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1

Folding Pathways of a Knotted Protein with a Realistic Atomistic Force Field

a Beccara, Silvio, Škrbić, Tatjana, Covino, Roberto, Micheletti, Cristian, Faccioli, Pietro, Jernigan, Robert L.

Journal:

PLoS Computational Biology

Year:

2013

Language:

english

File:

PDF, 1.02 MB

english, 2013

2

When is the Wilcoxon–Mann–Whitney procedure a test of location? Implications for effect‐size measures

Parker, Scott, Jernigan, Robert W., Lansky, Joshua M.

Journal:

British Journal of Mathematical and Statistical Psychology

Year:

2019

Language:

english

File:

PDF, 391 KB

english, 2019

3

Testing lumpability in Markov chains

Robert W. Jernigan, Robert H. Baran

Journal:

Statistics & Probability Letters

Year:

2003

Language:

english

File:

PDF, 203 KB

english, 2003

4

The neuropathology of developmental dysphasia: Behavioral, morphological, and physiological evidence for a pervasive temporal processing disorder

Paula Tallal, Robert L. Sainburg, Terry Jernigan

Journal:

Reading and Writing

Year:

1991

Language:

english

File:

PDF, 1.10 MB

english, 1991

5

A Useful Display of a Normal Population

ROBERT W. JERNIGAN

Journal:

Teaching Statistics

Year:

1981

Language:

english

File:

PDF, 196 KB

english, 1981

6

Loop Folds in Proteins and Evolutionary Conservation of Folding Nuclei

Kloczkowski, Andrzej, Jernigan, Robert L.

Journal:

Journal of Biomolecular Structure and Dynamics

Year:

2002

Language:

english

File:

PDF, 239 KB

english, 2002

7

Testing the equality of correlation matrices

Modarres, Reza, Jernigan, Robert W.

Journal:

Communication in Statistics- Theory and Methods

Year:

1992

Language:

english

File:

PDF, 536 KB

english, 1992

8

Experimental and Theoretical Protein Folding

Jernigan, Robert, Davies, David, Scheraga, Harold

Journal:

Journal of Biomolecular Structure and Dynamics

Year:

1989

Language:

english

File:

PDF, 315 KB

english, 1989

9

Soft Tissue Masses for the General Orthopedic Surgeon

Jernigan, Edward W., Esther, Robert J.

Journal:

Orthopedic Clinics of North America

Year:

2015

Language:

english

File:

PDF, 1.04 MB

english, 2015

10

Protein stability for single substitution mutants and the extent of local compactness in the denatured state

Miyazawa, Sanzo, Jernigan, Robert L.

Journal:

Protein Engineering Design and Selection

Year:

1994

Language:

english

File:

PDF, 2.61 MB

english, 1994

11

Lifestyle and Weight Management Counseling in Uterine Cancer Survivors

Tseng, Jill H., Long Roche, Kara, Jernigan, Amelia M., Salani, Ritu, Bristow, Robert E., Fader, Amanda Nickles

Journal:

International Journal of Gynecological Cancer

Year:

2015

Language:

english

File:

PDF, 199 KB

english, 2015

12

SPIE Proceedings [SPIE OE LASE'87 and EO Imaging Symp (January 1987, Los Angeles) - Los Angeles, CA (Monday 12 January 1987)] Acousto-Optic, Electro-Optic, & Magneto-Optic Devices & Applications - Time Delay Detection Utilizing A Bragg Cell In A Joint Transform Correlator

Jernigan, James L., Giles, Michael K., Boughton, Robert S., Lucero, John A.

Year:

1987

Language:

english

File:

PDF, 1.65 MB

english, 1987

13

Understanding the recognition of protein structural classes by amino acid composition

Ivet Bahar, Ali Rana Atilgan, Robert L. Jernigan, Burak Erman

Journal:

Proteins: Structure, Function, and Bioinformatics

Year:

1997

Language:

english

File:

PDF, 181 KB

english, 1997

14

Self-consistent estimation of inter-residue protein contact energies based on an equilibrium mixture approximation of residues

Sanzo Miyazawa, Robert L. Jernigan

Journal:

Proteins: Structure, Function, and Bioinformatics

Year:

1999

Language:

english

File:

PDF, 273 KB

english, 1999

15

An empirical energy potential with a reference state for protein fold and sequence recognition

Sanzo Miyazawa, Robert L. Jernigan

Journal:

Proteins: Structure, Function, and Bioinformatics

Year:

1999

Language:

english

File:

PDF, 147 KB

english, 1999

16

Evaluation of short-range interactions as secondary structure energies for protein fold and sequence recognition

Sanzo Miyazawa, Robert L. Jernigan

Journal:

Proteins: Structure, Function, and Bioinformatics

Year:

1999

Language:

english

File:

PDF, 142 KB

english, 1999

17

Prediction of β-sheets in immunoglobulin chains. Comparison of various methods and an expanded 20 × 20 table for evaluation of the effects of nearest-neighbors on conformations of middle amino acids in proteins

Tai Te Wu, Shousun C. Szu, Robert L. Jernigan, Howard Bilofsky, Elvin A. Kabat

Journal:

Year:

1978

Language:

english

File:

PDF, 1.00 MB

english, 1978

18

DNA conformational kinetics

Shousun C. Szu, Robert L. Jernigan

Journal:

Year:

1979

Language:

english

File:

PDF, 800 KB

english, 1979

19

Composite predictions of secondary structures of lac repressor

Suzanne Bourgeois, Robert L. Jernigan, Shousun C. Szu, Elvin A. Kabat, Tai Te Wu

Journal:

Year:

1979

Language:

english

File:

PDF, 863 KB

english, 1979

20

Equilibrium folding–unfolding pathways of model proteins: Effect of myoglobin–heme contacts

Robert L. Jernigan, Sanzo Miyazawa

Journal:

Year:

1983

Language:

english

File:

PDF, 444 KB

english, 1983

21

Dynamics of large proteins through hierarchical levels of coarse-grained structures

Pemra Doruker, Robert L. Jernigan, Ivet Bahar

Journal:

Journal of Computational Chemistry

Year:

2002

Language:

english

File:

PDF, 329 KB

english, 2002

22

The 93Nb(d, p)94Nb reaction and the low-lying states of 94Nb

Raymond K. Sheline, Robert T. Jernigan, James B. Ball, Kumar H. Bhatt, Yeong E. Kim, Jean Vervier

Journal:

Nuclear Physics

Year:

1965

Language:

english

File:

PDF, 463 KB

english, 1965

23

Seasonal trends in unequally spaced data: Confidence intervals for spectral estimates

Robert W. Jernigan, John C. Turner

Journal:

Applied Mathematics and Computation

Year:

1983

Language:

english

File:

PDF, 706 KB

english, 1983

24

Protein Conformational Computations-special issue of Polymer

Andrzej Kloczkowski, Robert L. Jernigan

Journal:

Year:

2004

Language:

english

File:

PDF, 55 KB

english, 2004

25

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

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

Journal:

Year:

2004

Language:

english

File:

PDF, 317 KB

english, 2004

26

The kinetics and mechanism of the thermal reaction between iron pentacarbonyl and iodine in n-hexane

Gerard R Dobson, Robert T Jernigan, Chang Ping-Tzu

Journal:

Journal of Organometallic Chemistry

Year:

1973

Language:

english

File:

PDF, 251 KB

english, 1973

27

Residue coordination in proteins conforms to the closest packing of spheres

Zerrin Bagci, Robert L. Jernigan, Ivet Bahar

Journal:

Year:

2002

Language:

english

File:

PDF, 382 KB

english, 2002

28

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

Michael T Zimmermann, Andrzej Kloczkowski, Robert L Jernigan

Journal:

BMC Bioinformatics

Year:

2011

Language:

english

File:

PDF, 1.38 MB

english, 2011

29

Structural interpretation of protein-protein interaction network

Ataur R Katebi, Andrzej Kloczkowski, Robert L Jernigan

Journal:

BMC Structural Biology

Year:

2010

Language:

english

File:

PDF, 7.08 MB

english, 2010

30

Configurational distributions for finite chain molecules

Robert L. Jernigan, Paul J. Flory

Journal:

Journal of Polymer Science: Polymer Symposia

Year:

1968

Language:

english

File:

PDF, 189 KB

english, 1968

31

Identification of kinetically hot residues in proteins

Melik C. Demirel, Ali Rana Atilgan, Ivet Bahar, Robert L. Jernigan, Burak Erman

Journal:

Protein Science

Year:

1998

Language:

english

File:

PDF, 3.79 MB

english, 1998

32

Long- and short-range interactions in native protein structures are consistent/minimally frustrated in sequence space

Sanzo Miyazawa, Robert L. Jernigan

Journal:

Proteins: Structure, Function, and Bioinformatics

Year:

2003

Language:

english

File:

PDF, 148 KB

english, 2003

33

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

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

Journal:

Proteins: Structure, Function, and Bioinformatics

Year:

2003

Language:

english

File:

PDF, 574 KB

english, 2003

34

Myosin flexibility: Structural domains and collective vibrations

Isabelle Navizet, Richard Lavery, Robert L. Jernigan

Journal:

Proteins: Structure, Function, and Bioinformatics

Year:

2004

Language:

english

File:

PDF, 668 KB

english, 2004

35

Functional motions can be extracted from on-lattice construction of protein structures

Pemra Doruker, Robert L. Jernigan

Journal:

Proteins: Structure, Function, and Bioinformatics

Year:

2003

Language:

english

File:

PDF, 472 KB

english, 2003

36

Inferring ideal amino acid interaction forms from statistical protein contact potentials

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

Journal:

Proteins: Structure, Function, and Bioinformatics

Year:

2005

Language:

english

File:

PDF, 1.12 MB

english, 2005

37

How do side chains orient globally in protein structures?

Aimin Yan, Robert L. Jernigan

Journal:

Proteins: Structure, Function, and Bioinformatics

Year:

2005

Language:

english

File:

PDF, 164 KB

english, 2005

38

An enhanced elastic network model to represent the motions of domain-swapped proteins

Guang Song, Robert L. Jernigan

Journal:

Proteins: Structure, Function, and Bioinformatics

Year:

2006

Language:

english

File:

PDF, 460 KB

english, 2006

39

Refinement of NMR-determined protein structures with database derived mean-force potentials

Di Wu, Robert Jernigan, Zhijun Wu

Journal:

Proteins: Structure, Function, and Bioinformatics

Year:

2007

Language:

english

File:

PDF, 340 KB

english, 2007

40

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

Yaping Feng, Andrzej Kloczkowski, Robert L. Jernigan

Journal:

Proteins: Structure, Function, and Bioinformatics

Year:

2007

Language:

english

File:

PDF, 311 KB

english, 2007

41

Ideal amino acid exchange forms for approximating substitution matrices

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

Journal:

Proteins: Structure, Function, and Bioinformatics

Year:

2007

Language:

english

File:

PDF, 4.52 MB

english, 2007

42

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

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

Journal:

Proteins: Structure, Function, and Bioinformatics

Year:

2008

Language:

english

File:

PDF, 1.07 MB

english, 2008

43

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

Yaping Feng, Robert L. Jernigan, Andrzej Kloczkowski

Journal:

Proteins: Structure, Function, and Bioinformatics

Year:

2008

Language:

english

File:

PDF, 297 KB

english, 2008

44

Iterative cluster-NMA: A tool for generating conformational transitions in proteins

Adam D. Schuyler, Robert L. Jernigan, Pradman K. Qasba, Boopathy Ramakrishnan, Gregory S. Chirikjian

Journal:

Proteins: Structure, Function, and Bioinformatics

Year:

2009

Language:

english

File:

PDF, 439 KB

english, 2009

45

Collective dynamics of the ribosomal tunnel revealed by elastic network modeling

Ozge Kurkcuoglu, Zeynep Kurkcuoglu, Pemra Doruker, Robert L. Jernigan

Journal:

Proteins: Structure, Function, and Bioinformatics

Year:

2009

Language:

english

File:

PDF, 494 KB

english, 2009

46

Comparisons of experimental and computed protein anisotropic temperature factors

Lei Yang, Guang Song, Robert L. Jernigan

Journal:

Proteins: Structure, Function, and Bioinformatics

Year:

2009

Language:

english

File:

PDF, 577 KB

english, 2009

47

The energy profiles of atomic conformational transition intermediates of adenylate kinase

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

Journal:

Proteins: Structure, Function, and Bioinformatics

Year:

2009

Language:

english

File:

PDF, 274 KB

english, 2009

48

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

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

Journal:

Proteins: Structure, Function, and Bioinformatics

Year:

2011

Language:

english

File:

PDF, 788 KB

english, 2011

49

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

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

Journal:

Proteins: Structure, Function, and Bioinformatics

Year:

2012

Language:

english

File:

PDF, 290 KB

english, 2012

50

Collective Dynamics of Large Proteins from Mixed Coarse-Grained Elastic Network Model

Ozge Kurkcuoglu, Robert L. Jernigan, Pemra Doruker

Journal:

Molecular Informatics

Year:

2005

Language:

english

File:

PDF, 468 KB

english, 2005