cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.5774187
title: Multiple sampling dataset for Diffusion Tensor Imaging studies- Raw dataset

description: <b>Acquisition protocol</b><br>This is a DTI dataset with large number of samples for 20 healthy individuals. All the subjects were acquired at the Hospital das Clínicas at Ribeirão Preto (M: 70, F: 61, average age: 34.12 (18 – 45 years old, right-handed). The acquisition protocol was set on a 3.0T MRI scanner (Phillips, Achieva) with the following acquisitions parameters:Single-shot echo-planar imaging sequence, parallel imaging factor of 2.0, matrix of 128 × 128, field of view of 240 × 240 mm (nominal resolution: 2.0 mm isotropic), transverse sections were acquired parallel to the anterior commissure-posterior line (AC-PC), N=1 samples, and 72 sections covered the entire hemisphere and brainstem without gaps. Diffusion weighting images were encoded along 32 whole sphere independent orientations and the b-value was 1,000 s/mm2.The scanning time per dataset was approximately 4 minutes, which follows a reasonable data acquisition protocol in the clinical routine. The study was approved by the Ethics Committee of the Medicine School of Ribeirão Preto at the University of São Paulo.<br>More details will be given after the original paper been published. <br><br>
DOI: 10.6084/m9.figshare.5774163
title: study_data.csv

description: Empirical Study Data on the TPF
DOI: 10.6084/m9.figshare.5774091
title: A systematic review of Hepatitis B virus (HBV) drug and vaccine escape mutations in Africa

description: We have undertaken a systematic review of Hepatitis B virus (HBV) drug resistance associated mutations (RAMs) and vaccine escape mutations (VEMs) in Africa to quantify the prevalence, co-occurrence and geographic distribution of known mutations.<br> Below are details of the files shared here:<br> <b>S1 Fig: </b>HBV drug RAMs grouped according to genotype and geographic location;<br> <b>S2 Fig: </b>Distribution of HBV genotypes and prevalence of HBV RAMs in Pol/RT proteins in geno-A and geno-non-A samplesPanel A: Distribution of HBV genotypes derived from 35 studies reporting resistance associated mutations (RAMs) in Africa published between 2009 to 2017 (inclusive);<b></b>Panel B: Prevalence of HBV resistance associated mutations (RAMs) in Pol/RT proteins in geno-A and geno-non-A samples;<br><b>S1 Table:</b>PRISMA (Preferred Reporting Items for Systematic Reviews and Meta-Analyses) criteria for a systematic review of hepatitis B virus (HBV) drug and vaccine escape mutations in Africa. I. Checklist to demonstrate how PRISMA criteria (2009) have been met in this review; II. Flow diagram illustrating identification and inclusion of studies for a systematic review of drug and vaccine resistance mutations in Africa. <br> <b>S2 Table: </b>Details of search strategy used to identify studies on HBV RAMs and VEMs conducted in Africa;<br> <b>S3 Table: </b>Full details of 37 studies identified by a systematic literature search of HBV RAMs and VEMs from African cohorts published between 2007 and 2017 (inclusive);<br> <b>S4 Table:</b> HBV Pol/RT mutations among treatment-naïve HBV infected patients in Africa from 12 studies published between 2007 and 2017 (inclusive);<br> <b>S5 Table: </b>HBV Pol/RT mutations among treatment-experienced HBV infected patients in Africa, from 25 studies published between 2009 and 2017 (inclusive);<br> <b>S6 Table: </b>First line ART regimen for adults in Africa, and overlap with HBV therapy. Information derived from published ART guidelines in all cases where these are available in the public domain.This information was collated in May 2018. <br>
DOI: 10.6084/m9.figshare.5774091.v1
title: A systematic review of Hepatitis B virus (HBV) drug and vaccine escape mutations in Africa

description: We have undertaken a systematic review of Hepatitis B virus (HBV) drug resistance associated mutations (RAMs) and vaccine escape mutations (VEMs) in Africa to quantify the prevalence, co-occurrence and geographic distribution of known mutations. The files shared here provide details of the search strategy used to identify studies on HBV resistance RAMs and VEMs conducted in Africa, from PubMed, SCOPUS and EMBASE database. We have also provided the full details of 37 studies identified by this systematic literature search of HBV RAMs and VEMs from African cohorts published between 2007 and 2017 (inclusive).
DOI: 10.6084/m9.figshare.5774091.v2
title: A systematic review of Hepatitis B virus (HBV) drug and vaccine escape mutations in Africa

description: We have undertaken a systematic review of Hepatitis B virus (HBV) drug resistance associated mutations (RAMs) and vaccine escape mutations (VEMs) in Africa to quantify the prevalence, co-occurrence and geographic distribution of known mutations. Below are details of the files shared here:S1 Fig: Flow diagram illustrating identification and inclusion of studies for a systematic review of drug and vaccine resistance mutations in Africa, based on PRISMA criteria;S2 Fig: HBV drug RAMs grouped according to genotype;S3 Fig: Distribution of HBV genotypes and prevalence of HBV RAMs in Pol/RT proteins in geno-A and geno-non-A samples;S1 Table: Details of search strategy used to identify studies on HBV RAMs and VEMs conducted in Africa;S2 Table: Full details of 37 studies identified by a systematic literature search of HBV RAMs and VEMs from African cohorts published between 2007 and 2017 (inclusive);S3 Table: HBV Pol/RT mutations among treatment-naïve HBV infected patients in Africa from 12 studies published between 2007 and 2017 (inclusive);S4 Table: HBV Pol/RT mutations among treatment-experienced HBV infected patients in Africa, from 25 studies published between 2009 and 2017 (inclusive).
DOI: 10.6084/m9.figshare.5774091.v3
title: A systematic review of Hepatitis B virus (HBV) drug and vaccine escape mutations in Africa

description: We have undertaken a systematic review of Hepatitis B virus (HBV) drug resistance associated mutations (RAMs) and vaccine escape mutations (VEMs) in Africa to quantify the prevalence, co-occurrence and geographic distribution of known mutations.<br> Below are details of the files shared here:<br> <b>S1 Fig: </b>Flow diagram illustrating identification and inclusion of studies for a systematic review of drug and vaccine resistance mutations in Africa, based on PRISMA criteria. The search covered the time period 2007-2018. We reviewed the titles and abstracts matching the search terms (see S1 Table) and only included those relating to drug or vaccine resistance in HBV infection, including only those that presented original data and had undergone peer review.<br> <b>S2 Fig: </b>HBV drug RAMs grouped according to genotype and geographic location;<br> <b>S3 Fig: </b>Distribution of HBV genotypes and prevalence of HBV RAMs in Pol/RT proteins in geno-A and geno-non-A samplesPanel A: Distribution of HBV genotypes derived from 35 studies reporting resistance associated mutations (RAMs) in Africa published between 2009 to 2017 (inclusive);<b></b>Panel B: Prevalence of HBV resistance associated mutations (RAMs) in Pol/RT proteins in geno-A and geno-non-A samples;<br> <b>S1 Table: </b>Details of search strategy used to identify studies on HBV RAMs and VEMs conducted in Africa;<br> <b>S2 Table: </b>Full details of 37 studies identified by a systematic literature search of HBV RAMs and VEMs from African cohorts published between 2007 and 2017 (inclusive);<br> <b>S3 Table:</b> HBV Pol/RT mutations among treatment-naïve HBV infected patients in Africa from 12 studies published between 2007 and 2017 (inclusive);<br> <b>S4 Table: </b>HBV Pol/RT mutations among treatment-experienced HBV infected patients in Africa, from 25 studies published between 2009 and 2017 (inclusive);<br> <b>S5 Table: </b>First line ART regimen for adults in Africa, and overlap with HBV therapy. Information derived from published ART guidelines in all cases where these are available in the public domain.
DOI: 10.6084/m9.figshare.5774088.v2
title: Dataset ticks 2018

description: Molecular identification of <i>Bartonella bacilliformis</i> in ticks from two species of wild mammals in Madre de Dios – Peru<b><br></b><b><br></b><b>Background:</b> Since the late 1990s, a slow but steady increase of South American Bartonellosis have been observed. In Peru, Carrions disease has expanded over broader geographical areas where the traditional vector, <i>Lutzomyia</i> genus, is absent suggesting the presence of undescribed vectors. <b>Aim: </b>To study the presence of <i>Bartonella bacilliformis</i> in ticks collected from of wild mammals <i>Tapirus terrestris </i>and <i>Pecari tajacu</i> in Madre de Dios, Peru. <b>Methodology:</b> The study was conducted in the towns of San Lorenzo and Botijon town and 3 of wild mammals from each species were captured for tick collection, identification and real-time PCR detection of <i>B. bacilliformis</i>. <b>Results:</b> A total of 110 ticks was collected, of these 43 were classified as Amblyomma spp. isolated from the 3 Tapirus terrestris and of which only 3 were positive for B. bacilliformis; 67 were classified as Rhipicephalus (Boophilus) microplus isolated from the 3 peccaries of which 12 ectoparasites were positive for B. bacilliformis. <b>Conclusions:</b> For the first time <i>B. bacilliformis</i> have been detected in arthropods other than <i>Lutzomyia spp. </i>which are ectoparasites of wild mammals. Further studies are required to elucidate the possible role of ticks in the spread of South American Bartonellosis.<br>
DOI: 10.6084/m9.figshare.5774049
title: Supplementary Material for: Intramuscular versus Vaginal Progesterone Administration in Medicated Frozen Embryo Transfer Cycles: A Randomized Clinical Trial Assessing Sub-Endometrial Contractions

description: <b><i>Objective:</i></b> The study aimed to assess whether sub-endometrial contractility is reduced by the use of intramuscular (IM) progesterone. <b><i>Design:</i></b> This is a randomized clinical trial. Patients assigned to a medicated day 5 frozen embryo transfer (FET) were randomly allocated to “vaginal progesterone” or “IM progesterone”: patients randomized to the vaginal arm were treated with 200 mg micronized progesterone 3 times daily while patients randomized into the IM progesterone arm were treated with a single daily injection of 50 mg progesterone in oil. The main outcome measure was the number of sub-endometrial contractions (waves) per minute 1 day before a blastocyst embryo transfer. <b><i>Results:</i></b> Thirty-four patients were enrolled. The progesterone serum concentration was significantly higher in patients using the IM progesterone (85.2 ± 50.1 vs. 30.3 ± 11.2 nmol/L, respectively) but this did not translate into a lower sub-endometrial contractility (2.4 ± 4.8 vs. 1.4 ± 1.1 contraction/min, respectively). Clinical pregnancy rates were comparable between groups. The number of sub-endometrial waves was significantly lower among pregnant patients (<i>p</i> = 0.02). <b><i>Conclusions:</i></b> The use of IM progesterone in medicated FET cycles does not reduce the sub-endometrial activity compared to vaginal progesterone administration. Our data support a poor clinical pregnancy outcome with high wave activity, regardless of the progesterone mode.
DOI: 10.6084/m9.figshare.5774043
title: Supplementary Material for: Five-Year Recurrence Rate and the Predictors Following Stroke in the Mashhad Stroke Incidence Study: A Population-Based Cohort Study of Stroke in the Middle East

description: <b><i>Background:</i></b> Little is known about the risk of recurrent stroke in low- and middle-income countries. This study was designed to identify the long-term risk of stroke recurrence and its associated factors. <b><i>Methods:</i></b> From November 21, 2006 for a period of 1 year, 624 patients with first-ever stroke (FES) were registered from the residents of 3 neighborhoods in Mashhad, Iran. Patients were followed up for the next 5 years after the index event for any stroke recurrence or death. We used competing risk analysis and cause-specific Cox proportional hazard models to estimate the cumulative incidence of stroke recurrence and its associated variables. <b><i>Results:</i></b> The cumulative incidence of stroke recurrence was 14.5% by the end of 5 years, with the largest rate during the first year after FES (5.6%). Only advanced age (adjusted hazard ratio [HR] 1.02; 95% CI 1.01–1.04) and severe stroke (National Institutes of Health Stroke Scale score &gt;20; HR 2.23; 95% CI 1.05–4.74) were independently associated with an increased risk of 5-year recurrence. Case fatality at 30 days after first recurrent stroke was 43.2%, which was significantly greater than the case fatality at 30 days after FES of 24.7% (<i>p</i> = 0.001). <b><i>Conclusion:</i></b> A substantial number of our patients either died or had stroke recurrences during the study period. Advanced age and the severity of the index stroke significantly increased the risk of recurrence. This is an important finding for health policy makers and for designing preventive strategies in people surviving their stroke.
DOI: 10.6084/m9.figshare.5774043.v1
title: Supplementary Material for: Five-Year Recurrence Rate and the Predictors Following Stroke in the Mashhad Stroke Incidence Study: A Population-Based Cohort Study of Stroke in the Middle East

description: <b><i>Background:</i></b> Little is known about the risk of recurrent stroke in low- and middle-income countries. This study was designed to identify the long-term risk of stroke recurrence and its associated factors. <b><i>Methods:</i></b> From November 21, 2006 for a period of 1 year, 624 patients with first-ever stroke (FES) were registered from the residents of 3 neighborhoods in Mashhad, Iran. Patients were followed up for the next 5 years after the index event for any stroke recurrence or death. We used competing risk analysis and cause-specific Cox proportional hazard models to estimate the cumulative incidence of stroke recurrence and its associated variables. <b><i>Results:</i></b> The cumulative incidence of stroke recurrence was 14.5% by the end of 5 years, with the largest rate during the first year after FES (5.6%). Only advanced age (adjusted hazard ratio [HR] 1.02; 95% CI 1.01–1.04) and severe stroke (National Institutes of Health Stroke Scale score &gt;20; HR 2.23; 95% CI 1.05–4.74) were independently associated with an increased risk of 5-year recurrence. Case fatality at 30 days after first recurrent stroke was 43.2%, which was significantly greater than the case fatality at 30 days after FES of 24.7% (<i>p</i> = 0.001). <b><i>Conclusion:</i></b> A substantial number of our patients either died or had stroke recurrences during the study period. Advanced age and the severity of the index stroke significantly increased the risk of recurrence. This is an important finding for health policy makers and for designing preventive strategies in people surviving their stroke.
DOI: 10.6084/m9.figshare.5773971
title: full-FORCE demos for oscillation and ready-set-go tasks

description: Simulations illustrating the results of full-FORCE.<br>Thanks to Eli Pollock (epollock@mit.edu) for the Python implementation.<br>Contact Brian DePasquale (depasquale@princeton.edu) for questions about the MATLAB implementation.<br>A more frequently maintained repository can be found here: http://www.princeton.edu/~briandd/.
DOI: 10.6084/m9.figshare.5773956
title: 銀行簿記例題 - An Exercise in Bank Accounting (Vol. 2) (tiff)

description: 大蔵省銀行課. 1879. 銀行簿記例題. 佐久間貞一 , 小林新兵衞 : 秀英舍 (發兌). Vol. 2 (下)An accounting manual published by the banking department of the Japanese Ministry of Finance. Explains the workflow related to bills of exchange, ...<br><br>
DOI: 10.6084/m9.figshare.5773833
title: Markers of error, conflict, and inhibition review table

description: File "Markers of error, conflict, and inhibition review table.xlsx" is a literature review for the project Attentional selection in the situation of cognitive conflict: dissociation between markers of error and error awareness. Project page at ResearchGate: https://www.researchgate.net/project/Attentional-selection-in-the-situation-of-cognitive-conflict-dissociation-between-markers-of-error-and-error-awareness. The "DATA" list contains structured review of 128 papers published from 1977 (one paper) to 2016. Description of the data, variables and license are at the "METADATA" list. If you have any questions please feel free to contact me through (you can find it at the metadata).<br>
DOI: 10.6084/m9.figshare.5773773.v1
title: 銀行簿記例題 - An Exercise in Bank Accounting (Vol. 1) (tiff)

description: 大蔵省銀行課. 1879. 銀行簿記例題. 佐久間貞一 , 小林新兵衞 : 秀英舍 (發兌). Vol. I (上).An accounting manual published by the banking department of the Japanese Ministry of Finance. Explains the workflow related to bills of exchange, ...
DOI: 10.6084/m9.figshare.5773692
title: Japan Advertising spend on major media

description: Advertising spend on 4 major media (TV, newspapers, magazines, radio) 1985 - 2014
DOI: 10.6084/m9.figshare.5773692.v1
title: Japan Advertising spend on major media

description: Advertising spend on 4 major media (TV, newspapers, magazines, radio) 1985 - 2014
DOI: 10.6084/m9.figshare.5773602
title: Additional file 8: Table S5. of Influenza A virus infection impacts systemic microbiota dynamics and causes quantitative enteric dysbiosis

description: Statistical testing of distances in beta diversity for indicated pairings (XLSX 12Â kb)
DOI: 10.6084/m9.figshare.5773602.v1
title: Additional file 8: Table S5. of Influenza A virus infection impacts systemic microbiota dynamics and causes quantitative enteric dysbiosis

description: Statistical testing of distances in beta diversity for indicated pairings (XLSX 12Â kb)
DOI: 10.6084/m9.figshare.5773587
title: MOESM3 of Terzyme: a tool for identification and analysis of the plant terpenome

description: Additional file 3: TableÂ 3. Detailed information on accession IDs and substrate preferences for 539 putative TPS sequences
DOI: 10.6084/m9.figshare.5773587.v1
title: MOESM3 of Terzyme: a tool for identification and analysis of the plant terpenome

description: Additional file 3: TableÂ 3. Detailed information on accession IDs and substrate preferences for 539 putative TPS sequences
DOI: 10.6084/m9.figshare.5773584
title: Additional file 6: Table S4. of Influenza A virus infection impacts systemic microbiota dynamics and causes quantitative enteric dysbiosis

description: Relative abundance (%) of OTU 1111294 in indicated sample sites for baseline, mock, and IAV-infected animals. (XLSX 12Â kb)
DOI: 10.6084/m9.figshare.5773584.v1
title: Additional file 6: Table S4. of Influenza A virus infection impacts systemic microbiota dynamics and causes quantitative enteric dysbiosis

description: Relative abundance (%) of OTU 1111294 in indicated sample sites for baseline, mock, and IAV-infected animals. (XLSX 12Â kb)
DOI: 10.6084/m9.figshare.5773578
title: MOESM2 of Terzyme: a tool for identification and analysis of the plant terpenome

description: Additional file 2: TableÂ 2. Positive Dataset for training profile HMMs. A detailed list of accession IDs for each sequence used in the GB dataset
DOI: 10.6084/m9.figshare.5773578.v1
title: MOESM2 of Terzyme: a tool for identification and analysis of the plant terpenome

description: Additional file 2: TableÂ 2. Positive Dataset for training profile HMMs. A detailed list of accession IDs for each sequence used in the GB dataset
DOI: 10.6084/m9.figshare.5773569
title: Additional file 5: Table S3. of Influenza A virus infection impacts systemic microbiota dynamics and causes quantitative enteric dysbiosis

description: Relative taxonomic composition of blank samples for kit A and kit B for individual samples (%) (XLSX 15Â kb)
DOI: 10.6084/m9.figshare.5773569.v1
title: Additional file 5: Table S3. of Influenza A virus infection impacts systemic microbiota dynamics and causes quantitative enteric dysbiosis

description: Relative taxonomic composition of blank samples for kit A and kit B for individual samples (%) (XLSX 15Â kb)
DOI: 10.6084/m9.figshare.5773554
title: MOESM1 of Terzyme: a tool for identification and analysis of the plant terpenome

description: Additional file 1: TableÂ 1. Positive Dataset for training profile HMMs. A detailed list of accession IDs for each sequence used in the FB and PT datasets
DOI: 10.6084/m9.figshare.5773554.v1
title: MOESM1 of Terzyme: a tool for identification and analysis of the plant terpenome

description: Additional file 1: TableÂ 1. Positive Dataset for training profile HMMs. A detailed list of accession IDs for each sequence used in the FB and PT datasets
DOI: 10.6084/m9.figshare.5773551
title: Additional file 4: Table S2. of Influenza A virus infection impacts systemic microbiota dynamics and causes quantitative enteric dysbiosis

description: Read counts for individual organ, fecal, and blank samples. Statistics for each group are indicated in the upper part of the table. (XLSX 10Â kb)
DOI: 10.6084/m9.figshare.5773551.v1
title: Additional file 4: Table S2. of Influenza A virus infection impacts systemic microbiota dynamics and causes quantitative enteric dysbiosis

description: Read counts for individual organ, fecal, and blank samples. Statistics for each group are indicated in the upper part of the table. (XLSX 10Â kb)
DOI: 10.6084/m9.figshare.5773548
title: Additional file 8: of Meta-analysis of human gene expression in response to Mycobacterium tuberculosis infection reveals potential therapeutic targets

description: List of DEGs and pathways in the meta-analysis of in vitro dendritic and THP-1 datasets, the DEGs shared with patient blood datasets, and the enriched MetaCore pathways from the shared DEGs. (XLSX 292Â kb)
DOI: 10.6084/m9.figshare.5773548.v1
title: Additional file 8: of Meta-analysis of human gene expression in response to Mycobacterium tuberculosis infection reveals potential therapeutic targets

description: List of DEGs and pathways in the meta-analysis of in vitro dendritic and THP-1 datasets, the DEGs shared with patient blood datasets, and the enriched MetaCore pathways from the shared DEGs. (XLSX 292Â kb)
DOI: 10.6084/m9.figshare.5773509
title: Additional file 1: Table S1. of Influenza A virus infection impacts systemic microbiota dynamics and causes quantitative enteric dysbiosis

description: Overview of animal number used per experiment and indication of organ samples that did not pass quality control for bioinformatics analysis. (XLSX 11Â kb)
DOI: 10.6084/m9.figshare.5773509.v1
title: Additional file 1: Table S1. of Influenza A virus infection impacts systemic microbiota dynamics and causes quantitative enteric dysbiosis

description: Overview of animal number used per experiment and indication of organ samples that did not pass quality control for bioinformatics analysis. (XLSX 11Â kb)
DOI: 10.6084/m9.figshare.5773491
title: Additional file 1: Table S1. of Human liver organoids generated with single donor-derived multiple cells rescue mice from acute liver failure

description: Presenting a list of quantitative RT-PCR primers and probes for human genes. (XLSX 10 kb)
DOI: 10.6084/m9.figshare.5773491.v1
title: Additional file 1: Table S1. of Human liver organoids generated with single donor-derived multiple cells rescue mice from acute liver failure

description: Presenting a list of quantitative RT-PCR primers and probes for human genes. (XLSX 10 kb)
DOI: 10.6084/m9.figshare.5773476
title: Additional file 5: of Meta-analysis of human gene expression in response to Mycobacterium tuberculosis infection reveals potential therapeutic targets

description: List of 1655 DEGs and their fold changes and FDR P-values in the meta-analysis. (XLSX 73Â kb)
DOI: 10.6084/m9.figshare.5773476.v1
title: Additional file 5: of Meta-analysis of human gene expression in response to Mycobacterium tuberculosis infection reveals potential therapeutic targets

description: List of 1655 DEGs and their fold changes and FDR P-values in the meta-analysis. (XLSX 73Â kb)