Class information for:
Level 1: MOTIF DISCOVERY//TRANSCRIPTION FACTOR BINDING SITE//MOTIF FINDING

Basic class information
Class id #P Avg. number of
references		 Database coverage
of references
2111 2353 40.0 81%


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
90 3       MATHEMATICAL & COMPUTATIONAL BIOLOGY//BIOINFORMATICS//BMC BIOINFORMATICS 77178
126 2             MOLECULAR BIOLOGY AND EVOLUTION//BIOINFORMATICS//MATHEMATICAL & COMPUTATIONAL BIOLOGY 23963
2111 1                   MOTIF DISCOVERY//TRANSCRIPTION FACTOR BINDING SITE//MOTIF FINDING 2353

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 MOTIF DISCOVERY authKW 419446 2% 58% 56
2 TRANSCRIPTION FACTOR BINDING SITE authKW 364118 3% 35% 80
3 MOTIF FINDING authKW 184693 1% 65% 22
4 POSITION WEIGHT MATRIX authKW 118619 1% 57% 16
5 BIOINFORMATICS journal 102432 12% 3% 290
6 BIOINFORMAT GENOMES EAUX BIGRE address 90814 1% 50% 14
7 UKG address 87579 0% 75% 9
8 DNA MOTIFS authKW 75601 1% 45% 13
9 PROMOTER PREDICTION authKW 73080 1% 43% 13
10 MATHEMATICAL & COMPUTATIONAL BIOLOGY WoSSC 69249 31% 1% 741

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 69249 31% 1% 741
2 Biotechnology & Applied Microbiology 20901 40% 0% 942
3 Biochemical Research Methods 20799 32% 0% 742
4 Genetics & Heredity 5334 21% 0% 486
5 Biochemistry & Molecular Biology 4657 39% 0% 907
6 Computer Science, Interdisciplinary Applications 1183 7% 0% 156
7 Statistics & Probability 631 5% 0% 106
8 Computer Science, Artificial Intelligence 312 4% 0% 85
9 Computer Science, Theory & Methods 169 3% 0% 71
10 Biology 133 3% 0% 67

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 BIOINFORMAT GENOMES EAUX BIGRE 90814 1% 50% 14
2 UKG 87579 0% 75% 9
3 BIOINFORMAT INTELLIGENT COMP 46338 0% 71% 5
4 THEORET GENET 43697 0% 42% 8
5 KNOWLEDGE EXTRACT 42379 0% 47% 7
6 HARVARD MIT HLTH SCI TECHNOL HST 41512 0% 40% 8
7 GRP ALGORISM GENET 38926 0% 100% 3
8 ARCO GRP 31134 0% 40% 6
9 STUDIES PHYS BIOL 29337 1% 9% 25
10 EEBI COMP 25951 0% 100% 2

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 102432 12% 3% 290
2 BMC BIOINFORMATICS 54644 8% 2% 178
3 NUCLEIC ACIDS RESEARCH 52317 17% 1% 399
4 BIOTECHFORUM ( BTF ) 37001 4% 3% 86
5 JOURNAL OF COMPUTATIONAL BIOLOGY 19108 2% 3% 48
6 GENOME BIOLOGY 14049 2% 2% 57
7 ALGORITHMS FOR MOLECULAR BIOLOGY 13219 1% 6% 17
8 BMC GENOMICS 10147 4% 1% 87
9 COMPUTER APPLICATIONS IN THE BIOSCIENCES 9599 1% 3% 26
10 IEEE-ACM TRANSACTIONS ON COMPUTATIONAL BIOLOGY AND BIOINFORMATICS 7128 1% 2% 25

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 MOTIF DISCOVERY 419446 2% 58% 56 Search MOTIF+DISCOVERY Search MOTIF+DISCOVERY
2 TRANSCRIPTION FACTOR BINDING SITE 364118 3% 35% 80 Search TRANSCRIPTION+FACTOR+BINDING+SITE Search TRANSCRIPTION+FACTOR+BINDING+SITE
3 MOTIF FINDING 184693 1% 65% 22 Search MOTIF+FINDING Search MOTIF+FINDING
4 POSITION WEIGHT MATRIX 118619 1% 57% 16 Search POSITION+WEIGHT+MATRIX Search POSITION+WEIGHT+MATRIX
5 DNA MOTIFS 75601 1% 45% 13 Search DNA+MOTIFS Search DNA+MOTIFS
6 PROMOTER PREDICTION 73080 1% 43% 13 Search PROMOTER+PREDICTION Search PROMOTER+PREDICTION
7 TRANSCRIPTION FACTOR BINDING SITES TFBSS 54063 0% 83% 5 Search TRANSCRIPTION+FACTOR+BINDING+SITES+TFBSS Search TRANSCRIPTION+FACTOR+BINDING+SITES+TFBSS
8 CIS REGULATORY MODULE 51878 1% 25% 16 Search CIS+REGULATORY+MODULE Search CIS+REGULATORY+MODULE
9 DE NOVO MOTIF DISCOVERY 41520 0% 80% 4 Search DE+NOVO+MOTIF+DISCOVERY Search DE+NOVO+MOTIF+DISCOVERY
10 MULTIPLE LOCAL ALIGNMENT 38926 0% 100% 3 Search MULTIPLE+LOCAL+ALIGNMENT Search MULTIPLE+LOCAL+ALIGNMENT

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 GUHATHAKURTA, D , (2006) COMPUTATIONAL IDENTIFICATION OF TRANSCRIPTIONAL REGULATORY ELEMENTS IN DNA SEQUENCE.NUCLEIC ACIDS RESEARCH. VOL. 34. ISSUE 12. P. 3585 -3598 110 72% 64
2 SANDVE, GK , DRABLOS, F , (2006) A SURVEY OF MOTIF DISCOVERY METHODS IN AN INTEGRATED FRAMEWORK.BIOLOGY DIRECT. VOL. 1. ISSUE . P. - 74 90% 61
3 MACISAAC, KD , FRAENKEL, E , (2006) PRACTICAL STRATEGIES FOR DISCOVERING REGULATORY DNA SEQUENCE MOTIFS.PLOS COMPUTATIONAL BIOLOGY. VOL. 2. ISSUE 4. P. 201 -210 76 81% 79
4 DAI, HK , DAS, MK , (2007) A SURVEY OF DNA MOTIF FINDING ALGORITHMS.BMC BIOINFORMATICS. VOL. 8. ISSUE . P. - 61 86% 155
5 ZAMBELLI, F , PESOLE, G , PAVESI, G , (2013) MOTIF DISCOVERY AND TRANSCRIPTION FACTOR BINDING SITES BEFORE AND AFTER THE NEXT-GENERATION SEQUENCING ERA.BRIEFINGS IN BIOINFORMATICS. VOL. 14. ISSUE 2. P. 225-237 71 72% 22
6 LIHU, A , HOLBAN, S , (2015) A REVIEW OF ENSEMBLE METHODS FOR DE NOVO MOTIF DISCOVERY IN CHIP-SEQ DATA.BRIEFINGS IN BIOINFORMATICS. VOL. 16. ISSUE 6. P. 964 -973 61 80% 4
7 AERTS, S , (2012) COMPUTATIONAL STRATEGIES FOR THE GENOME-WIDE IDENTIFICATION OF CIS-REGULATORY ELEMENTS AND TRANSCRIPTIONAL TARGETS.TRANSCRIPTIONAL SWITCHES DURING DEVELOPMENT. VOL. 98. ISSUE . P. 121 -145 80 65% 10
8 VINGRON, M , BRAZMA, A , COULSON, R , VAN HELDEN, J , MANKE, T , PALIN, K , SAND, O , UKKONEN, E , (2009) INTEGRATING SEQUENCE, EVOLUTION AND FUNCTIONAL GENOMICS IN REGULATORY GENOMICS.GENOME BIOLOGY. VOL. 10. ISSUE 1. P. - 71 78% 13
9 ABNIZOVA, I , SUBHANKULOVA, T , GILKS, WR , (2007) RECENT COMPUTATIONAL APPROACHES TO UNDERSTAND GENE REGULATION: MINING GENE REGULATION IN SILICO.CURRENT GENOMICS. VOL. 8. ISSUE 2. P. 79 -91 92 58% 1
10 VAN LOO, P , MARYNEN, P , (2009) COMPUTATIONAL METHODS FOR THE DETECTION OF CIS-REGULATORY MODULES.BRIEFINGS IN BIOINFORMATICS. VOL. 10. ISSUE 5. P. 509 -524 46 92% 36

Classes with closest relation at Level 1


Rank Class id link
1 35179 CLOSEST STRING PROBLEM//CLOSEST SUBSTRING//CLOSEST STRING
2 19282 CONSERVED NON CODING ELEMENTS//IROQUOIS//ENERGY ENVIRONM BIOL COMP
3 4702 CHIP SEQ//ENHANCER//PEAK CALLING
4 18004 INTERACTION PROPENSITY//PROTEIN RNA INTERACTIONS//DNA BINDING RESIDUES
5 6275 GENE REGULATORY NETWORK//NETWORK INFERENCE//REVERSE ENGINEERING
6 21530 NETWORK MOTIFS//SUBGRAPH SAMPLING//PROGRAMA GENOM COMPUTAC
7 22783 BIDIRECTIONAL PROMOTER//OPERON PREDICTION//INTERGENIC DISTANCE
8 19783 EXPRESSION EVOLUTION//TRANS REGULATION//CIS REGULATORY DIVERGENCE
9 11342 GENE PREDICTION//GENE FINDING//GENE RECOGNITION
10 32849 TRANSCRIPTION FACTOR DETECTION//MOL IMAGING PROBES//CELL NUCLEAR EXTRACTS

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