.

The ribosome structure controls and directs mRNA entry, translocation and exit dynamics

R. Jernigan, A. Kloczkowski, P. Doruker, 2008, Physical biology.

The importance of slow motions for protein functional loops

Sumudu P. Leelananda, Ataur R. Katebi, R. Jernigan, 2012, Physical biology.

Statistical Contact Potentials in Protein Coarse-Grained Modeling: From Pair to Multi-body Potentials

Sumudu P. Leelananda, R. Jernigan, P. Gniewek, 2011 .

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

Enrique J. deAndrés-Galiana, A. Kloczkowski, J. Fernández-Martínez, 2020, International journal of molecular sciences.

Title Multi-class BCGA-ELM based classifier that identifiesbiomarkers associated with hallmarks of cancer

S. Suresh, A. Kloczkowski, S. Saraswathi, 2018 .

Computational testing of protein-protein interactions

Ataur R. Katebi, A. Kloczkowski, Robert L. Jeringan, 2009, 2009 IEEE International Conference on Bioinformatics and Biomedicine Workshop.

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

A. Kloczkowski, Mubashir Hassan, Muhammad Jamal, 2022, International journal of molecular sciences.

Exploration of Potential Ewing Sarcoma Drugs from FDA-Approved Pharmaceuticals through Computational Drug Repositioning, Pharmacogenomics, Molecular Docking, and MD Simulation Studies

A. Kloczkowski, Mubashir Hassan, S. Shahzadi, 2022, ACS omega.

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

Andrew D. Johnson, Ryan M. Smith, W. Sadee, 2015, BMC Genomics.

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

J. E. Mark, A. Kloczkowski, T. Sen, 2007 .

Comparing NMR and X-ray protein structure: Lindemann-like parameters and NMR disorder

A. Dunker, J. Sussman, A. Kloczkowski, 2018, Journal of biomolecular structure & dynamics.

Immunoglobulin Structure Exhibits Control over CDR Motion

R. Jernigan, A. Kloczkowski, Michael T. Zimmermann, 2014, Immunome research.

In Silico Modeling of Human α2C-Adrenoreceptor Interaction with Filamin-2

Andrzej Kloczkowski, Saras Saraswathi, Marcin Pawlowski, 2014, PloS one.

Analysis of transcriptomic responses to SARS-CoV-2 reveals plausible defective pathways responsible for increased susceptibility to infection and complications and helps to develop fast-track repositioning of drugs against COVID-19

Enrique J. deAndrés-Galiana, A. Kloczkowski, J. Fernández-Martínez, 2022, Computers in Biology and Medicine.

Explicit-Solvent All-Atom Molecular Dynamics of Peptide Aggregation

A. Kolinski, A. Kloczkowski, M. Kouza, 2018, Springer Series on Bio- and Neurosystems.

The relaxation spectrum for Gaussian networks

J. E. Mark, H. Frisch, A. Kloczkowski, 1990 .

On the stability of the isotropic phase towards nematic and smectic A formation

A. Kloczkowski, J. Stecki, 1981 .

Therapeutic Implications of microRNAs in Depressive Disorders: A Review

A. Kloczkowski, Mubashir Hassan, S. Shahzadi, 2022, International journal of molecular sciences.

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

J. E. Mark, A. Kloczkowski, Aris Skliros, 2009 .

Mechanical properties and transition temperatures of crosslinked-oriented gelatin

J. E. Mark, I. Bahar, A. Kloczkowski, 1997 .

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

A. Kloczkowski, Mubashir Hassan, Song-Ja Kim, 2022, International journal of molecular sciences.

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

Enrique J. deAndrés-Galiana, A. Kloczkowski, J. Fernández-Martínez, 2022, International journal of molecular sciences.

Magnetic, Piezoelectric, Pyroelectric, and Ferroelectric Properties of Synthetic and Biological Polymers

A. Kloczkowski, T. Sen, 2007 .

The transfer matrix method for lattice proteins—an application with cooperative interactions

R. Jernigan, A. Kloczkowski, T. Sen, 2004 .

Exploration of Flavonoids as Lead Compounds against Ewing Sarcoma through Molecular Docking, Pharmacogenomics Analysis, and Molecular Dynamics Simulations

A. Kloczkowski, Mubashir Hassan, Jin-Hee Han, 2023, Molecules.

Detection of onset of Alzheimer's disease from MRI images using a GA-ELM-PSO classifier

Andrzej Kloczkowski, Sundaram Suresh, N. Sundararajan, 2013, 2013 Fourth International Workshop on Computational Intelligence in Medical Imaging (CIMI).

Tyrosinase Inhibitors Naturally Present in Plants and Synthetic Modifications of These Natural Products as Anti-Melanogenic Agents: A Review

A. Kloczkowski, Mubashir Hassan, S. Shahzadi, 2023, Molecules.

Ultrasonic-Assisted Synthesis of Benzofuran Appended Oxadiazole Molecules as Tyrosinase Inhibitors: Mechanistic Approach through Enzyme Inhibition, Molecular Docking, Chemoinformatics, ADMET and Drug-Likeness Studies

A. Kloczkowski, Mubashir Hassan, A. F. Zahoor, 2022, International journal of molecular sciences.

Part V Nanocomposites: Modeling: Some Monte Carlo Simulations on Nanoparticle Reinforcement of Elastomers

J. E. Mark, A. Kloczkowski, T. Sen, 2009 .

Filler-induced deformations of amorphous polyethylene chains. The effects of the deformations on elastomeric properties, and some comparisons with experiments

J. E. Mark, K. Jacob, A. Kloczkowski, 2006 .

Modeling the elastomeric properties of stereoregular polypropylenes in nanocomposites with spherical fillers

J. E. Mark, A. Kloczkowski, T. Sen, 2005 .

Combining the GOR V algorithm with evolutionary information for protein secondary structure prediction from amino acid sequence

K-L Ting, A Kloczkowski, R L Jernigan, 2002, Proteins.

Make tough plastic films from gelatin

J. E. Mark, I. Bahar, B. Erman, 1996 .

A closed form solution for the internal dynamics of polymer chains. I. Bonds with independent rotational potentials

J. E. Mark, I. Bahar, B. Erman, 1990 .

Prediction of Site Directed miRNAs as Key Players of Transcriptional Regulators Against Influenza C Virus Infection Through Computational Approaches

A. Kloczkowski, Mubashir Hassan, H. Alashwal, 2022, Frontiers in Molecular Biosciences.

Prediction of Protein Tertiary Structure via Regularized Template Classification Techniques

Andrzej Kloczkowski, Óscar Álvarez-Machancoses, Juan Luis Fernández-Martínez, 2020, Molecules.

A novel orientation technique for semi-rigid polymers. 1. Preparation of cross-linked cellulose acetate and hydroxypropylcellulose films having permanent anisotropy in the swollen state

J. E. Mark, B. Erman, A. Kloczkowski, 1994 .

Novel orientation techniques for the preparation of high-performance materials from semi-flexible polymers such as the cellulosics

J. E. Mark, I. Bahar, A. Kloczkowski, 1992 .

Application of statistical mechanics to the analysis of various physical properties of elastomeric networks: a review

A. Kloczkowski, 2002 .

Isotropic-nematic phase transitions in polymer networks deformed in the dry and swollen states

J. E. Mark, I. Bahar, B. Erman, 1992 .

Functional clustering of yeast proteins from the protein-protein interaction network

Andrzej Kloczkowski, Robert L. Jernigan, Taner Z. Sen, 2006, BMC Bioinformatics.

Theoretical Models and Simulations of Polymer Chains

A. Kolinski, A. Kloczkowski, 2007 .

Robust Prediction of Single and Multiple Point Protein Mutations Stability Changes

Andrzej Kloczkowski, Óscar Álvarez-Machancoses, Enrique J De Andrés-Galiana, 2019, Biomolecules.

A Diffused-Constraint Theory for the Elasticity of Amorphous Polymer Networks. 1. Fundamentals and Stress-Strain Isotherms in Elongation

Andrzej Kloczkowski, Burak Erman, J. E. Mark, 1995 .

Ideal amino acid exchange forms for approximating substitution matrices

Andrzej Kloczkowski, Robert L Jernigan, Andrzej Kolinski, 2007, Proteins.

GOR V server for protein secondary structure prediction

Andrzej Kloczkowski, Robert L. Jernigan, Taner Z. Sen, 2005, Bioinform..

DescribePROT: database of amino acid-level protein structure and function predictions

A Keith Dunker, Zoran Obradovic, Lukasz Kurgan, 2020, Nucleic Acids Res..

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

Yaoqi Zhou, Andrzej Kloczkowski, Eshel Faraggi, 2014, Proteins.

A molecular model for the smectic A phase

A. Kloczkowski, J. Stecki, 1985 .

Prediction of Protein Secondary Structure

Andrzej Kloczkowski, Yaoqi Zhou, Eshel Faraggi, 2017, Methods in Molecular Biology.

Immunoglobulin functional motions and their effects on the complementarity determining regions

Andrzej Kloczkowski, Robert L. Jernigan, Michael T. Zimmermann, 2010, BCB '10.

Fold-specific sequence scoring improves protein sequence matching

Andrzej Kloczkowski, Robert L. Jernigan, Sumudu P. Leelananda, 2016, BMC Bioinformatics.

Protein folds vs. protein folding: Differing questions, different challenges

Julie C. Mitchell, R. Nussinov, J. Skolnick, 2022, Proceedings of the National Academy of Sciences of the United States of America.

Support-vector-machine classification of linear functional motifs in proteins

Dariusz Plewczynski, Andrzej Kloczkowski, Adam Godzik, 2006, Journal of molecular modeling.

Molecular modeling of matrix chain deformation in nanofiber filled composites

J. E. Mark, K. Jacob, A. Kloczkowski, 2006 .

Cyclic AMP‐Rap1A signaling mediates cell surface translocation of microvascular smooth muscle α2Cadrenoceptors through the actin binding protein filamin‐2

A. Kloczkowski, M. Pawlowski, M. Chotani, 2013, American journal of physiology. Cell physiology.

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

Andrzej Kloczkowski, Marcin Pawlowski, Lukasz Kozlowski, 2016, Proteins.

Potentials 'R'Us web-server for protein energy estimations with coarse-grained knowledge-based potentials

Andrzej Kloczkowski, Robert L. Jernigan, Yaping Feng, 2010, BMC Bioinformatics.

Data Mining for Protein Secondary Structure Prediction

Haitao Cheng, Andrzej Kloczkowski, Robert L. Jernigan, 2009 .

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

Andrzej Kloczkowski, Robert L Jernigan, Andrzej Kolinski, 2012, Proteins.

GENN: a GEneral Neural Network for learning tabulated data with examples from protein structure prediction.

Andrzej Kloczkowski, Eshel Faraggi, A. Kloczkowski, 2015, Methods in molecular biology.

Predictive Mathematical Models of the Short-Term and Long-Term Growth of the COVID-19 Pandemic

A. Kloczkowski, Z. Fernández-Muñiz, J. Fernández-Martínez, 2021, Computational and mathematical methods in medicine.

COMPUTER SIMULATIONS ON FILLED ELASTOMERIC MATERIALS

J. E. Mark, A. Kloczkowski, M. A. Sharaf, 1994 .

Monte Carlo simulations on reinforcement of an elastomer by oriented prolate particles

Andrzej Kloczkowski, J. E. Mark, James E. Mark, 2001 .

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

Enrique J. deAndrés-Galiana, A. Kloczkowski, J. Fernández-Martínez, 2022, International journal of molecular sciences.

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

Taner Z Sen, Haitao Cheng, Andrzej Kloczkowski, 2006 .

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

J. I. Sulkowska, M. Cieplak, R. Jernigan, 2008, Proteins.

Freezing of the hard core Yukawa fluid

A. Kloczkowski, A. Samborski, 1988 .

On the mean spherical model for liquid crystals

A. Kloczkowski, J. Stecki, 1982 .

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

Haitao Cheng, Andrzej Kloczkowski, Robert L. Jernigan, 2007, Bioinform..

An analysis and evaluation of the WeFold collaborative for protein structure prediction and its pipelines in CASP11 and CASP12

Adam Liwo, Yi He, Jilong Li, 2018, Scientific Reports.

The GOR Method of Protein Secondary Structure Prediction and Its Application as a Protein Aggregation Prediction Tool.

Andrzej Kloczkowski, Andrzej Kolinski, Maksim Kouza, 2017, Methods in molecular biology.

Reoptimized UNRES Potential for Protein Model Quality Assessment

Adam Liwo, Andrzej Kloczkowski, Pawel Krupa, 2018, Genes.

A global machine learning based scoring function for protein structure prediction

Andrzej Kloczkowski, Eshel Faraggi, A. Kloczkowski, 2014, Proteins.

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

Juan Luis Fernández-Martínez, Andrzej Kloczkowski, Óscar Álvarez, 2019, Journal of Molecular Modeling.

Principal component analysis in protein tertiary structure prediction

Ana Cernea, Andrzej Kloczkowski, Zulima Fernández-Muñiz, 2018, J. Bioinform. Comput. Biol..

Particle Swarm Optimization: A Powerful Family of Stochastic Optimizers. Analysis, Design and Application to Inverse Modelling

Esperanza García Gonzalo, Andrzej Kloczkowski, Robert L. Jernigan, 2011, ICSI.

Mechanical properties and transition temperatures of cross-linked oriented gelatin

J. E. Mark, A. Kloczkowski, S. Fakirov, 1996 .

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

Andrzej Kloczkowski, Robert L Jernigan, Yaping Feng, 2008, Proteins.

The largest eigenvalue method for stereo-regular vinyl chains

A. Kloczkowski, T. Sen, M. Sharaf, 2005 .

Mechanistic insights into TNFR1/MADD death domains in Alzheimer’s disease through conformational molecular dynamic analysis

A. Moustafa, A. Kloczkowski, Mubashir Hassan, 2021, Scientific Reports.

Novel high-performance materials from starch. 1. Factors influencing the lyotropic liquid crystallinity of some starch ethers

J. E. Mark, B. Erman, A. Kloczkowski, 1998 .

Networks with Semi-Flexible Chains

J. E. Mark, I. Bahar, B. Erman, 1992 .

Biological and Cheminformatics Studies of Newly Designed Triazole Based Derivatives as Potent Inhibitors against Mushroom Tyrosinase

A. Kloczkowski, Mubashir Hassan, S. Shahzadi, 2022, Molecules.

Protein Tertiary Structure Prediction via SVD and PSO Sampling

Ana Cernea, Andrzej Kloczkowski, Juan Luis Fernández Martínez, 2018, IWBBIO.

Entropy, Fluctuations, and Disordered Proteins

Eshel Faraggi, Robert L. Jernigan, A. Keith Dunker, 2019, Entropy.

Theory of Strain-Induced Crystallization in Real Elastomeric Networks

J. E. Mark, B. Erman, A. Kloczkowski, 1992 .

Chain dimensions and fluctuations in random elastomeric networks. 2. Dependence of chain dimensions and fluctuations on macroscopic strain

J. E. Mark, B. Erman, A. Kloczkowski, 1989 .

Chain dimensions and fluctuations in random elastomeric networks. 1. Phantom Gaussian networks in the undeformed state

Andrzej Kloczkowski, Burak Erman, J. E. Mark, 1989 .

Fold-specific sequence scoring improves protein sequence matching

Sumudu P. Leelananda, R. Jernigan, A. Kloczkowski, 2016, BMC Bioinformatics.

Effects of protein subunits removal on the computed motions of partial 30S structures of the ribosome.

R. Jernigan, A. Kloczkowski, Yongmei Wang, 2008, Journal of chemical theory and computation.

Packing regularities in biological structures relate to their dynamics.

Andrzej Kloczkowski, Robert L Jernigan, R. Jernigan, 2007, Methods in molecular biology.

Synthesis and Molecular Docking Studies of Novel Biheterocyclic Propanamides as Antidiabetic Agents Having Mild Cytotoxicity

A. Kloczkowski, Mubashir Hassan, Aziz‐ur‐Rehman, 2023, ACS omega.

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

A. Kloczkowski, Mubashir Hassan, Jin-Hee Han, 2023, International journal of molecular sciences.

Loop Folds in Proteins and Evolutionary Conservation of Folding Nuclei

R. Jernigan, A. Kloczkowski, 2002, Journal of biomolecular structure & dynamics.

Contacts between segments in the random-flight model of polymer chains

R. Jernigan, A. Kloczkowski, 1999 .

TRANSFER MATRIX METHOD FOR ENUMERATION AND GENERATION OF COMPACT SELF-AVOIDING WALKS. II. CUBIC LATTICE

R. Jernigan, A. Kloczkowski, 1998 .

Computer generation and enumeration of compact self-avoiding walks within simple geometries on lattices

R. Jernigan, A. Kloczkowski, 1997 .

Synthesis and discovery of potential tyrosinase inhibitor of new coumarin‐based thiophenyl‐pyrazolylthiazole nuclei: In vitro evaluation, cytotoxicity, kinetic, and computational studies

A. Kloczkowski, Mubashir Hassan, N. H. Nasab, 2023, Chemical biology & drug design.

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

Andrzej Kloczkowski, Robert L Jernigan, Ivet Bahar, 2003, Proteins.

Inferring ideal amino acid interaction forms from statistical protein contact potentials

Andrzej Kloczkowski, Robert L Jernigan, Andrzej Kolinski, 2005, Proteins.

Effect of non-Gaussian chains on fluctuations of junctions in bimodal networks

J. E. Mark, B. Erman, A. Kloczkowski, 2002 .

On the Use of Principal Component Analysis and Particle Swarm Optimization in Protein Tertiary Structure Prediction

Ana Cernea, Andrzej Kloczkowski, Zulima Fernández-Muñiz, 2018, ICAISC.

Deciphering General Characteristics of Residues Constituting Allosteric Communication Paths

Maksim Kouza, Anirban Banerji, Girik Malik, 2017, IWBBIO.

Protein Promiscuity: Drug Resistance and Native Functions—HIV-1 Case

Andrzej Kloczkowski, Robert L. Jernigan, Taner Z. Sen, 2005, Journal of biomolecular structure & dynamics.

Structural interpretation of protein-protein interaction network

Andrzej Kloczkowski, Robert L Jernigan, Ataur R. Katebi, 2010, BMC Structural Biology.

Role of Resultant Dipole Moment in Mechanical Dissociation of Biological Complexes

Andrzej Kloczkowski, Andrzej Kolinski, Maksim Kouza, 2018, Molecules.

MAVENs: Motion analysis and visualization of elastic networks and structural ensembles

Andrzej Kloczkowski, Robert L. Jernigan, Michael T. Zimmermann, 2011, BMC Bioinformatics.

An Extreme Learning Machine Classifier for Prediction of Relative Solvent Accessibility in Proteins

Andrzej Kloczkowski, Robert L. Jernigan, Saras Saraswathi, 2016, IJCCI.

Characteristics of Protein Fold Space Exhibits Close Dependence on Domain Usage

Andrzej Kloczkowski, Robert L. Jernigan, Fadi Towfic, 2019, IWBBIO.

Predicting binding sites of hydrolase-inhibitor complexes by combining several methods

Vasant Honavar, Andrzej Kloczkowski, Robert L. Jernigan, 2004, BMC Bioinformatics.

The Extent of Cooperativity of Protein Motions Observed with Elastic Network Models Is Similar for Atomic and Coarser-Grained Models.

Taner Z Sen, Andrzej Kloczkowski, Robert L Jernigan, 2006, Journal of chemical theory and computation.

Immunological implications of a structural analysis of two different porcine IL1β proteins expressed in macrophages and embryos

Andrzej Kloczkowski, Robert L. Jernigan, Michael T. Zimmermann, 2010, BCB '10.

P.R.E.S.S. — An R-package for exploring residual-level protein structural statistics

Andrzej Kloczkowski, Robert L. Jernigan, Yuanyuan Huang, 2011, 2011 IEEE International Conference on Bioinformatics and Biomedicine Workshops (BIBMW).

Statistical measures on residue-level protein structural properties

Andrzej Kloczkowski, Zhijun Wu, Zhi-jun Wu, 2011, Journal of Structural and Functional Genomics.

Use of machine learning algorithms to classify binary protein sequences as highly-designable or poorly-designable.

Vasant G Honavar, R. Jernigan, Myron Peto, 2008, BMC bioinformatics.

Shape-dependent designability studies of lattice proteins

R. Jernigan, Myron Peto, A. Kloczkowski, 2007, Journal of physics. Condensed matter : an Institute of Physics journal.

A Hybrid Levenberg-Marquardt Algorithm on a Recursive Neural Network for Scoring Protein Models

Andrzej Kloczkowski, Robert L Jernigan, Eshel Faraggi, 2020, Artificial Neural Networks, 3rd Edition.

A topological order parameter for describing folding free energy landscapes of proteins.

A. Kloczkowski, M. Kouza, Pham Dang Lan, 2018, The Journal of chemical physics.

Sulfatase 2 Is Associated with Steroid Resistance in Childhood Nephrotic Syndrome

S. Agrawal, W. Sadee, A. Kloczkowski, 2021, Journal of clinical medicine.

The Utilization of Different Classifiers to Perform Drug Repositioning in Inclusion Body Myositis Supports the Concept of Biological Invariance

Enrique J. deAndrés-Galiana, Andrzej Kloczkowski, Juan Luis Fernández Martínez, 2020, ICAISC.

Deep neural networks for phenotype prediction in rare diseases

Enrique J. deAndrés-Galiana, Ana Cernea, Juan Luis Fernández-Martínez, 2020 .

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

Andrzej Kloczkowski, Dominik Gront, Andrzej Kolinski, 2014, BMC Bioinformatics.

GOR V server for protein secondary structure prediction

R. Jernigan, A. Kloczkowski, T. Sen, 2005, Bioinform..

Design and synthesis of thiadiazole-oxadiazole-acetamide derivatives: Elastase inhibition, cytotoxicity, kinetic mechanism, and computational studies.

A. Kloczkowski, Mubashir Hassan, Narges Hosseini Nasab, 2023, Bioorganic & medicinal chemistry.

Design, synthesis, and in vitro and in silico studies of 1,3,4-thiadiazole-thiazolidinone hybrids as carbonic anhydrase inhibitors

A. Kloczkowski, Mubashir Hassan, Narges Hosseini Nasab, 2023, New Journal of Chemistry.

A facile green synthesis of 3,4-dihydropyrimidin-2(1H)-ones using cysteine as a bio-organic catalyst: Potent urease inhibitors, in vitro evaluation, kinetic mechanism, and molecular docking studies

A. Kloczkowski, Mubashir Hassan, N. H. Nasab, 2023, Journal of Molecular Structure.

Experimental Studies of Elastomeric and Optical Properties, and Strain-Induced Liquid-Crystalline Phase Transitions, in Deformed (Hydroxypropyl)cellulose Networks in the Swollen State

J. E. Mark, I. Bahar, B. Erman, 1995 .

Oriented Gelatin—A New Source for High-Performance Materials

J. E. Mark, I. Bahar, B. Erman, 1996 .

Comment on: Statistical mechanics of rubber elasticity

J. E. Mark, B. Erman, B. Eichinger, 1991 .

A simple model for protection against environmental pollution in reactive coating films

H. Frisch, A. Kloczkowski, 1984 .

Accessible surface area of proteins from purely sequence information and the importance of global features

Yaoqi Zhou, Eshel Faraggi, Andrzej Kloczkowski, 2014 .

Exploration of Designability of Proteins Using Graph Features of Contact Maps: Beyond Lattice Models

Andrzej Kloczkowski, Robert L. Jernigan, Sumudu P. Leelananda, 2015, Annual International Conference on Research in Computational Molecular Biology.

Models to Approximate the Motions of Protein Loops.

Robert L Jernigan, Andrzej Kloczkowski, Aris Skliros, 2010, Journal of chemical theory and computation.

Chain dimensions and fluctuations in elastomeric networks in which the junctions alternate regularly in their functionality.

J. E. Mark, A. Kloczkowski, Aris Skliros, 2009, The Journal of chemical physics.

ON THE STABILITY OF THE ORIENTATIONAL DISTRIBUTION OF MOLECULES

A. Kloczkowski, J. Stecki, 1979 .

A visual representation for the shapes of flexible mesogenic molecules

G. R. Luckhurst, A. Kloczkowski, R. Phippen, 1988 .

On the tricritical points in the McMillan model of liquid crystals

A. Kloczkowski, J. Stecki, 1985 .

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

R. Jernigan, A. Kloczkowski, T. Sen, 2006, Protein science : a publication of the Protein Society.

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

Andrzej Kloczkowski, Yaping Feng, R. Jernigan, 2007, Proteins.

Free energies for coarse-grained proteins by integrating multibody statistical contact potentials with entropies from elastic network models

Andrzej Kloczkowski, Robert L. Jernigan, Sumudu P. Leelananda, 2011, Journal of Structural and Functional Genomics.

P.R.E.S.S. — An R-package for exploring residual-level protein structural statistics

R. Jernigan, A. Kloczkowski, Yuanyuan Huang, 2011, 2011 IEEE International Conference on Bioinformatics and Biomedicine Workshops (BIBMW).

Predicting binding sites of hydrolase-inhibitor complexes by combining several methods

Vasant G Honavar, X. Gu, Changhui Yan, 2004, BMC Bioinformatics.

On the Relationship between Aggregation Rate and Mechanical Stability in Protein Aggregation

A. Kolinski, A. Kloczkowski, M. Kouza, 2019, Biophysical Journal.

Kinetics and mechanical stability of the fibril state control fibril formation time of polypeptide chains: A computational study.

Andrzej Kloczkowski, Andrzej Kolinski, Sebastian Kmiecik, 2018, The Journal of chemical physics.

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

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