Class information for:
Level 1: CODON USAGE//CODON USAGE BIAS//SYNONYMOUS CODON USAGE

Basic class information
Class id #P Avg. number of
references		 Database coverage
of references
2829 2138 40.6 83%


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
2829 1                   CODON USAGE//CODON USAGE BIAS//SYNONYMOUS CODON USAGE 2138

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 CODON USAGE authKW 1100847 10% 35% 219
2 CODON USAGE BIAS authKW 1060078 5% 66% 113
3 SYNONYMOUS CODON USAGE authKW 704219 3% 82% 60
4 TRANSLATIONAL SELECTION authKW 651628 2% 89% 51
5 CODON BIAS authKW 427624 4% 36% 83
6 OPTIMAL CODONS authKW 329019 1% 96% 24
7 MUTATIONAL BIAS authKW 292893 2% 51% 40
8 AMINO ACID USAGE authKW 249245 1% 73% 24
9 MUTATIONAL PRESSURE authKW 242210 1% 81% 21
10 EFFECTIVE NUMBER OF CODONS authKW 224134 1% 83% 19

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 Genetics & Heredity 15511 36% 0% 763
2 Evolutionary Biology 11446 16% 0% 332
3 Biochemistry & Molecular Biology 7354 49% 0% 1049
4 Mathematical & Computational Biology 6012 10% 0% 213
5 Biotechnology & Applied Microbiology 1857 14% 0% 292
6 Biology 1057 7% 0% 148
7 Virology 754 5% 0% 107
8 Biochemical Research Methods 701 7% 0% 148
9 Biophysics 546 7% 0% 146
10 Microbiology 263 6% 0% 130

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 ORG EVOLUC GENOMA 215279 1% 54% 28
2 STEM CELLS GENE DRUGS GANSU PROV 42841 0% 100% 3
3 DISTRIBUTED INFORMAT 30414 0% 30% 7
4 GUANGZHOU EAST CAMPUS 28561 0% 100% 2
5 INSECT OURCE ENGN LIAONING PROV 28561 0% 100% 2
6 PHYSICOTECH SCI TRAINING 28561 0% 100% 2
7 UMI CNRS UCHILE 2071 28561 0% 100% 2
8 CHEMINFORMAT BIOINFORMAT 21418 0% 50% 3
9 ESCUELA UNIV TECNOL MED 21418 0% 50% 3
10 O GENET MEJORA ANIM 21418 0% 50% 3

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 JOURNAL OF MOLECULAR EVOLUTION 71302 6% 4% 138
2 MOLECULAR BIOLOGY AND EVOLUTION 23015 4% 2% 95
3 DNA RESEARCH 10825 1% 3% 22
4 NUCLEIC ACIDS RESEARCH 8182 7% 0% 152
5 JOURNAL OF THEORETICAL BIOLOGY 6198 3% 1% 69
6 GENOME BIOLOGY AND EVOLUTION 5559 1% 2% 23
7 GENE 5465 4% 0% 87
8 EVOLUTIONARY BIOINFORMATICS 3655 0% 3% 9
9 JOURNAL OF BIOMOLECULAR STRUCTURE & DYNAMICS 3525 1% 1% 28
10 BMC GENOMICS 3221 2% 0% 47

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 CODON USAGE 1100847 10% 35% 219 Search CODON+USAGE Search CODON+USAGE
2 CODON USAGE BIAS 1060078 5% 66% 113 Search CODON+USAGE+BIAS Search CODON+USAGE+BIAS
3 SYNONYMOUS CODON USAGE 704219 3% 82% 60 Search SYNONYMOUS+CODON+USAGE Search SYNONYMOUS+CODON+USAGE
4 TRANSLATIONAL SELECTION 651628 2% 89% 51 Search TRANSLATIONAL+SELECTION Search TRANSLATIONAL+SELECTION
5 CODON BIAS 427624 4% 36% 83 Search CODON+BIAS Search CODON+BIAS
6 OPTIMAL CODONS 329019 1% 96% 24 Search OPTIMAL+CODONS Search OPTIMAL+CODONS
7 MUTATIONAL BIAS 292893 2% 51% 40 Search MUTATIONAL+BIAS Search MUTATIONAL+BIAS
8 AMINO ACID USAGE 249245 1% 73% 24 Search AMINO+ACID+USAGE Search AMINO+ACID+USAGE
9 MUTATIONAL PRESSURE 242210 1% 81% 21 Search MUTATIONAL+PRESSURE Search MUTATIONAL+PRESSURE
10 EFFECTIVE NUMBER OF CODONS 224134 1% 83% 19 Search EFFECTIVE+NUMBER+OF+CODONS Search EFFECTIVE+NUMBER+OF+CODONS

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 PLOTKIN, JB , KUDLA, G , (2011) SYNONYMOUS BUT NOT THE SAME: THE CAUSES AND CONSEQUENCES OF CODON BIAS.NATURE REVIEWS GENETICS. VOL. 12. ISSUE 1. P. 32-42 83 63% 365
2 QUAX, TEF , CLAASSENS, NJ , SOLL, D , VAN DER OOST, J , (2015) CODON BIAS AS A MEANS TO FINE-TUNE GENE EXPRESSION.MOLECULAR CELL. VOL. 59. ISSUE 2. P. 149 -161 61 76% 30
3 SUPEK, F , (2016) THE CODE OF SILENCE: WIDESPREAD ASSOCIATIONS BETWEEN SYNONYMOUS CODON BIASES AND GENE FUNCTION.JOURNAL OF MOLECULAR EVOLUTION. VOL. 82. ISSUE 1. P. 65 -73 71 71% 4
4 KOMAR, AA , (2016) THE YIN AND YANG OF CODON USAGE.HUMAN MOLECULAR GENETICS. VOL. 25. ISSUE . P. R77 -R85 73 74% 2
5 BEHURA, SK , SEVERSON, DW , (2013) CODON USAGE BIAS: CAUSATIVE FACTORS, QUANTIFICATION METHODS AND GENOME-WIDE PATTERNS: WITH EMPHASIS ON INSECT GENOMES.BIOLOGICAL REVIEWS. VOL. 88. ISSUE 1. P. 49 -61 70 69% 35
6 CHANEY, JL , CLARK, PL , (2015) ROLES FOR SYNONYMOUS CODON USAGE IN PROTEIN BIOGENESIS.ANNUAL REVIEW OF BIOPHYSICS, VOL 44. VOL. 44. ISSUE . P. 143 -166 75 54% 18
7 GINGOLD, H , PILPEL, Y , (2011) DETERMINANTS OF TRANSLATION EFFICIENCY AND ACCURACY.MOLECULAR SYSTEMS BIOLOGY. VOL. 7. ISSUE . P. - 68 55% 134
8 ROY, A , MUKHOPADHYAY, S , SARKAR, I , SEN, A , (2015) COMPARATIVE INVESTIGATION OF THE VARIOUS DETERMINANTS THAT INFLUENCE THE CODON AND AMINO ACID USAGE PATTERNS IN THE GENUS BIFIDOBACTERIUM.WORLD JOURNAL OF MICROBIOLOGY & BIOTECHNOLOGY. VOL. 31. ISSUE 6. P. 959 -981 66 72% 1
9 ANGOV, E , (2011) CODON USAGE: NATURE'S ROADMAP TO EXPRESSION AND FOLDING OF PROTEINS.BIOTECHNOLOGY JOURNAL. VOL. 6. ISSUE 6. P. 650 -659 63 65% 58
10 ZUR, H , TULLER, T , (2016) PREDICTIVE BIOPHYSICAL MODELING AND UNDERSTANDING OF THE DYNAMICS OF MRNA TRANSLATION AND ITS EVOLUTION.NUCLEIC ACIDS RESEARCH. VOL. 44. ISSUE 19. P. 9031 -9049 91 48% 0

Classes with closest relation at Level 1


Rank Class id link
1 13045 ISOCHORES//EVOLUZ MOL//MALE MUTATION BIAS
2 10629 GENETIC CODE//CIRCULAR CODE//EQUIPE BIOINFORMAT THEOR
3 24205 TRIGGER FACTOR//COTRANSLATIONAL FOLDING//NASCENT CHAIN
4 14173 RIBOSOME PROFILING//UORF//UPSTREAM OPEN READING FRAME
5 11165 LATENT PERIODICITY//TRIPLET PERIODICITY//LONG RANGE CORRELATION
6 10256 CODON MODELS//POSITIVE SELECTION//MOLECULAR BIOLOGY AND EVOLUTION
7 9543 SHINE DALGARNO SEQUENCE//LEADERLESS MRNA//TRANSLATION INITIATION
8 33129 IND BIOCHEM PROGRAM//BETA METHYLNORLEUCINE//CX 397
9 12242 GRAPHICAL REPRESENTATION//ALIGNMENT FREE//ALIGNMENT FREE METHOD
10 6806 TRANSLATION TERMINATION//RELEASE FACTOR//FRAMESHIFT

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