cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.91917.v1
title: sparql3WP716.csv

description: PREFIX dcterms: PREFIX dc: PREFIX skos: PREFIX str: PREFIX pao: SELECT DISTINCT ?pmid COUNT(DISTINCT ?concept) AS ?count WHERE { { SELECT DISTINCT ?concept WHERE { { SELECT ?wpLinkout WHERE { SERVICE { dcterms:hasVersion ?pwversion . ?pwNode dcterms:isPartOf ?pwversion . ?pwNode dc:identifier ?wpLinkout . } } } ?wpLinkout skos:exactMatch ?scaiLinkout . ?concept skos:exactMatch ?scaiLinkout . } } ?concept pao:incarnationOf ?hit . ?hit str:subString ?pmid . ?pmid rdf:type str:Document . OPTIONAL { { SELECT DISTINCT ?pmidOrigin WHERE { SERVICE { dcterms:hasVersion ?pwversion . ?pwNode dcterms:isPartOf ?pwversion . ?pwNode dcterms:bibliographicCitation ?pmidOrigin . } } } FILTER (?pmidOrigin = ?pmid) . } FILTER (!BOUND(?pmidOrigin)) . } ORDER BY DESC (?count)
DOI: 10.6084/m9.figshare.91905
title: Data Matrix for Phylogenetic Analysis of Enantiornithes including RAM 14306

description: Data matrix in TNT format, used to infer the phylogenetic position of RAM 14306 (Raymond M. Alf Museum of Paleontology, Claremont, California) within Aves (as published in Farke & Patel, in press). RAM 14306 is the coracoid of an enantiornithine bird from the Campanian-aged Kaiparowits Formation of southern Utah, USA. The data within the matrix were taken from matrices published by Ji et al. (2011) and O'Connor et al. (2009), with codings for RAM 14306 added by Farke. Character descriptions are provided by O'Connor et al. (2009) and references therein. <strong>Citations</strong> Farke, A. A., and P. P. Patel. In press. An enantiornithine bird from the Campanian Kaiparowits Formation of Utah, USA. Cretaceous Research. doi: 10.1016/j.cretres.2012.04.002 Ji, S.-A., Atterholt, J., O’Connor, J.K., Lamanna, M.C., Harris, J.D., Li, D.-Q., You , H. Dodson, P., 2011. A new, three-dimensionally preserved enantiornithine bird (Aves: Ornithothoraces) from Gansu Province, north-western China. Zoological Journal of the Linnean Society 162, 201–219. O’Connor, J.K., Wang X-R, Chiappe L.M., Gao C-H, Meng Q-J, Cheng X-D., Liu J-Y, 2009. Phylogenetic support for a specialized clade of Cretaceous enantiornithine birds with information from a new species. Journal of Vertebrate Paleontology 29, 188–204.
DOI: 10.6084/m9.figshare.91910
title: WP716.csv

description: This is the result of query : PREFIX dcterms: PREFIX dc: PREFIX skos: PREFIX str: } PREFIX pao: vocabular/pao\#&gt; PREFIX wp: SELECT DISTINCT ?concept ?label WHERE { SELECT DISTINCT ?concept ?label WHERE { SERVICE 8000/sparql/&gt; { wp:WP716 dcterms:hasVersion ?pwversion . ?pwNode dcterms:isPartOf ?pwversion . ?pwNode dcterms:bibliographicCitation ?pmid .} ?pmid rdf:type str:Document . ?hit str:subString ?pmid . ?concept pao:incarnationOf ?hit . ?concept skos:prefLabel ?label .}} OPTIONAL{{ SELECT DISTINCT ?scaiLinkout WHERE { SERVICE 8000/sparql/&gt; { wp:WP716 dcterms:hasVersion ?pwversion . ?pwNode dcterms:isPartOf ?pwversion . ?pwNode dc:identifier ?wpLinkout .} ?wpLinkout skos:exactMatch ?scaiLinkout .}} ?conceptTmp skos:exactMatch ?scaiLinkout . FILTER (?concept = ?conceptTmp) .} FILTER (!BOUND(?conceptTmp)) .}
DOI: 10.6084/m9.figshare.91911
title: WP1531.csv

description: This is the result of query: PREFIX dcterms: PREFIX dc: PREFIX skos: PREFIX str: } PREFIX pao: vocabular/pao\#&gt; PREFIX wp: SELECT DISTINCT ?concept ?label WHERE { SELECT DISTINCT ?concept ?label WHERE { SERVICE 8000/sparql/&gt; { wp:WP1531 dcterms:hasVersion ?pwversion . ?pwNode dcterms:isPartOf ?pwversion . ?pwNode dcterms:bibliographicCitation ?pmid .} ?pmid rdf:type str:Document . ?hit str:subString ?pmid . ?concept pao:incarnationOf ?hit . ?concept skos:prefLabel ?label .}} OPTIONAL{{ SELECT DISTINCT ?scaiLinkout WHERE { SERVICE 8000/sparql/&gt; { wp:WP1531 dcterms:hasVersion ?pwversion . ?pwNode dcterms:isPartOf ?pwversion . ?pwNode dc:identifier ?wpLinkout .} ?wpLinkout skos:exactMatch ?scaiLinkout .}} ?conceptTmp skos:exactMatch ?scaiLinkout . FILTER (?concept = ?conceptTmp) .} FILTER (!BOUND(?conceptTmp)) .}
DOI: 10.6084/m9.figshare.91912.v1
title: SparqlQuery2.csv

description: This is the output file of the following federated sparql query: PREFIX dcterms: } PREFIX skos: PREFIX str: PREFIX pao: vocabular/pao\#&gt; PREFIX hmdbid: WikiPathways/HMDB/&gt; SELECT DISTINCT ?pmid ?title WHERE {{ SELECT DISTINCT ?pmid WHERE { hmdbid:HMDB03598 skos:exactMatch ?scaiLinkout . ?concept skos:exactMatch ?scaiLinkout . ?concept pao:incarnationOf ?hit . ?hit str:subString ?pmid . ?pmid rdf:type str:Document .}} hmdbid:HMDB00305&gt; skos:exactMatch ?scaiLinkout . ?concept skos:exactMatch ?scaiLinkout . ?concept pao:incarnationOf ?hit . ?hit str:subString ?pmid .
DOI: 10.6084/m9.figshare.91904
title: Arduino LCD code

description: This is the beginning of my Final lab project code that will eventually be an accelerometer with an LCD screen This code is not by any means perfect and I have since made improvements. It does not convert voltage to acceleration yet read by the accelerometer.
DOI: 10.6084/m9.figshare.91910.v1
title: WP716.csv

description: This is the result of query : PREFIX dcterms: PREFIX dc: PREFIX skos: PREFIX str: } PREFIX pao: vocabular/pao\#&gt; PREFIX wp: SELECT DISTINCT ?concept ?label WHERE { SELECT DISTINCT ?concept ?label WHERE { SERVICE 8000/sparql/&gt; { wp:WP716 dcterms:hasVersion ?pwversion . ?pwNode dcterms:isPartOf ?pwversion . ?pwNode dcterms:bibliographicCitation ?pmid .} ?pmid rdf:type str:Document . ?hit str:subString ?pmid . ?concept pao:incarnationOf ?hit . ?concept skos:prefLabel ?label .}} OPTIONAL{{ SELECT DISTINCT ?scaiLinkout WHERE { SERVICE 8000/sparql/&gt; { wp:WP716 dcterms:hasVersion ?pwversion . ?pwNode dcterms:isPartOf ?pwversion . ?pwNode dc:identifier ?wpLinkout .} ?wpLinkout skos:exactMatch ?scaiLinkout .}} ?conceptTmp skos:exactMatch ?scaiLinkout . FILTER (?concept = ?conceptTmp) .} FILTER (!BOUND(?conceptTmp)) .}
DOI: 10.6084/m9.figshare.91829
title: Topic models generated from reports collected during the 1st quarter of 2012 on Looted Heritage

description: Output of topic modeling in csv and html form. 400 iterations. 207 reports collected from Looted Heritage: Monitoring the Illicit Antiquities Trade, heritage.crowdmap.com. Go to 'index.html' in the html folder to click through topics and reports. The quantitative data is contained in the csv folders.
DOI: 10.6084/m9.figshare.91700
title: Visualized topic - report connections generated by topic modeling reports collected from Looted Heritage

description: Two mode network connecting 'reports' from heritage.crowdmap.com to topics generated by MALLET on same. Connection is weighted according to the percentage composition.
DOI: 10.6084/m9.figshare.91828
title: Full Text of 207 Reports from 1st Quarter of 2012 on Looted Heritage

description: 207 reports culled from heritage.crowdmap.com, which were then analyzed for topic models using MALLET
DOI: 10.6084/m9.figshare.91700.v2
title: Visualized topic - report connections generated by topic modeling reports collected from Looted Heritage

description: Two mode network connecting 'reports' from heritage.crowdmap.com to topics generated by MALLET on same. Connection is weighted according to the percentage composition.
DOI: 10.6084/m9.figshare.91829.v1
title: topic models.zip

description: Output of topic modeling in csv and html form. 400 iterations.
DOI: 10.6084/m9.figshare.91671
title: E. Coli Growth over 4 hours

description: In preparation for some deuterium effects on E. coli and S. cerevisiae, I grew a starter culture and diluted it in 3 different concentrations. 1:10, 1:5, and 1:2. These dilutions were then grown at 37C for 4 hours and an absorption measurement was taken every hour. This fileset contains the raw data and some played with data, along with some figures made in Excel from the data. The file labeled "arb-ecoli-growth.png" is a figure made from manipulated data. I tried to combine the three data sets into one graph to see if I could extract some sort of growth information. I'm pretty sure I didn't do it right, but I included the image here nonetheless. In the 1:10 dilution sample, the cells would double in slightly less than one hour, every hour. In the 1:2 dilution, the growth rate was much slower, and the growth rate seemed to peak rather early in the trial. The 1:5 dilution is an overlap of growths between both the 1:10 and 1:2 dilutions. I don't know what to make of that. Also included in the fileset is an image of the absorbance spectrum from the nanodrop for every sample (including blanks taken every hour).
DOI: 10.6084/m9.figshare.91700.v1
title: reports-to-topics.gephi

description: Two mode network connecting 'reports' from heritage.crowdmap.com to topics generated by MALLET on same. Connection is weighted according to the percentage composition.
DOI: 10.6084/m9.figshare.91828.v2
title: Full Text of 207 Reports from 1st Quarter of 2012 on Looted Heritage

description: 207 reports culled from heritage.crowdmap.com, which were then analyzed for topic models using MALLET
DOI: 10.6084/m9.figshare.91829.v3
title: Topic models generated from reports collected during the 1st quarter of 2012 on Looted Heritage

description: Output of topic modeling in csv and html form. 400 iterations. 207 reports collected from Looted Heritage: Monitoring the Illicit Antiquities Trade, heritage.crowdmap.com. Go to 'index.html' in the html folder to click through topics and reports. The quantitative data is contained in the csv folders.
DOI: 10.6084/m9.figshare.91828.v1
title: looted_heritage_reports_txt.zip

description: 207 reports culled from heritage.crowdmap.com, which were then analyzed for topic models using MALLET
DOI: 10.6084/m9.figshare.91829.v2
title: Topic models generated from reports collected during the 1st quarter of 2012 on Looted Heritage

description: Output of topic modeling in csv and html form. 400 iterations. 207 reports collected from Looted Heritage: Monitoring the Illicit Antiquities Trade, heritage.crowdmap.com. Go to 'index.html' in the html folder to click through topics and reports. The quantitative data is contained in the csv folders.
DOI: 10.6084/m9.figshare.91671.v1
title: E. Coli Growth over 4 hours

description: In preparation for some deuterium effects on E. coli and S. cerevisiae, I grew a starter culture and diluted it in 3 different concentrations. 1:10, 1:5, and 1:2. These dilutions were then grown at 37C for 4 hours and an absorption measurement was taken every hour. This fileset contains the raw data and some played with data, along with some figures made in Excel from the data. The file labeled "arb-ecoli-growth.png" is a figure made from manipulated data. I tried to combine the three data sets into one graph to see if I could extract some sort of growth information. I'm pretty sure I didn't do it right, but I included the image here nonetheless. In the 1:10 dilution sample, the cells would double in slightly less than one hour, every hour. In the 1:2 dilution, the growth rate was much slower, and the growth rate seemed to peak rather early in the trial. The 1:5 dilution is an overlap of growths between both the 1:10 and 1:2 dilutions. I don't know what to make of that. Also included in the fileset is an image of the absorbance spectrum from the nanodrop for every sample (including blanks taken every hour).
DOI: 10.6084/m9.figshare.91640
title: Raw H-NMR (DMSO-d6) of 2-(3,4-dimethoxyphenyl)-N-(4-nitrobenzylidene)ethanamine

description: Raw H-NMR (300 MHz; DMSO-d<sub>6</sub>) of the isolated crude product from the attempt at the AgOTf catalysed (20 mol%) cyclisation reaction of 2-(3,4-dimethoxyphenyl)-N-(4-nitrobenzylidene)ethanamine to give 6,7-dimethoxy-1-(4-nitrophenyl)-1,2,3,4-tetrahydroisoquinoline (reaction KAB24-6). The spectrum consists of starting material with trace amounts of 4-nitrobenzaldehyde. Greater resolution of the imine proton than in the spectrum recorded in CDCl<sub>3</sub>. SMILES: O=[N+]([O-])C1=CC=C(/C=N/CCC2=CC(OC)=C(OC)C=C2)C=C1 InChI: InChI=1S/C17H18N2O4/c1-22-16-8-5-13(11-17(16)23-2)9-10-18-12-14-3-6-15(7-4-14)19(20)21/h3-8,11-12H,9-10H2,1-2H3/b18-12- <sup>1</sup>H-NMR (300 MHz; DMSO-d<sub>6</sub>): δ 8.40 (s, 1H), 8.30-8.26 (m, 2H), 7.99-7.94 (m, 2H), 6.84 (dd, <em>J</em> = 5.0, 3.1 Hz, 2H), 6.74 (dd, <em>J</em> = 8.1, 1.9 Hz, 1H), 3.86 (t, <em>J</em> = 6.9 Hz, 2H), 2.89 (t, <em>J</em> = 7.2 Hz, 2H).
DOI: 10.6084/m9.figshare.91640.v1
title: Raw H-NMR (DMSO-d6) of 2-(3,4-dimethoxyphenyl)-N-(4-nitrobenzylidene)ethanamine

description: Raw H-NMR (300 MHz; DMSO-d<sub>6</sub>) of the isolated crude product from the attempt at the AgOTf catalysed (20 mol%) cyclisation reaction of 2-(3,4-dimethoxyphenyl)-N-(4-nitrobenzylidene)ethanamine to give 6,7-dimethoxy-1-(4-nitrophenyl)-1,2,3,4-tetrahydroisoquinoline (reaction KAB24-6). The spectrum consists of starting material with trace amounts of 4-nitrobenzaldehyde. Greater resolution of the imine proton than in the spectrum recorded in CDCl<sub>3</sub>. SMILES: O=[N+]([O-])C1=CC=C(/C=N/CCC2=CC(OC)=C(OC)C=C2)C=C1 InChI: InChI=1S/C17H18N2O4/c1-22-16-8-5-13(11-17(16)23-2)9-10-18-12-14-3-6-15(7-4-14)19(20)21/h3-8,11-12H,9-10H2,1-2H3/b18-12- <sup>1</sup>H-NMR (300 MHz; DMSO-d<sub>6</sub>): δ 8.40 (s, 1H), 8.30-8.26 (m, 2H), 7.99-7.94 (m, 2H), 6.84 (dd, <em>J</em> = 5.0, 3.1 Hz, 2H), 6.74 (dd, <em>J</em> = 8.1, 1.9 Hz, 1H), 3.86 (t, <em>J</em> = 6.9 Hz, 2H), 2.89 (t, <em>J</em> = 7.2 Hz, 2H).
DOI: 10.6084/m9.figshare.91639.v1
title: H-NMR of 2-(3,4-dimethoxyphenyl)-N-(4-nitrobenzylidene)ethanamine

description: H-NMR (300 MHz; DMSO-d<sub>6</sub>) of the isolated crude product from the attempt at the AgOTf catalysed (20 mol%) cyclisation reaction of 2-(3,4-dimethoxyphenyl)-N-(4-nitrobenzylidene)ethanamine to give 6,7-dimethoxy-1-(4-nitrophenyl)-1,2,3,4-tetrahydroisoquinoline (reaction KAB24-6). The spectrum consists of starting material with trace amounts of 4-nitrobenzaldehyde. SMILES: O=[N+]([O-])C1=CC=C(/C=N/CCC2=CC(OC)=C(OC)C=C2)C=C1 InChI: InChI=1S/C17H18N2O4/c1-22-16-8-5-13(11-17(16)23-2)9-10-18-12-14-3-6-15(7-4-14)19(20)21/h3-8,11-12H,9-10H2,1-2H3/b18-12- <sup>1</sup>H-NMR (300 MHz; DMSO-d<sub>6</sub>): δ 8.40 (s, 1H), 8.30-8.26 (m, 2H), 7.99-7.94 (m, 2H), 6.84 (dd, <em>J</em> = 5.0, 3.1 Hz, 2H), 6.74 (dd, <em>J</em> = 8.1, 1.9 Hz, 1H), 3.86 (t, <em>J</em> = 6.9 Hz, 2H), 2.89 (t, <em>J</em> = 7.2 Hz, 2H).
DOI: 10.6084/m9.figshare.91620
title: Raw H-NMR of 2-(3,4-dimethoxyphenyl)-N-(4-nitrobenzylidene)ethanamine

description: Raw H-NMR file of 2-(3,4-dimethoxyphenyl)-N-(4-nitrobenzylidene)ethanamine (200 MHz, CDCl3). SMILES: COC1=C(OC)C=CC(CC/N=C/C2=CC=C([N+]([O-])=O)C=C2)=C1 InChI: InChI=1S/C17H18N2O4/c1-22-16-8-5-13(11-17(16)23-2)9-10-18-12-14-3-6-15(7-4-14)19(20)21/h3-8,11-12H,9-10H2,1-2H3/b18-12-
DOI: 10.6084/m9.figshare.91621.v1
title: H-NMR of 2-(3,4-dimethoxyphenyl)-N-(4-nitrobenzylidene)ethanamine

description: H-NMR of 2-(3,4-dimethoxyphenyl)-N-(4-nitrobenzylidene)ethanamine (200 MHz, CDCl3) following recrystallisation of the of crude product from ethanol. SMILES: COC1=C(OC)C=CC(CC/N=C/C2=CC=C([N+]([O-])=O)C=C2)=C1 InChI: InChI=1S/C17H18N2O4/c1-22-16-8-5-13(11-17(16)23-2)9-10-18-12-14-3-6-15(7-4-14)19(20)21/h3-8,11-12H,9-10H2,1-2H3/b18-12-
DOI: 10.6084/m9.figshare.91627.v3
title: Зачем программирование грамотному человеку? (эссе)

description: Авторский черновик эссе, опубликованного в журнале "Информатика и образование" (№ 10, 2011).
DOI: 10.6084/m9.figshare.91619
title: Spreadsheet: Population of Isomers at Equilibrium as a Function of their Relative Energies

description: Spreadsheet for the Figure: Popoluation of Isomers at Equilibrium as a Function of their Relative Energies.
DOI: 10.6084/m9.figshare.91620.v2
title: Raw H-NMR of 2-(3,4-dimethoxyphenyl)-N-(4-nitrobenzylidene)ethanamine

description: Raw H-NMR file of 2-(3,4-dimethoxyphenyl)-N-(4-nitrobenzylidene)ethanamine (200 MHz, CDCl3). SMILES: COC1=C(OC)C=CC(CC/N=C/C2=CC=C([N+]([O-])=O)C=C2)=C1 InChI: InChI=1S/C17H18N2O4/c1-22-16-8-5-13(11-17(16)23-2)9-10-18-12-14-3-6-15(7-4-14)19(20)21/h3-8,11-12H,9-10H2,1-2H3/b18-12-
DOI: 10.6084/m9.figshare.91620.v1
title: H-NMR of 2-(3,4-dimethoxyphenyl)-N-(4-nitrobenzylidene)ethanamine

description: Raw H-NMR file of 2-(3,4-dimethoxyphenyl)-N-(4-nitrobenzylidene)ethanamine (200 MHz, CDCl3). SMILES: COC1=C(OC)C=CC(CC/N=C/C2=CC=C([N+]([O-])=O)C=C2)=C1 InChI: InChI=1S/C17H18N2O4/c1-22-16-8-5-13(11-17(16)23-2)9-10-18-12-14-3-6-15(7-4-14)19(20)21/h3-8,11-12H,9-10H2,1-2H3/b18-12-
DOI: 10.6084/m9.figshare.91619.v2
title: Spreadsheet: Population of Isomers at Equilibrium as a Function of their Relative Energies

description: Spreadsheet for the Figure: Popoluation of Isomers at Equilibrium as a Function of their Relative Energies.
DOI: 10.6084/m9.figshare.91619.v1
title: Spreadsheet: Popoluation of Isomers at Equilibrium as a Function of their Relative Energies

description: Spreadsheet for the Figure: Popoluation of Isomers at Equilibrium as a Function of their Relative Energies.
DOI: 10.6084/m9.figshare.91617.v1
title: My Thesis

description: This is my thesis, entitled "Characterization of neutral lipid deficient strains of Saccharomyces cerevisiae." It was deposited into the Columbia University library in March 2008.
DOI: 10.6084/m9.figshare.91618.v1
title: Proportion of Isomers as a Function of the Difference in Energy

description: Constructed using the equation -RT = ln K. T = 298 K.
DOI: 10.6084/m9.figshare.91565
title: Bay scallop population structure on Cape Cod

description: Report provided to Barnstable County, MA entitled Bay scallop population structure on Cape Cod and the evaluation of enhancement efforts based on genetic markers: The use of microsatellite markers to improve bay scallop stock enhancement efforts Jan 2005
DOI: 10.6084/m9.figshare.91565.v1
title: Bay scallop population structure on Cape Cod

description: Report provided to Barnstable County, MA entitled Bay scallop population structure on Cape Cod and the evaluation of enhancement efforts based on genetic markers: The use of microsatellite markers to improve bay scallop stock enhancement efforts Jan 2005
DOI: 10.6084/m9.figshare.91554
title: Consensus trees in NEXUS file format for the Tic20 gene family

description: Phylogenetic analysis of the Tic20 genefamily.
DOI: 10.6084/m9.figshare.91559
title: Phylogenetic analysis of the Tic20 genefamily.

description: This dataset contains a multi sequence alignemt of Tic20 homologues from 59 differnt species from cyanobacteria, red- and green algae and landplants. Tic20 is a polytopic protein of the inner envelope membrane of chloroplasts, and it is proposed to act as a translocation channel during chloroplast protein import. By analyzing 29 sequences from diverse organisms, it was evident that Tic20-related proteins form two distinct clades, termed Group 1 and Group 2. The former group includes canonical Tic20 proteins that are essential for chloroplast development, while members of the latter are of unknown function. An increased evolutionary rate, in connection with adaptation to terrestrial life, was detected in Group 1. Interestingly, the sub-cellular (genomic) localization of genes coding for Group 1 proteins differs between evolutionary lineages.
DOI: 10.6084/m9.figshare.91553
title: Multi-sequence alignment in FASTA format of the Tic20 gene family

description: Alignment of Tic20 amino acid sequences.
DOI: 10.6084/m9.figshare.91559.v1
title: Phylogenetic analysis of the Tic20 genefamily.

description: This dataset contains a multi sequence alignemt of Tic20 homologues from 59 differnt species from cyanobacteria, red- and green algae and landplants. Tic20 is a polytopic protein of the inner envelope membrane of chloroplasts, and it is proposed to act as a translocation channel during chloroplast protein import. By analyzing 29 sequences from diverse organisms, it was evident that Tic20-related proteins form two distinct clades, termed Group 1 and Group 2. The former group includes canonical Tic20 proteins that are essential for chloroplast development, while members of the latter are of unknown function. An increased evolutionary rate, in connection with adaptation to terrestrial life, was detected in Group 1. Interestingly, the sub-cellular (genomic) localization of genes coding for Group 1 proteins differs between evolutionary lineages.
DOI: 10.6084/m9.figshare.91552
title: Tic20 phylogenetic tree (pdf)

description: Tic20 phylogeny.
DOI: 10.6084/m9.figshare.91554.v2
title: Consensus trees in NEXUS file format for the Tic20 gene family

description: Phylogenetic analysis of the Tic20 genefamily.
DOI: 10.6084/m9.figshare.91553.v2
title: Multi-sequence alignment in FASTA format of the Tic20 gene family

description: Alignment of Tic20 amino acid sequences.
DOI: 10.6084/m9.figshare.91554.v1
title: tic20.59.ps-short.nex.con

description: Phylogenetic analysis of the Tic20 genefamily.
DOI: 10.6084/m9.figshare.91552.v2
title: Tic20 phylogenetic tree (pdf)

description: Tic20 phylogeny.
DOI: 10.6084/m9.figshare.91552.v1
title: tic20.59.ps-short.pdf

description: Tic20 phylogeny.
DOI: 10.6084/m9.figshare.91553.v1
title: tic20.59.ps-short.fst

description: Alignment of Tic20 amino acid sequences.
DOI: 10.6084/m9.figshare.91517
title: Viral and Epidemiological Determinants of the Invasion Dynamics of Novel Dengue Genotypes

description: Figure included in the study "Viral and Epidemiological Determinants of the Invasion Dynamics of Novel Dengue Genotypes" in PLoS NTD, 2010. Abstract: "Dengue has become a major concern for international public health. Frequent epidemic outbreaks are believed to be driven by a complex interplay of immunological interactions between its four co-circulating serotypes and large fluctuations in mosquito densities. Viral lineage replacement events, caused for example by different levels of cross-protection or differences in viral fitness, have also been linked to a temporary change in dengue epidemiology. A major replacement event was recently described for South-East Asia where the Asian-1 genotype of dengue serotype 2 replaced the resident Asian/American type. Although this was proposed to be due to increased viral fitness in terms of enhanced human-to-mosquito transmission, no major change in dengue epidemiology could be observed. Here we investigate the invasion dynamics of a novel, advantageous dengue genotype within a model system and determine the factors influencing the success and rate of fixation as well as their epidemiological consequences. We find that while viral fitness overall correlates with invasion success and competitive exclusion of the resident genotype, the epidemiological landscape plays a more significant role for successful emergence. Novel genotypes can thus face high risks of stochastic extinction despite their fitness advantage if they get introduced during episodes of high dengue prevalence, especially with respect to that particular serotype. The rarity of markers for positive selection has often been explained by strong purifying selection whereby the constraints imposed by dengue's two-host cycle are expected to result in a high rate of deleterious mutations. Our results demonstrate that even highly beneficial mutants are under severe threat of extinction, which would suggest that apart from purifying selection, stochastic effects and genetic drift beyond seasonal bottlenecks are equally important in shaping dengue's viral ecology and evolution."