Class information for:
Level 1: GENE SET ANALYSIS//GENE ONTOLOGY//BMC BIOINFORMATICS

Basic class information
Class id #P Avg. number of
references		 Database coverage
of references
9574 1142 34.6 79%


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
868 2             BMC BIOINFORMATICS//MATHEMATICAL & COMPUTATIONAL BIOLOGY//BIOINFORMATICS 11572
9574 1                   GENE SET ANALYSIS//GENE ONTOLOGY//BMC BIOINFORMATICS 1142

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 GENE SET ANALYSIS authKW 415915 3% 47% 33
2 GENE ONTOLOGY authKW 263910 8% 11% 89
3 BMC BIOINFORMATICS journal 161843 19% 3% 213
4 BIOINFORMATICS journal 102575 18% 2% 202
5 MATHEMATICAL & COMPUTATIONAL BIOLOGY WoSSC 97213 53% 1% 609
6 ENRICHMENT ANALYSIS authKW 91158 2% 19% 18
7 GENE SET authKW 85236 1% 25% 13
8 RELATED TERMS authKW 80211 0% 100% 3
9 GENE SET ENRICHMENT authKW 69848 1% 29% 9
10 SEMANTIC SIMILARITY MEASURE authKW 68944 1% 37% 7

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 97213 53% 1% 609
2 Biochemical Research Methods 26497 50% 0% 576
3 Biotechnology & Applied Microbiology 16390 50% 0% 576
4 Statistics & Probability 733 7% 0% 76
5 Genetics & Heredity 732 12% 0% 134
6 Medical Informatics 606 3% 0% 34
7 Biochemistry & Molecular Biology 475 21% 0% 236
8 Computer Science, Interdisciplinary Applications 393 6% 0% 64
9 Multidisciplinary Sciences 164 2% 0% 26
10 Computer Science, Artificial Intelligence 32 2% 0% 23

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 FUNCT GENOM NODE 61863 1% 26% 9
2 BIOINFORMAT FUNCT GENOM NODE INB 53474 0% 100% 2
3 CIHR MSFHR 53474 0% 100% 2
4 GOA PROJECT 53474 0% 100% 2
5 HOLM GRP 53474 0% 100% 2
6 NIAID OFF TECHNOL INFORMAT SYST 53474 0% 100% 2
7 BIOINFORMAT RARE DIS BIER 45826 1% 29% 6
8 INB 39292 1% 10% 15
9 FUNCT GENOM NODE INB 37420 1% 20% 7
10 BIOINFORMAT SYST BIOL LIFE SCI 35648 0% 67% 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 BMC BIOINFORMATICS 161843 19% 3% 213
2 BIOINFORMATICS 102575 18% 2% 202
3 BRIEFINGS IN BIOINFORMATICS 8627 1% 2% 15
4 NUCLEIC ACIDS RESEARCH 8400 10% 0% 112
5 IEEE-ACM TRANSACTIONS ON COMPUTATIONAL BIOLOGY AND BIOINFORMATICS 6805 1% 2% 17
6 BMC SYSTEMS BIOLOGY 5987 2% 1% 19
7 STATISTICAL APPLICATIONS IN GENETICS AND MOLECULAR BIOLOGY 4271 1% 2% 9
8 GENOME BIOLOGY 3919 2% 1% 21
9 PLOS COMPUTATIONAL BIOLOGY 2763 2% 0% 22
10 JOURNAL OF BIOINFORMATICS AND COMPUTATIONAL BIOLOGY 2618 1% 2% 6

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 GENE SET ANALYSIS 415915 3% 47% 33 Search GENE+SET+ANALYSIS Search GENE+SET+ANALYSIS
2 GENE ONTOLOGY 263910 8% 11% 89 Search GENE+ONTOLOGY Search GENE+ONTOLOGY
3 ENRICHMENT ANALYSIS 91158 2% 19% 18 Search ENRICHMENT+ANALYSIS Search ENRICHMENT+ANALYSIS
4 GENE SET 85236 1% 25% 13 Search GENE+SET Search GENE+SET
5 RELATED TERMS 80211 0% 100% 3 Search RELATED+TERMS Search RELATED+TERMS
6 GENE SET ENRICHMENT 69848 1% 29% 9 Search GENE+SET+ENRICHMENT Search GENE+SET+ENRICHMENT
7 SEMANTIC SIMILARITY MEASURE 68944 1% 37% 7 Search SEMANTIC+SIMILARITY+MEASURE Search SEMANTIC+SIMILARITY+MEASURE
8 SEMANTIC SIMILARITY 61850 2% 9% 26 Search SEMANTIC+SIMILARITY Search SEMANTIC+SIMILARITY
9 BIOLOGICAL SEARCH ENGINE 53474 0% 100% 2 Search BIOLOGICAL+SEARCH+ENGINE Search BIOLOGICAL+SEARCH+ENGINE
10 BIOMOLECULAR ANNOTATIONS 53474 0% 100% 2 Search BIOMOLECULAR+ANNOTATIONS Search BIOMOLECULAR+ANNOTATIONS

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 HUANG, DW , SHERMAN, BT , LEMPICKI, RA , (2009) SYSTEMATIC AND INTEGRATIVE ANALYSIS OF LARGE GENE LISTS USING DAVID BIOINFORMATICS RESOURCES.NATURE PROTOCOLS. VOL. 4. ISSUE 1. P. 44-57 10 83% 8308
2 KHATRI, P , SIROTA, M , BUTTE, AJ , (2012) TEN YEARS OF PATHWAY ANALYSIS: CURRENT APPROACHES AND OUTSTANDING CHALLENGES.PLOS COMPUTATIONAL BIOLOGY. VOL. 8. ISSUE 2. P. - 45 58% 334
3 NAM, D , KIM, SY , (2008) GENE-SET APPROACH FOR EXPRESSION PATTERN ANALYSIS.BRIEFINGS IN BIOINFORMATICS. VOL. 9. ISSUE 3. P. 189-197 39 89% 169
4 DOPAZO, J , (2009) FORMULATING AND TESTING HYPOTHESES IN FUNCTIONAL GENOMICS.ARTIFICIAL INTELLIGENCE IN MEDICINE. VOL. 45. ISSUE 2-3. P. 97-107 63 58% 6
5 ACKERMANN, M , STRIMMER, K , (2009) A GENERAL MODULAR FRAMEWORK FOR GENE SET ENRICHMENT ANALYSIS.BMC BIOINFORMATICS. VOL. 10. ISSUE . P. - 29 78% 143
6 AL-SHAHROUR, F , CARBONELL, J , MINGUEZ, P , GOETZ, S , CONESA, A , TARRRAGA, J , MEDINA, I , ALLOZA, E , MONTANER, D , DOPAZO, J , (2008) BABELOMICS: ADVANCED FUNCTIONAL PROFILING OF TRANSCRIPTOMICS, PROTEOMICS AND GENOMICS EXPERIMENTS.NUCLEIC ACIDS RESEARCH. VOL. 36. ISSUE . P. W341-W346 39 71% 37
7 ZHENG, Q , WANG, XJ , (2008) GOEAST: A WEB-BASED SOFTWARE TOOLKIT FOR GENE ONTOLOGY ENRICHMENT ANALYSIS.NUCLEIC ACIDS RESEARCH. VOL. 36. ISSUE . P. W358-W363 23 74% 302
8 MACIEJEWSKI, H , (2014) GENE SET ANALYSIS METHODS: STATISTICAL MODELS AND METHODOLOGICAL DIFFERENCES.BRIEFINGS IN BIOINFORMATICS. VOL. 15. ISSUE 4. P. 504 -518 21 91% 22
9 HUANG, DW , SHERMAN, BT , TAN, Q , COLLINS, JR , ALVORD, WG , ROAYAEI, J , STEPHENS, R , BASELER, MW , LANE, HC , LEMPICKI, RA , (2007) THE DAVID GENE FUNCTIONAL CLASSIFICATION TOOL: A NOVEL BIOLOGICAL MODULE-CENTRIC ALGORITHM TO FUNCTIONALLY ANALYZE LARGE GENE LISTS.GENOME BIOLOGY. VOL. 8. ISSUE 9. P. - 23 77% 299
10 GOEMAN, JJ , BUHLMANN, P , (2007) ANALYZING GENE EXPRESSION DATA IN TERMS OF GENE SETS: METHODOLOGICAL ISSUES.BIOINFORMATICS. VOL. 23. ISSUE 8. P. 980 -987 21 81% 323

Classes with closest relation at Level 1


Rank Class id link
1 10975 GENE PRIORITIZATION//DISEASE GENE PREDICTION//HUMAN DISEASE NETWORK
2 20966 DYNAMICAL NETWORK BIOMARKER//EDGE BIOMARKER//ABORAT INNOVAT MATH MODELLING
3 37522 DIFFERENTIAL GENE EXPRESSION DETECTION//CANC GENOME DISCOVERY CCGD//CANCER GENE ACTIVATION HETEROGENEITY
4 681 PROTEIN INTERACTION NETWORK//PROTEIN PROTEIN INTERACTION NETWORK//ESSENTIAL PROTEINS
5 7323 BICLUSTERING//GENE EXPRESSION DATA//GENE EXPRESSION DATA ANALYSIS
6 2901 BMC BIOINFORMATICS//MICROARRAY IMAGE//BIOINFORMATICS
7 33207 GRP GENOM REGULAT CELL SIGNALING SYST//INSILICO MED INC//INTRACELLULAR SIGNALING PATHWAY ACTIVATION
8 22399 LUNG CANCER DIAGNOSIS AND PROGNOSIS//AIRWAY EPITHELIUM DEVELOPMENT//ANAT CYTOL PATHOL ALBERT BONNIOT
9 4183 TEXT MIN//TEXT MINING//BIOMEDICAL TEXT MINING
10 9683 EMBL OUTSTN//LECTURE NOTES IN BIOINFORMATICS//PROT INFORMAT OURCE

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