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1

Repurposing FDA-approved drugs for anti-aging therapies

Snell, Terry W., Johnston, Rachel K., Srinivasan, Bharath, Zhou, Hongyi, Gao, Mu, Skolnick, Jeffrey

Journal:

Year:

2016

Language:

english

File:

PDF, 1.25 MB

english, 2016

2

The Endocrinopathies of Male Anorexia Nervosa: Case Series

Skolnick, Aren, Schulman, Rifka C., Galindo, Rodolfo J., Mechanick, Jeffrey I.

Journal:

AACE Clinical Case Reports

Year:

2016

Language:

english

File:

PDF, 409 KB

english, 2016

3

Brain activity patterns in high-throughput electrophysiology screen predict both drug efficacies and side effects

Eimon, Peter M., Ghannad-Rezaie, Mostafa, De Rienzo, Gianluca, Allalou, Amin, Wu, Yuelong, Gao, Mu, Roy, Ambrish, Skolnick, Jeffrey, Yanik, Mehmet Fatih

Journal:

Nature Communications

Year:

2018

Language:

english

File:

PDF, 1.60 MB

english, 2018

4

Repurposed FDA-approved drugs targeting genes influencing aging can extend lifespan and healthspan in rotifers

Snell, Terry W., Johnston, Rachel K., Matthews, Amelia B., Zhou, Hongyi, Gao, Mu, Skolnick, Jeffrey

Journal:

Year:

2018

Language:

english

File:

PDF, 2.52 MB

english, 2018

5

Scoring function for automated assessment of protein structure template quality

Yang Zhang, Jeffrey Skolnick

Journal:

Proteins: Structure, Function, and Bioinformatics

Year:

2004

Language:

english

File:

PDF, 215 KB

english, 2004

6

Protein model quality assessment prediction by combining fragment comparisons and a consensus Cα contact potential

Hongyi Zhou, Jeffrey Skolnick

Journal:

Proteins: Structure, Function, and Bioinformatics

Year:

2008

Language:

english

File:

PDF, 198 KB

english, 2008

7

Aerobic uranium (VI) bioprecipitation by metal-resistant bacteria isolated from radionuclide- and metal-contaminated subsurface soils

Robert J. Martinez, Melanie J. Beazley, Martial Taillefert, Adrian K. Arakaki, Jeffrey Skolnick, Patricia A. Sobecky

Journal:

Environmental Microbiology

Year:

2007

Language:

english

File:

PDF, 403 KB

english, 2007

8

Aerobic uranium (VI) bioprecipitation by metal-resistant bacteria isolated from radionuclide- and metal-contaminated subsurface soils

Robert J. Martinez, Melanie J. Beazley, Martial Taillefert, Adrian K. Arakaki, Jeffrey Skolnick, Patricia A. Sobecky

Journal:

Environmental Microbiology

Year:

2008

Language:

english

File:

PDF, 22 KB

english, 2008

9

Protein fragment reconstruction using various modeling techniques

Michal Boniecki, Piotr Rotkiewicz, Jeffrey Skolnick, Andrzej Kolinski

Journal:

Journal of Computer-Aided Molecular Design

Year:

2003

Language:

english

File:

PDF, 398 KB

english, 2003

10

What is the probability of a chance prediction of a protein structure with an rmsd of 6 å?

Boris A Reva, Alexei V Finkelstein, Jeffrey Skolnick

Journal:

Folding and Design

Year:

1998

Language:

english

File:

PDF, 118 KB

english, 1998

11

Ab initio protein structure prediction via a combination of threading, lattice folding, clustering, and structure refinement

Jeffrey Skolnick, Andrzej Kolinski, Daisuke Kihara, Marcos Betancourt, Piotr Rotkiewicz, Michal Boniecki

Journal:

Proteins: Structure, Function, and Bioinformatics

Year:

2001

Language:

english

File:

PDF, 550 KB

english, 2001

12

Interaction of barbiturates with benzodiazepine receptors in the central nervous system

Phil Skolnick, Kenner C. Rice, Jeffrey L. Barker, Steven M. Paul

Journal:

Year:

1982

Language:

english

File:

PDF, 895 KB

english, 1982

13

FINDSITE X : A Structure-Based, Small Molecule Virtual Screening Approach with Application to All Identified Human GPCRs

Zhou, Hongyi, Skolnick, Jeffrey

Journal:

Molecular Pharmaceutics

Year:

2012

Language:

english

File:

PDF, 577 KB

english, 2012

14

A Comprehensive Survey of Small-Molecule Binding Pockets in Proteins

Gao, Mu, Skolnick, Jeffrey, Singh, Mona

Journal:

PLoS Computational Biology

Year:

2013

Language:

english

File:

PDF, 6.69 MB

english, 2013

15

Metabolomics identifies the intersection of phosphoethanolamine with menaquinone-triggered apoptosis in an in vitro model of leukemia

Dhakshinamoorthy, Suganthagunthalam, Dinh, Nha-Truc, Skolnick, Jeffrey, Styczynski, Mark P.

Journal:

Molecular BioSystems

Year:

2015

Language:

english

File:

PDF, 2.27 MB

english, 2015

16

Failed trials for central nervous system disorders do not necessarily invalidate preclinical models and drug targets

Bespalov, Anton, Steckler, Thomas, Altevogt, Bruce, Koustova, Elena, Skolnick, Phil, Deaver, Daniel, Millan, Mark J., Bastlund, Jesper F., Doller, Dario, Witkin, Jeffrey, Moser, Paul, O'Donnell, Patri

Journal:

Nature Reviews Drug Discovery

Year:

2016

Language:

english

File:

PDF, 177 KB

english, 2016

17

[WORLD SCIENTIFIC From Quantum Information to Bio-Informatics - Tokyo University of Science, Japan (11 – 14 March 2009)] Quantum Bio-Informatics III - NOVEL COMPUTATIONAL APPROACHES TO DRUG DISCOVERY

SKOLNICK, JEFFREY, BRYLINSKI, MICHAL

Language:

english

File:

PDF, 1.66 MB

english

18

A novel sequence alignment algorithm based on deep learning of the protein folding code

Gao, Mu, Skolnick, Jeffrey, Elofsson, Arne

Journal:

Year:

2020

File:

PDF, 683 KB

2020

19

Algorithm for rapid reconstruction of protein backbone from alpha carbon coordinates

Milik, Mariusz, Kolinski, Andrzej, Skolnick, Jeffrey

Journal:

Journal of Computational Chemistry

Year:

1997

Language:

english

File:

PDF, 244 KB

english, 1997

20

Folding simulations and computer redesign of protein A three-helix bundle motifs

Krzysztof A. Olszewski, Andrzej Kolinski, Jeffrey Skolnick

Journal:

Proteins: Structure, Function, and Bioinformatics

Year:

1996

Language:

english

File:

PDF, 1.50 MB

english, 1996

21

On the origin of the cooperativity of protein folding: Implications from model simulations

Kolinski, Andrzej, Galazka, Wojciech, Skolnick, Jeffrey

Journal:

Proteins: Structure, Function, and Bioinformatics

Year:

1996

Language:

english

File:

PDF, 1.46 MB

english, 1996

22

A method for the prediction of surface “U”-turns and transglobular connections in small proteins

Andrzej Kolinski, Jeffrey Skolnick, Adam Godzik, Wei-Ping Hu

Journal:

Proteins: Structure, Function, and Bioinformatics

Year:

1997

Language:

english

File:

PDF, 341 KB

english, 1997

23

Improved method for prediction of protein backbone U-turn positions and major secondary structural elements between U-turns

Wei-Ping Hu, Andrzej Kolinski, Jeffrey Skolnick

Journal:

Proteins: Structure, Function, and Bioinformatics

Year:

1997

Language:

english

File:

PDF, 257 KB

english, 1997

24

Tertiary structure prediction of the KIX domain of CBP using Monte Carlo simulations driven by restraints derived from multiple sequence alignments

Angel R. Ortiz, Andrzej Kolinski, Jeffrey Skolnick

Journal:

Proteins: Structure, Function, and Bioinformatics

Year:

1998

Language:

english

File:

PDF, 274 KB

english, 1998

25

Assembly of protein structure from sparse experimental data: An efficient Monte Carlo model

Andrzej Kolinski, Jeffrey Skolnick

Journal:

Proteins: Structure, Function, and Bioinformatics

Year:

1998

Language:

english

File:

PDF, 302 KB

english, 1998

26

Ab initio folding of proteins using restraints derived from evolutionary information

Angel R. Ortiz, Andrzej Kolinski, Piotr Rotkiewicz, Bartosz Ilkowski, Jeffrey Skolnick

Journal:

Proteins: Structure, Function, and Bioinformatics

Year:

1999

Language:

english

File:

PDF, 432 KB

english, 1999

27

Averaging interaction energies over homologs improves protein fold recognition in gapless threading

Boris A. Reva, Jeffrey Skolnick, Alexei V. Finkelstein

Journal:

Proteins: Structure, Function, and Bioinformatics

Year:

1999

Language:

english

File:

PDF, 67 KB

english, 1999

28

Correlation between knowledge-based and detailed atomic potentials: Application to the unfolding of the GCN4 leucine zipper

Debasisa Mohanty, Brian N. Dominy, Andrzej Kolinski, Charles L. Brooks III, Jeffrey Skolnick

Journal:

Proteins: Structure, Function, and Bioinformatics

Year:

1999

Language:

english

File:

PDF, 107 KB

english, 1999

29

A method for the improvement of threading-based protein models

Andrzej Kolinski, Piotr Rotkiewicz, Bartosz Ilkowski, Jeffrey Skolnick

Journal:

Proteins: Structure, Function, and Bioinformatics

Year:

1999

Language:

english

File:

PDF, 627 KB

english, 1999

30

Derivation of protein-specific pair potentials based on weak sequence fragment similarity

Jeffrey Skolnick, Andrzej Kolinski, Angel Ortiz

Journal:

Proteins: Structure, Function, and Bioinformatics

Year:

2000

Language:

english

File:

PDF, 156 KB

english, 2000

31

Computer simulations of the properties of the α2, α2C, and α2D de novo designed helical proteins

Andrzej Sikorski, Andrzej Kolinski, Jeffrey Skolnick

Journal:

Proteins: Structure, Function, and Bioinformatics

Year:

2000

Language:

english

File:

PDF, 286 KB

english, 2000

32

De novo predictions of the quaternary structure of leucine zippers and other coiled coils

Jeffrey Skolnick, Andrzej Kolinski, Debasisa Mohanty

Journal:

International Journal of Quantum Chemistry

Year:

1999

Language:

english

File:

PDF, 200 KB

english, 1999

33

Finding the needle in a haystack: educing native folds from ambiguous ab initio protein structure predictions

Marcos R. Betancourt, Jeffrey Skolnick

Journal:

Journal of Computational Chemistry

Year:

2001

Language:

english

File:

PDF, 358 KB

english, 2001

34

Accurate reconstruction of all-atom protein representations from side-chain-based low-resolution models

Michael Feig, Piotr Rotkiewicz, Andrzej Kolinski, Jeffrey Skolnick, Charles L. Brooks III

Journal:

Proteins: Structure, Function, and Bioinformatics

Year:

2000

Language:

english

File:

PDF, 305 KB

english, 2000

35

Defrosting the frozen approximation: PROSPECTOR— A new approach to threading

Jeffrey Skolnick, Daisuke Kihara

Journal:

Proteins: Structure, Function, and Bioinformatics

Year:

2001

Language:

english

File:

PDF, 155 KB

english, 2001

36

Universal similarity measure for comparing protein structures

Marcos R. Betancourt, Jeffrey Skolnick

Journal:

Year:

2001

Language:

english

File:

PDF, 79 KB

english, 2001

37

Helix-coil and beta sheet-coil transitions in a simplified, yet realistic protein model

Bartosz Ilkowski, Jeffrey Skolnick, Andrzej Kolinski

Journal:

Macromolecular Theory and Simulations

Year:

2000

Language:

english

File:

PDF, 207 KB

english, 2000

38

A simple lattice model that exhibits a protein-like cooperative all-or-none folding transition

Andrzej Kolinski, Dominik Gront, Piotr Pokarowski, Jeffrey Skolnick

Journal:

Year:

2003

Language:

english

File:

PDF, 180 KB

english, 2003

39

Use of residual dipolar couplings as restraints in ab initio protein structure prediction

Turkan Haliloglu, Andrzej Kolinski, Jeffrey Skolnick

Journal:

Year:

2003

Language:

english

File:

PDF, 1.74 MB

english, 2003

40

Application of statistical potentials to protein structure refinement from low resolution ab initio models

Hui Lu, Jeffrey Skolnick

Journal:

Year:

2003

Language:

english

File:

PDF, 203 KB

english, 2003

41

Monte carlo studies on equilibrium globular protein folding. I. Homopolymeric lattice models of β-barrel proteins

Andrzej Kolinski, Jeffrey Skolnick, Robert Yaris

Journal:

Year:

1987

Language:

english

File:

PDF, 1.26 MB

english, 1987

42

Application of the augmented theory of α-helix-to-random-coil transitions of two-chain, coiled coils to extant data on synthetic, tropomyosin-analog peptides

Alfred Holtzer, Jeffrey Skolnick

Journal:

Year:

1988

Language:

english

File:

PDF, 644 KB

english, 1988

43

Monte carlo studies on equilibrium globular protein folding. II. β-barrel globular protein models

Jeffrey Skolnick, Andrzej Kolinski, Robert Yaris

Journal:

Year:

1989

Language:

english

File:

PDF, 1.81 MB

english, 1989

44

Monte carlo studies on equilibrium globular protein folding. III. The four helix bundle

Andrzej Sikorski, Jeffrey Skolnick

Journal:

Year:

1989

Language:

english

File:

PDF, 874 KB

english, 1989

45

Docking of small ligands to low-resolution and theoretically predicted receptor structures

Marek Wojciechowski, Jeffrey Skolnick

Journal:

Journal of Computational Chemistry

Year:

2002

Language:

english

File:

PDF, 873 KB

english, 2002

46

SPICKER: A clustering approach to identify near-native protein folds

Yang Zhang, Jeffrey Skolnick

Journal:

Journal of Computational Chemistry

Year:

2004

Language:

english

File:

PDF, 305 KB

english, 2004

47

A scoring function for docking ligands to low-resolution protein structures

Eckart Bindewald, Jeffrey Skolnick

Journal:

Journal of Computational Chemistry

Year:

2005

Language:

english

File:

PDF, 178 KB

english, 2005

48

Origin of intrinsic 310-helix versus strand stability in homopolypeptides and its implications for the accuracy of the Amber force field

Anna Jagielska, Jeffrey Skolnick

Journal:

Journal of Computational Chemistry

Year:

2007

Language:

english

File:

PDF, 208 KB

english, 2007

49

Can a physics-based, all-atom potential find a protein's native structure among misfolded structures? I. Large scale AMBER benchmarking

Liliana Wroblewska, Jeffrey Skolnick

Journal:

Journal of Computational Chemistry

Year:

2007

Language:

english

File:

PDF, 235 KB

english, 2007

50

Assessment of programs for ligand binding affinity prediction

Ryangguk Kim, Jeffrey Skolnick

Journal:

Journal of Computational Chemistry

Year:

2008

Language:

english

File:

PDF, 475 KB

english, 2008

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