Class information for:
Level 2: PROTEIN STRUCTURE PREDICTION//PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS//PSEUDO AMINO ACID COMPOSITION

Basic class information
Class id #P Avg. number of
references		 Database coverage
of references
365 17331 46.0 82%


Bar chart of Publication_year

Last years might be incomplete

Hierarchy of classes
The table includes all classes above and classes immediately below the current class.


Cluster id Level Cluster label #P
0 4 BIOCHEMISTRY & MOLECULAR BIOLOGY//CELL BIOLOGY//ONCOLOGY 4064930
219 3       PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS//PROTEIN FOLDING//PROTEIN STRUCTURE PREDICTION 50409
365 2             PROTEIN STRUCTURE PREDICTION//PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS//PSEUDO AMINO ACID COMPOSITION 17331
1409 1                   PROTEIN STRUCTURE PREDICTION//FOLD RECOGNITION//THREADING 2677
2741 1                   PSEUDO AMINO ACID COMPOSITION//PROTEIN STRUCTURAL CLASS//JACKKNIFE TEST 2161
4131 1                   TRANSMEMBRANE HELIX//TRANSMEMBRANE HELICES//MEMBRANE PROTEIN 1842
4994 1                   PROTEIN STRUCTURE COMPARISON//PROTEIN STRUCTURE ALIGNMENT//STRUCTURE COMPARISON 1691
6443 1                   PROTEIN PROTEIN DOCKING//CAPRI//PROTEIN DOCKING 1483
8818 1                   BIOL RUMENTAT//INTRINSICALLY DISORDERED PROTEINS//INTRINSIC DISORDER 1214
9196 1                   PROTEIN FUNCTION PREDICTION//COMPLEX SCI SOFTWARE//PHYLOGENETIC MOTIFS 1179
11331 1                   NSSNPS//POLYPHEN//LSDB 990
12405 1                   PROTEIN SECONDARY STRUCTURE PREDICTION//SECONDARY STRUCTURE PREDICTION//SOLVENT ACCESSIBILITY 908
13291 1                   COMPUTATIONAL PROTEIN DESIGN//PROTEIN DESIGN//DEAD END ELIMINATION 848
17055 1                   CORRELATED MUTATIONS//DIRECT COUPLING ANALYSIS//INVERSE ISING PROBLEM 620
18004 1                   INTERACTION PROPENSITY//PROTEIN RNA INTERACTIONS//DNA BINDING RESIDUES 571
20432 1                   KINASE SPECIFIC//PTM CODE//CELLULAR MOL LOG TEAM 461
26332 1                   CYSTEINE BONDING STATE//DISULFIDE CONNECTIVITY PREDICTION//MEDIUM AND LONG RANGE 257
26991 1                   DRUG DESIGN BIOTECHNOL//METAL BINDING RESIDUES//METAL CATIONS M2 240
35524 1                   FUNCTIONAL DATA MODEL//KINGS COMP SCI//AV P HEGER 96
35727 1                   CLOSED LOOPS//GENOME ERS//SKEW PAIRS 93

Terms with highest relevance score


rank Term termType Chi square Shr. of publ. in
class containing
term		 Class's shr. of
term's tot. occurrences		 #P with term
in class
1 PROTEIN STRUCTURE PREDICTION authKW 725389 3% 70% 591
2 PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS journal 675706 9% 25% 1565
3 PSEUDO AMINO ACID COMPOSITION authKW 213161 1% 97% 125
4 BIOINFORMATICS journal 188968 6% 10% 1072
5 FOLD RECOGNITION authKW 183004 1% 68% 153
6 STRUCTURE PREDICTION authKW 172520 2% 37% 265
7 MATHEMATICAL & COMPUTATIONAL BIOLOGY WoSSC 159050 18% 3% 3073
8 CASP authKW 134298 1% 76% 100
9 THREADING authKW 134011 1% 60% 128
10 COMPUTATIONAL PROTEIN DESIGN authKW 119749 1% 76% 90

Web of Science journal categories


Rank Term Chi square Shr. of publ. in
class containing
term		 Class's shr. of
term's tot. occurrences		 #P with term
in class
1 Mathematical & Computational Biology 159050 18% 3% 3073
2 Biochemistry & Molecular Biology 76399 55% 1% 9500
3 Biochemical Research Methods 57223 20% 1% 3411
4 Biophysics 53992 21% 1% 3604
5 Biotechnology & Applied Microbiology 18453 15% 1% 2590
6 Computer Science, Interdisciplinary Applications 7487 6% 1% 1074
7 Biology 1914 4% 0% 637
8 Genetics & Heredity 924 5% 0% 784
9 Cell Biology 880 6% 0% 1005
10 Computer Science, Artificial Intelligence 458 2% 0% 343

Address terms


Rank Term Chi square Shr. of publ. in
class containing
term		 Class's shr. of
term's tot. occurrences		 #P with
term in
class
1 COMPUTAT BIOL BIOINFORMAT 93346 2% 19% 280
2 BIOL RUMENTAT 86494 1% 34% 144
3 BIOINFORMAT 80388 5% 6% 801
4 CUBIC 60336 0% 70% 49
5 COMPUTAT MUTAT PROJECT 53232 0% 92% 33
6 STUDY SYST BIOL 52573 0% 59% 51
7 BIOMOL STRUCT MODELLING UNIT 42328 0% 63% 38
8 INTRINSICALLY DISORDERED PROT 38631 0% 61% 36
9 BAKER CHEM CHEM BIOL 37760 0% 27% 79
10 SACKLER MOL MED 37274 0% 25% 86

Journals


Rank Term Chi square Shr. of publ. in
class containing
term		 Class's shr. of
term's tot. occurrences		 #P with term
in class
1 PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS 675706 9% 25% 1565
2 BIOINFORMATICS 188968 6% 10% 1072
3 BMC BIOINFORMATICS 114743 4% 9% 702
4 PROTEIN SCIENCE 82674 3% 9% 545
5 PROTEIN ENGINEERING 75369 2% 14% 312
6 BMC STRUCTURAL BIOLOGY 52100 1% 24% 122
7 JOURNAL OF MOLECULAR BIOLOGY 42540 4% 3% 759
8 PROTEIN AND PEPTIDE LETTERS 39619 1% 9% 240
9 CURRENT OPINION IN STRUCTURAL BIOLOGY 34105 1% 9% 211
10 NUCLEIC ACIDS RESEARCH 30973 5% 2% 849

Author Key Words


Rank Term Chi square Shr. of publ. in
class containing
term		 Class's shr. of
term's tot. occurrences		 #P with
term in
class		 LCSH search Wikipedia search
1 PROTEIN STRUCTURE PREDICTION 725389 3% 70% 591 Search PROTEIN+STRUCTURE+PREDICTION Search PROTEIN+STRUCTURE+PREDICTION
2 PSEUDO AMINO ACID COMPOSITION 213161 1% 97% 125 Search PSEUDO+AMINO+ACID+COMPOSITION Search PSEUDO+AMINO+ACID+COMPOSITION
3 FOLD RECOGNITION 183004 1% 68% 153 Search FOLD+RECOGNITION Search FOLD+RECOGNITION
4 STRUCTURE PREDICTION 172520 2% 37% 265 Search STRUCTURE+PREDICTION Search STRUCTURE+PREDICTION
5 CASP 134298 1% 76% 100 Search CASP Search CASP
6 THREADING 134011 1% 60% 128 Search THREADING Search THREADING
7 COMPUTATIONAL PROTEIN DESIGN 119749 1% 76% 90 Search COMPUTATIONAL+PROTEIN+DESIGN Search COMPUTATIONAL+PROTEIN+DESIGN
8 PROTEIN STRUCTURE 114269 3% 13% 498 Search PROTEIN+STRUCTURE Search PROTEIN+STRUCTURE
9 KNOWLEDGE BASED POTENTIALS 100814 0% 78% 73 Search KNOWLEDGE+BASED+POTENTIALS Search KNOWLEDGE+BASED+POTENTIALS
10 STATISTICAL POTENTIALS 96001 0% 76% 72 Search STATISTICAL+POTENTIALS Search STATISTICAL+POTENTIALS

Core articles
The table includes core articles in the class. The following variables is taken into account for the relevance score of an article in a cluster c:
(1) Number of references referring to publications in the class.
(2) Share of total number of active references referring to publications in the class.
(3) Age of the article. New articles get higher score than old articles.
(4) Citation rate, normalized to year.


Rank Reference # ref. in
cl.		 Shr. of ref. in
cl.		 Citations
1 CHOU, KC , (2015) IMPACTS OF BIOINFORMATICS TO MEDICINAL CHEMISTRY.MEDICINAL CHEMISTRY. VOL. 11. ISSUE 3. P. 218 -234 216 88% 81
2 CHOU, KC , (2011) SOME REMARKS ON PROTEIN ATTRIBUTE PREDICTION AND PSEUDO AMINO ACID COMPOSITION.JOURNAL OF THEORETICAL BIOLOGY. VOL. 273. ISSUE 1. P. 236 -247 177 90% 446
3 CHEN, W , LIN, H , CHOU, KC , (2015) PSEUDO NUCLEOTIDE COMPOSITION OR PSEKNC: AN EFFECTIVE FORMULATION FOR ANALYZING GENOMIC SEQUENCES.MOLECULAR BIOSYSTEMS. VOL. 11. ISSUE 10. P. 2620 -2634 173 93% 28
4 VAN DER LEE, R , BULJAN, M , LANG, B , WEATHERITT, RJ , DAUGHDRILL, GW , DUNKER, AK , FUXREITER, M , GOUGH, J , GSPONER, J , JONES, DT , ET AL (2014) CLASSIFICATION OF INTRINSICALLY DISORDERED REGIONS AND PROTEINS.CHEMICAL REVIEWS. VOL. 114. ISSUE 13. P. 6589 -6631 205 53% 134
5 XU, Y , CHOU, KC , (2016) RECENT PROGRESS IN PREDICTING POSTTRANSLATIONAL MODIFICATION SITES IN PROTEINS.CURRENT TOPICS IN MEDICINAL CHEMISTRY. VOL. 16. ISSUE 6. P. 591 -603 153 93% 4
6 CHEN, W , DING, H , FENG, PM , LIN, H , CHOU, KC , (2016) IACP: A SEQUENCE-BASED TOOL FOR IDENTIFYING ANTICANCER PEPTIDES.ONCOTARGET. VOL. 7. ISSUE 13. P. 16895 -16909 108 84% 16
7 ROY, A , KUCUKURAL, A , ZHANG, Y , (2010) I-TASSER: A UNIFIED PLATFORM FOR AUTOMATED PROTEIN STRUCTURE AND FUNCTION PREDICTION.NATURE PROTOCOLS. VOL. 5. ISSUE 4. P. 725-738 56 90% 1865
8 TOSATTO, SCE , TOPPO, S , (2006) LARGE-SCALE PREDICTION OF PROTEIN STRUCTURE AND FUNCTION FROM SEQUENCE.CURRENT PHARMACEUTICAL DESIGN. VOL. 12. ISSUE 17. P. 2067 -2086 225 85% 9
9 HUANG, SY , (2014) SEARCH STRATEGIES AND EVALUATION IN PROTEIN-PROTEIN DOCKING: PRINCIPLES, ADVANCES AND CHALLENGES.DRUG DISCOVERY TODAY. VOL. 19. ISSUE 8. P. 1081 -1096 146 91% 21
10 JIA, JH , LIU, Z , XIAO, X , LIU, BX , CHOU, KC , (2015) IPPI-ESML: AN ENSEMBLE CLASSIFIER FOR IDENTIFYING THE INTERACTIONS OF PROTEINS BY INCORPORATING THEIR PHYSICOCHEMICAL PROPERTIES AND WAVELET TRANSFORMS INTO PSEAAC.JOURNAL OF THEORETICAL BIOLOGY. VOL. 377. ISSUE . P. 47 -56 107 80% 56

Classes with closest relation at Level 2


Rank Class id link
1 260 PROTEIN FOLDING//JOURNAL OF CHEMICAL THEORY AND COMPUTATION//JOURNAL OF COMPUTATIONAL CHEMISTRY
2 1269 JOURNAL OF CHEMICAL INFORMATION AND MODELING//LIFE SCI INFORMAT//B IT
3 2636 COILED COIL//KRAB DOMAIN//PROTEIN DESIGN
4 126 MOLECULAR BIOLOGY AND EVOLUTION//BIOINFORMATICS//MATHEMATICAL & COMPUTATIONAL BIOLOGY
5 868 BMC BIOINFORMATICS//MATHEMATICAL & COMPUTATIONAL BIOLOGY//BIOINFORMATICS
6 2596 ACTA CRYSTALLOGRAPHICA SECTION D-BIOLOGICAL CRYSTALLOGRAPHY//ACTA CRYSTALLOGRAPHICA SECTION A//ACTA CRYSTALLOGRAPHICA SECTION D-STRUCTURAL BIOLOGY
7 4144 VORONOI DIAGRAM//VORONOI DIAGRAM OF SPHERES//QUASI TRIANGULATION
8 3201 GRAPHICAL REPRESENTATION//AUTHORSHIP ATTRIBUTION//CODE CLONE
9 2622 TRIOSEPHOSPHATE ISOMERASE//HISTIDINE BIOSYNTHESIS//KETOSTEROID ISOMERASE
10 1834 PHAGE DISPLAY//ANTIBODY ENGINEERING//BISPECIFIC ANTIBODY

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