Class information for:
Level 1: RIBOSOME PROFILING//UORF//UPSTREAM OPEN READING FRAME

Basic class information
Class id #P Avg. number of
references		 Database coverage
of references
14173 787 46.8 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
153 3       BIOCHEMISTRY & MOLECULAR BIOLOGY//RIBOSOME//RNA 62593
1632 2             EIF4E//TRANSLATION INITIATION//IRES 6984
14173 1                   RIBOSOME PROFILING//UORF//UPSTREAM OPEN READING FRAME 787

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 RIBOSOME PROFILING authKW 496181 3% 47% 27
2 UORF authKW 405536 4% 37% 28
3 UPSTREAM OPEN READING FRAME authKW 225715 2% 36% 16
4 SCANNING MODEL authKW 190107 1% 70% 7
5 AUG CONTEXT authKW 174589 1% 75% 6
6 ARABIDOPSIS THALIANA T87 authKW 116395 0% 100% 3
7 KOZAK MOTIF authKW 116395 0% 100% 3
8 NON AUG INITIATION authKW 107769 1% 56% 5
9 UPSTREAM OPEN READING FRAME UORF authKW 96991 1% 50% 5
10 RIBO SEQ authKW 88678 1% 57% 4

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 Biochemistry & Molecular Biology 4233 60% 0% 472
2 Cell Biology 1276 22% 0% 172
3 Genetics & Heredity 1075 16% 0% 129
4 Biotechnology & Applied Microbiology 1013 16% 0% 128
5 Biochemical Research Methods 622 10% 0% 80
6 Mathematical & Computational Biology 430 5% 0% 36
7 Plant Sciences 293 10% 0% 78
8 Biophysics 160 6% 0% 49
9 Biology 103 4% 0% 31
10 Virology 78 3% 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 COLUMBIA UNIV MD PHD PROGRAM 77597 0% 100% 2
2 BACTERIAL INFECTSHINJUKU KU 38798 0% 100% 1
3 BELGIUM CFP 38798 0% 100% 1
4 BIOBIX MATH MODELLING STAT BIOINFORMAT 38798 0% 100% 1
5 BIOCHEM BOELELAAN 1083 38798 0% 100% 1
6 BIOENGN BIOTECHNOL STATE ETHN AFFAIRS C 38798 0% 100% 1
7 CBIIGBMCCNRSUMR 7104U964 38798 0% 100% 1
8 COLUMBIA SULZBERGER GENOME 38798 0% 100% 1
9 DIPARTIMENTO FIS BIOCHIM GEN 38798 0% 100% 1
10 DIRECT SCI VIVANTCOMMISSARIAT ENERGIA ATOM 38798 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 NUCLEIC ACIDS RESEARCH 4214 8% 0% 66
2 MOLECULAR SYSTEMS BIOLOGY 4139 1% 1% 9
3 PLANT BIOTECHNOLOGY 2786 1% 1% 7
4 GENOME RESEARCH 2269 1% 1% 9
5 MOLECULAR AND CELLULAR BIOLOGY 1742 4% 0% 32
6 WILEY INTERDISCIPLINARY REVIEWS-RNA 1684 1% 1% 4
7 RNA 1513 1% 0% 10
8 ELIFE 1301 1% 0% 10
9 MOLECULAR & CELLULAR PROTEOMICS 1242 1% 0% 10
10 GENOME BIOLOGY 1038 1% 0% 9

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 RIBOSOME PROFILING 496181 3% 47% 27 Search RIBOSOME+PROFILING Search RIBOSOME+PROFILING
2 UORF 405536 4% 37% 28 Search UORF Search UORF
3 UPSTREAM OPEN READING FRAME 225715 2% 36% 16 Search UPSTREAM+OPEN+READING+FRAME Search UPSTREAM+OPEN+READING+FRAME
4 SCANNING MODEL 190107 1% 70% 7 Search SCANNING+MODEL Search SCANNING+MODEL
5 AUG CONTEXT 174589 1% 75% 6 Search AUG+CONTEXT Search AUG+CONTEXT
6 ARABIDOPSIS THALIANA T87 116395 0% 100% 3 Search ARABIDOPSIS+THALIANA+T87 Search ARABIDOPSIS+THALIANA+T87
7 KOZAK MOTIF 116395 0% 100% 3 Search KOZAK+MOTIF Search KOZAK+MOTIF
8 NON AUG INITIATION 107769 1% 56% 5 Search NON+AUG+INITIATION Search NON+AUG+INITIATION
9 UPSTREAM OPEN READING FRAME UORF 96991 1% 50% 5 Search UPSTREAM+OPEN+READING+FRAME+UORF Search UPSTREAM+OPEN+READING+FRAME+UORF
10 RIBO SEQ 88678 1% 57% 4 Search RIBO+SEQ Search RIBO+SEQ

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 ANDREWS, SJ , ROTHNAGEL, JA , (2014) EMERGING EVIDENCE FOR FUNCTIONAL PEPTIDES ENCODED BY SHORT OPEN READING FRAMES.NATURE REVIEWS GENETICS. VOL. 15. ISSUE 3. P. 193-204 63 55% 94
2 HELLENS, RP , BROWN, CM , CHISNAL, MAW , WATERHOUSE, PM , MACKNIGHT, RC , (2016) THE EMERGING WORLD OF SMALL ORFS.TRENDS IN PLANT SCIENCE. VOL. 21. ISSUE 4. P. 317 -328 46 53% 5
3 BRAR, GA , WEISSMAN, JS , (2015) RIBOSOME PROFILING REVEALS THE WHAT, WHEN, WHERE AND HOW OF PROTEIN SYNTHESIS.NATURE REVIEWS MOLECULAR CELL BIOLOGY. VOL. 16. ISSUE 11. P. 651 -664 45 42% 21
4 PUEYO, JI , MAGNY, EG , COUSO, JP , (2016) NEW PEPTIDES UNDER THE S(ORF)ACE OF THE GENOME.TRENDS IN BIOCHEMICAL SCIENCES. VOL. 41. ISSUE 8. P. 665 -678 44 57% 0
5 MOUILLERON, H , DELCOURT, V , ROUCOU, X , (2016) DEATH OF A DOGMA: EUKARYOTIC MRNAS CAN CODE FOR MORE THAN ONE PROTEIN.NUCLEIC ACIDS RESEARCH. VOL. 44. ISSUE 1. P. 14 -23 50 41% 2
6 TAKAHASHI, H , TAKAHASHI, A , NAITO, S , ONOUCHI, H , (2012) BAIUCAS: A NOVEL BLAST-BASED ALGORITHM FOR THE IDENTIFICATION OF UPSTREAM OPEN READING FRAMES WITH CONSERVED AMINO ACID SEQUENCES AND ITS APPLICATION TO THE ARABIDOPSIS THALIANA GENOME.BIOINFORMATICS. VOL. 28. ISSUE 17. P. 2231-2241 27 84% 13
7 INGOLIA, NT , (2016) RIBOSOME FOOTPRINT PROFILING OF TRANSLATION THROUGHOUT THE GENOME.CELL. VOL. 165. ISSUE 1. P. 22 -33 35 38% 10
8 WETHMAR, K , (2014) THE REGULATORY POTENTIAL OF UPSTREAM OPEN READING FRAMES IN EUKARYOTIC GENE EXPRESSION.WILEY INTERDISCIPLINARY REVIEWS-RNA. VOL. 5. ISSUE 6. P. 765 -778 44 43% 22
9 JOHNSTONE, TG , BAZZINI, AA , GIRALDEZ, AJ , (2016) UPSTREAM ORFS ARE PREVALENT TRANSLATIONAL REPRESSORS IN VERTEBRATES.EMBO JOURNAL. VOL. 35. ISSUE 7. P. 706 -723 35 40% 8
10 MICHEL, AM , ANDREEV, DE , BARANOV, PV , (2014) COMPUTATIONAL APPROACH FOR CALCULATING THE PROBABILITY OF EUKARYOTIC TRANSLATION INITIATION FROM RIBO-SEQ DATA THAT TAKES INTO ACCOUNT LEAKY SCANNING.BMC BIOINFORMATICS. VOL. 15. ISSUE . P. - 25 83% 7

Classes with closest relation at Level 1


Rank Class id link
1 5844 IRES//INTERNAL RIBOSOME ENTRY SITE//INTERNAL RIBOSOME ENTRY SITE IRES
2 35793 RIBOTAG//S100A10//4SU
3 6259 GENE REGULAT DEV//EIF3//EIF2
4 3885 EIF4E//EIF4F//CAP ANALOG
5 2829 CODON USAGE//CODON USAGE BIAS//SYNONYMOUS CODON USAGE
6 10335 NMD//UPF1//NONSENSE MEDIATED MRNA DECAY
7 9543 SHINE DALGARNO SEQUENCE//LEADERLESS MRNA//TRANSLATION INITIATION
8 37162 UNIT HISTOL EMBRYOL PL BIOL//CAENORHABDITIS ELEGANS OLFACTORY NEURONS//CODONOME
9 35063 ATF5//ACTIVATING TRANSCRIPTION FACTOR 5//BATF2
10 10834 BADNAVIRUS//CAULIMOVIRUS//BANANA STREAK VIRUS

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