Class information for:
Level 1: PHYLODYNAMICS//TRANSMISSION TREE//SERIAL SAMPLES

Basic class information
Class id #P Avg. number of
references		 Database coverage
of references
29672 182 44.7 80%


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
3 4 PLANT SCIENCES//AGRONOMY//FOOD SCIENCE & TECHNOLOGY 1882812
69 3       PLANT SCIENCES//EVOLUTIONARY BIOLOGY//AMERICAN JOURNAL OF BOTANY 83717
826 2             CONSERVATION GENETICS RESOURCES//MICROSATELLITES//PHYLOGEOGRAPHY 11863
29672 1                   PHYLODYNAMICS//TRANSMISSION TREE//SERIAL SAMPLES 182

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 PHYLODYNAMICS authKW 1255028 13% 31% 24
2 TRANSMISSION TREE authKW 671105 3% 67% 6
3 SERIAL SAMPLES authKW 419438 3% 50% 5
4 ASSEMBLY BASED APPROACH authKW 167777 1% 100% 1
5 BAYESIAN DIFFUSION MODELS authKW 167777 1% 100% 1
6 BIOINFORMATIC TOOLS AND DATABASES authKW 167777 1% 100% 1
7 BRANCH PARTITIONING authKW 167777 1% 100% 1
8 CALIBRATED SKYWIS PLOT authKW 167777 1% 100% 1
9 CHRONICALLY INFECTED INDIVIDUAL authKW 167777 1% 100% 1
10 COMMUNICABLE DIS DYNAMICS address 167777 1% 100% 1

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 Evolutionary Biology 2756 26% 0% 47
2 Mathematical & Computational Biology 2087 20% 0% 36
3 Genetics & Heredity 1453 37% 0% 68
4 Biochemical Research Methods 572 19% 0% 35
5 Microbiology 307 18% 0% 33
6 Biology 198 10% 0% 18
7 Infectious Diseases 155 9% 0% 17
8 Biotechnology & Applied Microbiology 107 12% 0% 21
9 Ecology 75 8% 0% 15
10 Biochemistry & Molecular Biology 36 16% 0% 29

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 COMMUNICABLE DIS DYNAMICS 167777 1% 100% 1
2 EMOSTA 167777 1% 100% 1
3 EQUIPE MODELISAT STOCHAST PL EMOSTA 167777 1% 100% 1
4 EVOLUT BIOINFORMAT 167777 1% 100% 1
5 HLTH PROTECT AGCY ABORATING OXFORD 167777 1% 100% 1
6 HOSP UNIV MEDITERRANEE INFECTUM63CNRS7278 167777 1% 100% 1
7 INFECT DIS INFORMAT UNIT 167777 1% 100% 1
8 JOHN RADCLIFFE HOSP LEVEL 5 167777 1% 100% 1
9 MAT LICACOES FUNDAMENT 167777 1% 100% 1
10 MIVEGECUMR 5290IRD 224 167777 1% 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 MOLECULAR BIOLOGY AND EVOLUTION 12041 11% 0% 20
2 PLOS COMPUTATIONAL BIOLOGY 10482 9% 0% 17
3 EPIDEMICS 3047 1% 1% 2
4 JOURNAL OF THE ROYAL SOCIETY INTERFACE 1693 3% 0% 5
5 GENETICS 1579 6% 0% 11
6 PHILOSOPHICAL TRANSACTIONS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES 1366 4% 0% 7
7 GENOME MEDICINE 1022 1% 0% 2
8 BIOINFORMATICS 762 4% 0% 7
9 BRITISH JOURNAL OF BIOMEDICAL SCIENCE 755 1% 0% 2
10 TRENDS IN ECOLOGY & EVOLUTION 683 2% 0% 3

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 PHYLODYNAMICS 1255028 13% 31% 24 Search PHYLODYNAMICS Search PHYLODYNAMICS
2 TRANSMISSION TREE 671105 3% 67% 6 Search TRANSMISSION+TREE Search TRANSMISSION+TREE
3 SERIAL SAMPLES 419438 3% 50% 5 Search SERIAL+SAMPLES Search SERIAL+SAMPLES
4 ASSEMBLY BASED APPROACH 167777 1% 100% 1 Search ASSEMBLY+BASED+APPROACH Search ASSEMBLY+BASED+APPROACH
5 BAYESIAN DIFFUSION MODELS 167777 1% 100% 1 Search BAYESIAN+DIFFUSION+MODELS Search BAYESIAN+DIFFUSION+MODELS
6 BIOINFORMATIC TOOLS AND DATABASES 167777 1% 100% 1 Search BIOINFORMATIC+TOOLS+AND+DATABASES Search BIOINFORMATIC+TOOLS+AND+DATABASES
7 BRANCH PARTITIONING 167777 1% 100% 1 Search BRANCH+PARTITIONING Search BRANCH+PARTITIONING
8 CALIBRATED SKYWIS PLOT 167777 1% 100% 1 Search CALIBRATED+SKYWIS+PLOT Search CALIBRATED+SKYWIS+PLOT
9 CHRONICALLY INFECTED INDIVIDUAL 167777 1% 100% 1 Search CHRONICALLY+INFECTED+INDIVIDUAL Search CHRONICALLY+INFECTED+INDIVIDUAL
10 CORRECTED AKAIKE CRITERION 167777 1% 100% 1 Search CORRECTED+AKAIKE+CRITERION Search CORRECTED+AKAIKE+CRITERION

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 FROST, SDW , PYBUS, OG , GOG, JR , VIBOUD, C , BONHOEFFER, S , BEDFORD, T , (2015) EIGHT CHALLENGES IN PHYLODYNAMIC INFERENCE.EPIDEMICS. VOL. 10. ISSUE . P. 88 -92 19 41% 17
2 DE MAIO, N , WU, CH , WILSON, DJ , (2016) SCOTTI: EFFICIENT RECONSTRUCTION OF TRANSMISSION WITHIN OUTBREAKS WITH THE STRUCTURED COALESCENT.PLOS COMPUTATIONAL BIOLOGY. VOL. 12. ISSUE 9. P. - 19 46% 0
3 KENAH, E , BRITTON, T , HALLORAN, ME , LONGINI, IM , (2016) MOLECULAR INFECTIOUS DISEASE EPIDEMIOLOGY: SURVIVAL ANALYSIS AND ALGORITHMS LINKING PHYLOGENIES TO TRANSMISSION TREES.PLOS COMPUTATIONAL BIOLOGY. VOL. 12. ISSUE 4. P. - 21 41% 0
4 HALL, MD , WOOLHOUSE, MEJ , RAMBAUT, A , (2016) USING GENOMICS DATA TO RECONSTRUCT TRANSMISSION TREES DURING DISEASE OUTBREAKS.REVUE SCIENTIFIQUE ET TECHNIQUE-OFFICE INTERNATIONAL DES EPIZOOTIES. VOL. 35. ISSUE 1. P. 287 -296 15 56% 0
5 VOLZ, EM , FROST, SDW , (2014) SAMPLING THROUGH TIME AND PHYLODYNAMIC INFERENCE WITH COALESCENT AND BIRTH-DEATH MODELS.JOURNAL OF THE ROYAL SOCIETY INTERFACE. VOL. 11. ISSUE 101. P. - 14 54% 4
6 WORBY, CJ , CHANG, HH , HANAGE, WP , LIPSITCH, M , (2014) THE DISTRIBUTION OF PAIRWISE GENETIC DISTANCES: A TOOL FOR INVESTIGATING DISEASE TRANSMISSION.GENETICS. VOL. 198. ISSUE 4. P. 1395 -+ 12 57% 5
7 HALL, M , WOOLHOUSE, M , RAMBAUT, A , (2015) EPIDEMIC RECONSTRUCTION IN A PHYLOGENETICS FRAMEWORK: TRANSMISSION TREES AS PARTITIONS OF THE NODE SET.PLOS COMPUTATIONAL BIOLOGY. VOL. 11. ISSUE 12. P. - 17 35% 6
8 WORBY, CJ , O'NEILL, PD , KYPRAIOS, T , ROBOTHAM, JV , DE ANGELIS, D , CARTWRIGHT, EJP , PEACOCK, SJ , (2016) RECONSTRUCTING TRANSMISSION TREES FOR COMMUNICABLE DISEASES USING DENSELY SAMPLED GENETIC DATA.ANNALS OF APPLIED STATISTICS. VOL. 10. ISSUE 1. P. 395 -417 12 46% 1
9 LI, LM , GRASSLY, NC , FRASER, C , (2014) GENOMIC ANALYSIS OF EMERGING PATHOGENS: METHODS, APPLICATION AND FUTURE TRENDS.GENOME BIOLOGY. VOL. 15. ISSUE 11. P. - 18 33% 5
10 STADLER, T , VAUGHAN, TG , GAVRYUSHKIN, A , GUINDON, S , KUHNERT, D , LEVENTHAL, GE , DRUMMOND, AJ , (2015) HOW WELL CAN THE EXPONENTIAL-GROWTH COALESCENT APPROXIMATE CONSTANT-RATE BIRTH-DEATH POPULATION DYNAMICS?.PROCEEDINGS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES. VOL. 282. ISSUE 1806. P. - 15 39% 1

Classes with closest relation at Level 1


Rank Class id link
1 11448 ANTIGENIC DRIFT//CROSS IMMUNITY//INFLUENZA B VIRUS
2 1588 AIDS RESEARCH AND HUMAN RETROVIRUSES//HIV 1 SUBTYPES//CIRCULATING RECOMBINANT FORMS
3 5613 MACROEVOLUTION//COMPARATIVE METHOD//DIVERSIFICATION RATES
4 20234 RECOMBINATION DETECTION//SPECIES CONCEPT//PERIODIC SELECTION
5 16147 WRIGHT FISHER MODEL//LAMBDA COALESCENT//COALESCENT
6 24748 APPROXIMATE BAYESIAN COMPUTATION//LIKELIHOOD FREE INFERENCE//LIKELIHOOD FREE METHODS
7 2640 SELECTIVE SWEEP//MCDONALD KREITMAN TEST//GENETICS
8 2379 PANDEMIC//INFLUENZA//EPIDEMICS
9 16729 PICOBIRNAVIRUS//KOBUVIRUS//REFERENCE GASTROENTER VIRUSES
10 2013 GENOME ASSEMBLY//BIOINFORMATICS//VARIANT CALLING

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