Class information for:
Level 1: PROTEIN FUNCTION PREDICTION//COMPLEX SCI SOFTWARE//PHYLOGENETIC MOTIFS

Basic class information
Class id #P Avg. number of
references		 Database coverage
of references
9196 1179 44.5 85%


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
9196 1                   PROTEIN FUNCTION PREDICTION//COMPLEX SCI SOFTWARE//PHYLOGENETIC MOTIFS 1179

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 FUNCTION PREDICTION authKW 268983 3% 27% 38
2 COMPLEX SCI SOFTWARE address 190698 1% 82% 9
3 PHYLOGENETIC MOTIFS authKW 155387 1% 100% 6
4 THEMATICS authKW 139841 1% 60% 9
5 STRUCTURE BASED FUNCTION PREDICTION authKW 133187 1% 86% 6
6 FUNCTIONAL SITE PREDICTION authKW 118383 1% 57% 8
7 PROTEIN FUNCTION authKW 118319 3% 11% 40
8 BINDING SITE COMPARISON authKW 107906 0% 83% 5
9 STRUCTURAL GENOMICS authKW 97034 4% 8% 45
10 STUDY SYST BIOL address 96418 2% 21% 18

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 27003 28% 0% 328
2 Biochemical Research Methods 8660 29% 0% 340
3 Biochemistry & Molecular Biology 4272 50% 0% 592
4 Biotechnology & Applied Microbiology 3444 24% 0% 279
5 Computer Science, Interdisciplinary Applications 2234 12% 0% 144
6 Biophysics 1960 16% 0% 183
7 Chemistry, Medicinal 682 8% 0% 92
8 Computer Science, Information Systems 474 6% 0% 68
9 Statistics & Probability 79 3% 0% 30
10 Chemistry, Multidisciplinary 67 8% 0% 95

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 COMPLEX SCI SOFTWARE 190698 1% 82% 9
2 STUDY SYST BIOL 96418 2% 21% 18
3 GLOBAL COMPUTAT CHEM 84751 1% 55% 6
4 MOL BIOINFORMAT 64719 1% 17% 15
5 BIOMED SCI COMPLEX EASTCHEM CHEM 51796 0% 100% 2
6 MPI COMPUTAT BIOL 51796 0% 100% 2
7 CIBR COMPUTAT INTEGRAT BIOMED 34529 0% 67% 2
8 OPEN SOURCE DRUG DISCOVERY OSDD CONSORTIUM 34529 0% 67% 2
9 ADV IT DEV 25898 0% 100% 1
10 ARC STRUCT FUNCT MICROBIAL GENET 25898 0% 100% 1

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 BIOINFORMATICS 34962 10% 1% 120
2 BMC BIOINFORMATICS 33076 8% 1% 98
3 PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS 32094 8% 1% 89
4 JOURNAL OF CHEMICAL INFORMATION AND MODELING 26080 5% 2% 56
5 BMC STRUCTURAL BIOLOGY 18624 2% 4% 19
6 JOURNAL OF MOLECULAR BIOLOGY 8141 7% 0% 86
7 NUCLEIC ACIDS RESEARCH 7552 9% 0% 108
8 PLOS COMPUTATIONAL BIOLOGY 5336 3% 1% 31
9 PROTEIN SCIENCE 4448 3% 1% 33
10 IEEE-ACM TRANSACTIONS ON COMPUTATIONAL BIOLOGY AND BIOINFORMATICS 3848 1% 1% 13

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 FUNCTION PREDICTION 268983 3% 27% 38 Search PROTEIN+FUNCTION+PREDICTION Search PROTEIN+FUNCTION+PREDICTION
2 PHYLOGENETIC MOTIFS 155387 1% 100% 6 Search PHYLOGENETIC+MOTIFS Search PHYLOGENETIC+MOTIFS
3 THEMATICS 139841 1% 60% 9 Search THEMATICS Search THEMATICS
4 STRUCTURE BASED FUNCTION PREDICTION 133187 1% 86% 6 Search STRUCTURE+BASED+FUNCTION+PREDICTION Search STRUCTURE+BASED+FUNCTION+PREDICTION
5 FUNCTIONAL SITE PREDICTION 118383 1% 57% 8 Search FUNCTIONAL+SITE+PREDICTION Search FUNCTIONAL+SITE+PREDICTION
6 PROTEIN FUNCTION 118319 3% 11% 40 Search PROTEIN+FUNCTION Search PROTEIN+FUNCTION
7 BINDING SITE COMPARISON 107906 0% 83% 5 Search BINDING+SITE+COMPARISON Search BINDING+SITE+COMPARISON
8 STRUCTURAL GENOMICS 97034 4% 8% 45 Search STRUCTURAL+GENOMICS Search STRUCTURAL+GENOMICS
9 PROTEIN SURFACE SHAPE 92489 0% 71% 5 Search PROTEIN+SURFACE+SHAPE Search PROTEIN+SURFACE+SHAPE
10 FUNCTIONAL RESIDUES 92072 1% 44% 8 Search FUNCTIONAL+RESIDUES Search FUNCTIONAL+RESIDUES

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 JALENCAS, X , MESTRES, J , (2013) IDENTIFICATION OF SIMILAR BINDING SITES TO DETECT DISTANT POLYPHARMACOLOGY.MOLECULAR INFORMATICS. VOL. 32. ISSUE 11-12. P. 976-990 93 55% 8
2 NISIUS, B , SHA, F , GOHLKE, H , (2012) STRUCTURE-BASED COMPUTATIONAL ANALYSIS OF PROTEIN BINDING SITES FOR FUNCTION AND DRUGGABILITY PREDICTION.JOURNAL OF BIOTECHNOLOGY. VOL. 159. ISSUE 3. P. 123-134 55 71% 40
3 VOLKAMER, A , RAREY, M , (2014) EXPLOITING STRUCTURAL INFORMATION FOR DRUG- TARGET ASSESSMENT.FUTURE MEDICINAL CHEMISTRY. VOL. 6. ISSUE 3. P. 319-331 58 68% 5
4 CHAKRABORTY, A , CHAKRABARTI, S , (2015) A SURVEY ON PREDICTION OF SPECIFICITY-DETERMINING SITES IN PROTEINS.BRIEFINGS IN BIOINFORMATICS. VOL. 16. ISSUE 1. P. 71 -88 48 75% 6
5 CAPRA, JA , LASKOWSKI, RA , THORNTON, JM , SINGH, M , FUNKHOUSER, TA , (2009) PREDICTING PROTEIN LIGAND BINDING SITES BY COMBINING EVOLUTIONARY SEQUENCE CONSERVATION AND 3D STRUCTURE.PLOS COMPUTATIONAL BIOLOGY. VOL. 5. ISSUE 12. P. - 47 73% 131
6 XIN, FX , RADIVOJAC, P , (2011) COMPUTATIONAL METHODS FOR IDENTIFICATION OF FUNCTIONAL RESIDUES IN PROTEIN STRUCTURES.CURRENT PROTEIN & PEPTIDE SCIENCE. VOL. 12. ISSUE 6. P. 456-469 69 58% 8
7 PEROT, S , SPERANDIO, O , MITEVA, MA , CAMPROUX, AC , VILLOUTREIX, BO , (2010) DRUGGABLE POCKETS AND BINDING SITE CENTRIC CHEMICAL SPACE: A PARADIGM SHIFT IN DRUG DISCOVERY.DRUG DISCOVERY TODAY. VOL. 15. ISSUE 15-16. P. 656 -667 58 51% 111
8 BRAY, T , CHAN, P , BOUGOUFFA, S , GREAVES, R , DOIG, AJ , WARWICKER, J , (2009) SITESIDENTIFY: A PROTEIN FUNCTIONAL SITE PREDICTION TOOL.BMC BIOINFORMATICS. VOL. 10. ISSUE . P. - 47 81% 13
9 PRYMULA, K , JADCZYK, T , ROTERMAN, I , (2011) CATALYTIC RESIDUES IN HYDROLASES: ANALYSIS OF METHODS DESIGNED FOR LIGAND-BINDING SITE PREDICTION.JOURNAL OF COMPUTER-AIDED MOLECULAR DESIGN. VOL. 25. ISSUE 2. P. 117-133 55 59% 6
10 ZHANG, ZD , TANG, YR , SHENG, ZY , ZHAO, DB , (2009) AN OVERVIEW OF THE DE NOVO PREDICTION OF ENZYME CATALYTIC RESIDUES.CURRENT BIOINFORMATICS. VOL. 4. ISSUE 3. P. 197-206 49 66% 2

Classes with closest relation at Level 1


Rank Class id link
1 4994 PROTEIN STRUCTURE COMPARISON//PROTEIN STRUCTURE ALIGNMENT//STRUCTURE COMPARISON
2 6443 PROTEIN PROTEIN DOCKING//CAPRI//PROTEIN DOCKING
3 26991 DRUG DESIGN BIOTECHNOL//METAL BINDING RESIDUES//METAL CATIONS M2
4 24117 EVOLUTIONARY BIOINFORMAT//FOLD SUPERFAMILY//EVOLUTION OF DOMAIN ARCHITECTURE
5 24744 MANDELATE RACEMASE//MANDELATE RACEMASE EC 5122//ENOLASE SUPERFAMILY
6 9683 EMBL OUTSTN//LECTURE NOTES IN BIOINFORMATICS//PROT INFORMAT OURCE
7 18004 INTERACTION PROPENSITY//PROTEIN RNA INTERACTIONS//DNA BINDING RESIDUES
8 1353 JOURNAL OF CHEMICAL INFORMATION AND MODELING//VIRTUAL SCREENING//JOURNAL OF COMPUTER-AIDED MOLECULAR DESIGN
9 17055 CORRELATED MUTATIONS//DIRECT COUPLING ANALYSIS//INVERSE ISING PROBLEM
10 11825 FRAGMENT SCREENING//FRAGMENT BASED DRUG DISCOVERY//NMR SCREENING

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