cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.7284/137403
title: Winch data collected during research cruise TN361 using a Markey DESH-5 instrument system onboard the platform RV Thomas G. Thompson

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.6820175.v2
title: Ligamentum Flavum thickness measurements

description: This data file contains the data used in the manuscript "Ligamentum Flavum Hypertrophy in Asymptomatic and Chronic Low Back Pain Subjects" by Munns et al. Currently only identified as PONE-D-14-50818
DOI: 10.7284/137371
title: Winch data collected during research cruise TN363 using a Markey DESH-5 instrument system onboard the platform RV Thomas G. Thompson

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/137399
title: Winch data collected during research cruise TN363 using a Markey DESH-5 instrument system onboard the platform RV Thomas G. Thompson

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.6820097
title: Supplemental Material for Newman et al., 2018

description: Supplementary figures, tables and files for Newman et. al, 2018, "Event Analysis: using transcript events to improve estimates of abundance in RNA-seq data", G3, manuscript# G3/2018/200373R1.<br>Additional File 1 contains Supplementary Figures 1-6 and Supplementaty Table 1<br>Supplementary File 1 contains the results of simulations to compare the Event Analysis approach to STAR (for junction detection) and iReckon (for transcript identification).<br>Supplementary File 2 contains the results of applying Event Analysis to eXpress, and the results of using iReckon to identify possible transcripts in the mouse neural data used in the study.<br><br>Supplementary File 3 contains the results of comparing Event Analysis (using Bowtie or SOAP2 as the aligner) against STAR for benchmarking junction detection using the mouse neural data. Results are benchmarked against the set of junctions observed in PacBio-sequenced transcripts in the mouse neural data.<br><br>Supplementary File 4 contains the comparison between Event Analysis and iReckon for the mouse neural data, benchmarked against PacBio-sequenced transcripts.
DOI: 10.7284/137400
title: Winch data collected during research cruise TN363 using a Markey DESH-9 instrument system onboard the platform RV Thomas G. Thompson

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.6820097.v2
title: Supplemental Material for Newman et al., 2018

description: Supplementary figures, tables and files for Newman et. al, 2018, "Event Analysis: using transcript events to improve estimates of abundance in RNA-seq data", G3, manuscript# G3/2018/200373R1.<br>Additional File 1 contains Supplementary Figures 1-6 and Supplementaty Table 1<br>Supplementary File 1 contains the results of simulations to compare the Event Analysis approach to STAR (for junction detection) and iReckon (for transcript identification).<br>Supplementary File 2 contains the results of applying Event Analysis to eXpress, and the results of using iReckon to identify possible transcripts in the mouse neural data used in the study.<br><br>Supplementary File 3 contains the results of comparing Event Analysis (using Bowtie or SOAP2 as the aligner) against STAR for benchmarking junction detection using the mouse neural data. Results are benchmarked against the set of junctions observed in PacBio-sequenced transcripts in the mouse neural data.<br><br>Supplementary File 4 contains the comparison between Event Analysis and iReckon for the mouse neural data, benchmarked against PacBio-sequenced transcripts.
DOI: 10.6084/m9.figshare.6820097.v1
title: Event Analysis: using transcript events to improve estimates of abundance in RNA-seq data

description: Supplementary figures, tables and files for Newman et. al, 2018, "Event Analysis: using transcript events to improve estimates of abundance in RNA-seq data", G3, manuscript# G3/2018/200373R1<br>
DOI: 10.6084/m9.figshare.6820007
title: Database_sun exposure.xlsx

description: Dataset is product of across-sectional study in the Pimentel beach, Peru. Pimentel is one of the main beaches in the northern Peru and belongs to Lambayeque, which is considered a semi-warm and tropical-dry region, with temperatures that exceed 30°C during summer. <br>In 2018, we surveyed all the beachgoers from 8 a.m. to 4 p.m. and from March 5 to March 19 (Peruvian summer). No sample was calculated. We surveyed all Spanish-speaking adults aged 18 to 59 who were in the study place within the specified time range.
DOI: 10.7284/137370
title: Winch data collected during research cruise TN364 using a Markey DESH-5 instrument system onboard the platform RV Thomas G. Thompson

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.6820007.v1
title: Database_sun exposure.xlsx

description: Dataset is product of across-sectional study in the Pimentel beach, Peru. Pimentel is one of the main beaches in the northern Peru and belongs to Lambayeque, which is considered a semi-warm and tropical-dry region, with temperatures that exceed 30°C during summer. <br>In 2018, we surveyed all the beachgoers from 8 a.m. to 4 p.m. and from March 5 to March 19 (Peruvian summer). No sample was calculated. We surveyed all Spanish-speaking adults aged 18 to 59 who were in the study place within the specified time range.
DOI: 10.6084/m9.figshare.6819992
title: Scientific Publication, Data Sharing, Learning Health and Incentives

description: • Pace of consumer computing• Data generation is no longer the bottleneck• 4th Industrial Revolution is here• Biomedical research and medicine is a data enterprise• Data sharing as an accelerant
DOI: 10.7284/137397
title: Winch data collected during research cruise TN364 using a Markey DESH-5 instrument system onboard the platform RV Thomas G. Thompson

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/137398
title: Winch data collected during research cruise TN364 using a Markey DESH-9 instrument system onboard the platform RV Thomas G. Thompson

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/137369
title: Winch data collected during research cruise TN365 using a Markey DESH-5 instrument system onboard the platform RV Thomas G. Thompson

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.6819908
title: Tectonothermal events in the Olympic IOCG Province constrained by apatite and REE-phosphate geochronology

description: The Olympic iron oxide–copper–gold province in South Australia contains numerous deposits and prospects, including the Olympic Dam Cu–U–Au–Ag deposit and the Acropolis prospect. The Acropolis prospect comprises massive, coarse-grained magnetite–apatite veins partly replaced by a hematite-stable assemblage. The apatite grains in the veins contain zones with abundant inclusions of other minerals (including monazite and xenotime) and low trace-element concentrations relative to the inclusion-free zones. The inclusion-rich apatite zones are interpreted to be formed from the recrystallisation of the inclusion-free apatite and remobilisation of U, Th and rare earth element (REE) from apatite into monazite and xenotime. Apatite, monazite and xenotime are all established U–Th–Pb geochronometers and offer the potential to constrain the alteration history of the Acropolis prospect. The LA-ICPMS U–Pb age of inclusion-free apatite is within error of the age of the host volcanic units (<i>ca</i> 1.59 Ga). Inclusion-rich apatite yields both near-concordant analyses that are within error of the inclusion-free apatite as well as highly disturbed (discordant) analyses. The most concordant analyses of monazite (Th–Pb) inclusions and xenotime (U–Pb) inclusions and rim grains indicate an alteration event occurred at <i>ca</i> 1.37 Ga and possibly also at <i>ca</i> 500 Ma. The disparity in age of the inclusion-rich apatite and the REE-phosphate inclusions (and rim grains) is suggested to be owing to the apatite being initially recrystallised at <i>ca</i> 1.59 Ga and modified again by a later event that also formed (or coarsened) most of the inclusions. Partial resetting of the majority of the monazite inclusions as well as the presence of significant amounts of common Pb has complicated the interpretation of the monazite results. In contrast, xenotime is a more robust geochronometer in this setting. The ages of the two post-1.59 Ga events that appear to have affected the Acropolis prospect do not correspond to any events known to have occurred in the Gawler Craton. The earlier (<i>ca</i> 1.37 Ga) age instead corresponds best with metamorphic–magmatic–hydrothermal activity in Laurentia, consistent with the proximity of Laurentia and the Gawler Craton inferred from palaeogeographic reconstructions. The later (<i>ca</i> 500 Ma) event corresponds to the Delamerian Orogeny and has been shown by prior studies to have also affected the Olympic Dam deposit.
DOI: 10.7284/137395
title: Winch data collected during research cruise TN365 using a Markey DESH-5 instrument system onboard the platform RV Thomas G. Thompson

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.6819908.v1
title: Tectonothermal events in the Olympic IOCG Province constrained by apatite and REE-phosphate geochronology

description: The Olympic iron oxide–copper–gold province in South Australia contains numerous deposits and prospects, including the Olympic Dam Cu–U–Au–Ag deposit and the Acropolis prospect. The Acropolis prospect comprises massive, coarse-grained magnetite–apatite veins partly replaced by a hematite-stable assemblage. The apatite grains in the veins contain zones with abundant inclusions of other minerals (including monazite and xenotime) and low trace-element concentrations relative to the inclusion-free zones. The inclusion-rich apatite zones are interpreted to be formed from the recrystallisation of the inclusion-free apatite and remobilisation of U, Th and rare earth element (REE) from apatite into monazite and xenotime. Apatite, monazite and xenotime are all established U–Th–Pb geochronometers and offer the potential to constrain the alteration history of the Acropolis prospect. The LA-ICPMS U–Pb age of inclusion-free apatite is within error of the age of the host volcanic units (<i>ca</i> 1.59 Ga). Inclusion-rich apatite yields both near-concordant analyses that are within error of the inclusion-free apatite as well as highly disturbed (discordant) analyses. The most concordant analyses of monazite (Th–Pb) inclusions and xenotime (U–Pb) inclusions and rim grains indicate an alteration event occurred at <i>ca</i> 1.37 Ga and possibly also at <i>ca</i> 500 Ma. The disparity in age of the inclusion-rich apatite and the REE-phosphate inclusions (and rim grains) is suggested to be owing to the apatite being initially recrystallised at <i>ca</i> 1.59 Ga and modified again by a later event that also formed (or coarsened) most of the inclusions. Partial resetting of the majority of the monazite inclusions as well as the presence of significant amounts of common Pb has complicated the interpretation of the monazite results. In contrast, xenotime is a more robust geochronometer in this setting. The ages of the two post-1.59 Ga events that appear to have affected the Acropolis prospect do not correspond to any events known to have occurred in the Gawler Craton. The earlier (<i>ca</i> 1.37 Ga) age instead corresponds best with metamorphic–magmatic–hydrothermal activity in Laurentia, consistent with the proximity of Laurentia and the Gawler Craton inferred from palaeogeographic reconstructions. The later (<i>ca</i> 500 Ma) event corresponds to the Delamerian Orogeny and has been shown by prior studies to have also affected the Olympic Dam deposit.
DOI: 10.7284/137396
title: Winch data collected during research cruise TN365 using a Markey DESH-9 instrument system onboard the platform RV Thomas G. Thompson

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/137368
title: Winch data collected during research cruise TN366 using a Markey DESH-5 instrument system onboard the platform RV Thomas G. Thompson

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.6819812.v1
title: Transcriptomic and genomic assemblies, Lake Baikal Sponge Data

description: Assemblies of Lake Baikal sponge transcriptomes and draft genomic assemblies, along with associated files. Corresponds to paper by Kenny et al, 2018 in submission<br>
DOI: 10.6084/m9.figshare.12888548
title: R0189_20170927a_videos

description: Rat 0189, skilled reaching data collected on 9/27/2017 in Leventhal laboratory by Alexandra Bova
DOI: 10.7284/137393
title: Winch data collected during research cruise TN366 using a Markey DESH-5 instrument system onboard the platform RV Thomas G. Thompson

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.6819812.v2
title: Transcriptomic and genomic assemblies, Lake Baikal Sponge Data, from "Symbiosis, Selection and Novelty: Freshwater Adaptation in the Unique Sponges of Lake Baikal"

description: Assemblies of Lake Baikal sponge transcriptomes and draft genomic assemblies, along with associated files. Corresponds to paper by Kenny et al, 2019 in submission<br>
DOI: 10.7284/137394
title: Winch data collected during research cruise TN366 using a Markey DESH-9 instrument system onboard the platform RV Thomas G. Thompson

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/137367
title: Winch data collected during research cruise TN367 using a Markey DESH-5 instrument system onboard the platform RV Thomas G. Thompson

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/137391
title: Winch data collected during research cruise TN367 using a Markey DESH-5 instrument system onboard the platform RV Thomas G. Thompson

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/137392
title: Winch data collected during research cruise TN367 using a Markey DESH-9 instrument system onboard the platform RV Thomas G. Thompson

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.6819728
title: Supplementary data file 1 from Conserved temporal ordering of promoter activation implicates common mechanisms governing the immediate early response across cell types and stimuli

description: Peaking times for genes in the robust set in all dataset.
DOI: 10.7284/137366
title: Winch data collected during research cruise TN368 using a Markey DESH-5 instrument system onboard the platform RV Thomas G. Thompson

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.6819728.v1
title: Supplementary data file 1 from Conserved temporal ordering of promoter activation implicates common mechanisms governing the immediate early response across cell types and stimuli

description: Peaking times for genes in the robust set in all dataset.
DOI: 10.7284/137389
title: Winch data collected during research cruise TN368 using a Markey DESH-5 instrument system onboard the platform RV Thomas G. Thompson

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.6819710
title: Accessibility and topics of citations with identifiers in Wikipedia

description: About<sup>An extended version of the dataset "Citation with Identifiers" [1] with topic and accessibility information</sup>When possible, we associated each publication with identifier cited in Wikipedia with 1) the publication topic and 2) the information about its accessibility (e.g. if it has open access).TopicsWhen possible, we have assigned a topic to each publication, by looking at the main topics of the pages citing a publication. See [2] for more details on how we infer topics.AccessibilityWe mark each DOI publication as <i>Open Access</i> or <i>Closed Access</i> by merging our data with Unpaywall [3] data.<br>Data FormatThere is a file for each Wikipedia edition (e.g. English Wikipedia, Farsi Wikipedia). Each line contains the following tab-separated values:<b>page_id</b> - the id of the Wikipedia page citing the publication, see [4]<b>page_name</b> - the title of the Wikipedia page citing the publication<b>revision_id</b> - the id of the revision where the citation has been added, see [4]<b>timestamp</b> - the time when the revision has been saved<b>publication_type</b> - the type of the publication cited, it can be: <i>isbn,doi,pmid,pmc,arxiv</i><b>publication_id</b> - the identifier of the publication, format differs according to the type<b>topic</b> - publication topic inherited from the pages where it is cited. It can take one of the values at the top level of the Wikiprojects Hierarchy [5]<b>open_access</b> :<em>Open</em>: if the canonical version is open access at the source (journal); <em>Available</em>: if the canonical version at the source is behind a paywall, but an open access copy is available at a different location; <em>Closed</em>: if the canonical version at the source is behind a paywall and not open access copy was identified at a different location<b>open_access_url</b> - the url of the open access version of the publication, if 'open_access' is 'open' or 'available'VisualizationsVisualisations summarising the data in this repository can be found in this notebook: visualizations <br><br>[1] https://figshare.com/articles/Wikipedia_Scholarly_Article_Citations/1299540[2] https://meta.wikimedia.org/wiki/Research:Towards_Modeling_Citation_Quality[3] http://unpaywall.org/data-format[4] https://www.mediawiki.org/wiki/Manual:Revision_table[5] https://en.wikipedia.org/wiki/Wikipedia:WikiProject_Council/Directory
DOI: 10.7284/137390
title: Winch data collected during research cruise TN368 using a Markey DESH-9 instrument system onboard the platform RV Thomas G. Thompson

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.6819707
title: Ovulatory status and menstrual cycle duration assessed by self-collection of urine on pH strips in a population-based sample of French women not using hormonal contraception

description: <b>Background:</b> Assessing menstrual cycle function in the general population using a non-invasive method is challenging, both in non-industrialized and industrialized countries. <b>Subjects and methods:</b> The Observatory of Fecundity in France (Obseff) recruited on a nationwide basis a random sample of 943 women aged 18–44 years with unprotected intercourse. A sub-study was set up to assess the characteristics of a menstrual cycle by using a non-invasive method adapted to the general population. Voluntary women were sent a collection kit by the post and requested to collect urine samples on pH strips, together with daily recording of reproductive-related information during a full menstrual cycle. A total of 48 women collected urine every day, whereas 160 women collected urine every other day. Immunoassays were used to measure pregnanediol-3–α–glucuronide, estrone-3-glucuronide and creatinine. Ovulation occurrence and follicular phase duration were estimated using ovulation detection algorithms, compared to a gold standard consisting of three external experts in reproductive medicine. <b>Results:</b> Every other day urine collection gave consistent results in terms of ovulation detection with every day collection (intraclass coefficient of correlation, 0.84, 95% confidence interval, 0.76–0.98). The proportion of anovulatory menstrual cycles was 8%. The characteristics of the ovulatory cycles were length 28 (26–34), follicular phase 16 (12–23), luteal phase 13 (10–16) days median (10th–90th percentiles). <b>Discussion-Conclusion:</b> Assessing menstrual cycle characteristics based on urine sample spot only collected every other day in population-based studies through a non-invasive, well accepted and cost-limited procedure not requiring any direct contact with the survey team appears feasible and accurate.
DOI: 10.7284/137365
title: Winch data collected during research cruise TN369 using a Markey DESH-5 instrument system onboard the platform RV Thomas G. Thompson

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.6819707.v2
title: Ovulatory status and menstrual cycle duration assessed by self-collection of urine on pH strips in a population-based sample of French women not using hormonal contraception

description: <b>Background:</b> Assessing menstrual cycle function in the general population using a non-invasive method is challenging, both in non-industrialized and industrialized countries. <b>Subjects and methods:</b> The Observatory of Fecundity in France (Obseff) recruited on a nationwide basis a random sample of 943 women aged 18–44 years with unprotected intercourse. A sub-study was set up to assess the characteristics of a menstrual cycle by using a non-invasive method adapted to the general population. Voluntary women were sent a collection kit by the post and requested to collect urine samples on pH strips, together with daily recording of reproductive-related information during a full menstrual cycle. A total of 48 women collected urine every day, whereas 160 women collected urine every other day. Immunoassays were used to measure pregnanediol-3–α–glucuronide, estrone-3-glucuronide and creatinine. Ovulation occurrence and follicular phase duration were estimated using ovulation detection algorithms, compared to a gold standard consisting of three external experts in reproductive medicine. <b>Results:</b> Every other day urine collection gave consistent results in terms of ovulation detection with every day collection (intraclass coefficient of correlation, 0.84, 95% confidence interval, 0.76–0.98). The proportion of anovulatory menstrual cycles was 8%. The characteristics of the ovulatory cycles were length 28 (26–34), follicular phase 16 (12–23), luteal phase 13 (10–16) days median (10th–90th percentiles). <b>Discussion-Conclusion:</b> Assessing menstrual cycle characteristics based on urine sample spot only collected every other day in population-based studies through a non-invasive, well accepted and cost-limited procedure not requiring any direct contact with the survey team appears feasible and accurate.