cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.5960710
title: Additional file 1: of Prevalence of bovine tuberculosis in cattle, goats, and camels of traditional livestock raising communities in Eritrea

description: Regions, sub-regions and villages included in the study, and species, breed, sex and age of each animal tested using the SICTT during the study periods (XLSX 77Â kb)
DOI: 10.6084/m9.figshare.5960710.v1
title: Additional file 1: of Prevalence of bovine tuberculosis in cattle, goats, and camels of traditional livestock raising communities in Eritrea

description: Regions, sub-regions and villages included in the study, and species, breed, sex and age of each animal tested using the SICTT during the study periods (XLSX 77Â kb)
DOI: 10.6084/m9.figshare.5960707
title: Additional file 3: of Multi-tissue transcriptomic study reveals the main role of liver in the chicken adaptive response to a switch in dietary energy source through the transcriptional regulation of lipogenesis

description: Primers used for DEG validation by RT-qPCR. (XLSX 13Â kb)
DOI: 10.6084/m9.figshare.5960707.v1
title: Additional file 3: of Multi-tissue transcriptomic study reveals the main role of liver in the chicken adaptive response to a switch in dietary energy source through the transcriptional regulation of lipogenesis

description: Primers used for DEG validation by RT-qPCR. (XLSX 13Â kb)
DOI: 10.6084/m9.figshare.5960677
title: Additional file 1: of Multi-tissue transcriptomic study reveals the main role of liver in the chicken adaptive response to a switch in dietary energy source through the transcriptional regulation of lipogenesis

description: Composition of diets. (XLSX 34Â kb)
DOI: 10.6084/m9.figshare.5960677.v1
title: Additional file 1: of Multi-tissue transcriptomic study reveals the main role of liver in the chicken adaptive response to a switch in dietary energy source through the transcriptional regulation of lipogenesis

description: Composition of diets. (XLSX 34Â kb)
DOI: 10.6084/m9.figshare.5960635
title: Additional file 2 of An information-theoretic approach to the modeling and analysis of whole-genome bisulfite sequencing data

description: Supplementary tables. This file contains supplementary tables summarizing our experimental results. (XLSX 10,320 KB)
DOI: 10.6084/m9.figshare.5960635.v1
title: Additional file 2 of An information-theoretic approach to the modeling and analysis of whole-genome bisulfite sequencing data

description: Supplementary tables. This file contains supplementary tables summarizing our experimental results. (XLSX 10,320 KB)
DOI: 10.6084/m9.figshare.5960629
title: Additional file 1: of Long-term smoking alters abundance of over half of the proteome in bronchoalveolar lavage cell in smokers with normal spirometry, with effects on molecular pathways associated with COPD

description: Table S1. Clinical characteristics of subjects, stratified by gender. Table S2. Proteins significantly altered between Smoker vs Never-smoker groups. Table S3. Proteins significantly altered between female Smoker vs Never-smoker groups. Table S4. Proteins significantly altered between male Smoker vs Never-smoker groups. Table S5. Significantly enriched pathways and associated proteins when comparing Smoker and Never-smoker groups. Table S6. Significantly enriched pathways following stratification by gender when comparing Smoker and Never-smoker groups. (XLSX 1321 kb)
DOI: 10.6084/m9.figshare.5960629.v1
title: Additional file 1: of Long-term smoking alters abundance of over half of the proteome in bronchoalveolar lavage cell in smokers with normal spirometry, with effects on molecular pathways associated with COPD

description: Table S1. Clinical characteristics of subjects, stratified by gender. Table S2. Proteins significantly altered between Smoker vs Never-smoker groups. Table S3. Proteins significantly altered between female Smoker vs Never-smoker groups. Table S4. Proteins significantly altered between male Smoker vs Never-smoker groups. Table S5. Significantly enriched pathways and associated proteins when comparing Smoker and Never-smoker groups. Table S6. Significantly enriched pathways following stratification by gender when comparing Smoker and Never-smoker groups. (XLSX 1321 kb)
DOI: 10.6084/m9.figshare.5960545
title: Additional file 7 of Integrated analysis of DNA-methylation and gene expression using high-dimensional penalized regression: a cohort study on bone mineral density in postmenopausal women

description: Table S3. Ingenuity Pathway Analysis. Summary from Ingenuity Pathway Analysis ( www.ingenuity.com ) on the 22 selected methylation sites from our weighted Lasso with data integration. (XLSX 40 kb)
DOI: 10.6084/m9.figshare.5960545.v1
title: Additional file 7 of Integrated analysis of DNA-methylation and gene expression using high-dimensional penalized regression: a cohort study on bone mineral density in postmenopausal women

description: Table S3. Ingenuity Pathway Analysis. Summary from Ingenuity Pathway Analysis ( www.ingenuity.com ) on the 22 selected methylation sites from our weighted Lasso with data integration. (XLSX 40 kb)
DOI: 10.6084/m9.figshare.5960530
title: Additional file 6 of Integrated analysis of DNA-methylation and gene expression using high-dimensional penalized regression: a cohort study on bone mineral density in postmenopausal women

description: Table S2. The 22 identified CpGs selected by our weighted Lasso with data integration, together with information about their function and relation to bone. The functions are found using the web-site www.genecards.org, unless referred to by citation. No mark means no relevant information. (XLSX 34 kb)
DOI: 10.6084/m9.figshare.5960530.v1
title: Additional file 6 of Integrated analysis of DNA-methylation and gene expression using high-dimensional penalized regression: a cohort study on bone mineral density in postmenopausal women

description: Table S2. The 22 identified CpGs selected by our weighted Lasso with data integration, together with information about their function and relation to bone. The functions are found using the web-site www.genecards.org, unless referred to by citation. No mark means no relevant information. (XLSX 34 kb)
DOI: 10.6084/m9.figshare.5960509
title: Additional file 5 of Integrated analysis of DNA-methylation and gene expression using high-dimensional penalized regression: a cohort study on bone mineral density in postmenopausal women

description: Table S1. The 22 identified CpGs selected by our weighted Lasso with data integration, together with their annotation. The first columns give the corresponding gene symbol and Illumina ID. Next follows the estimated regression coefficient β ̂ $\hat {\boldsymbol {\beta }} $ from the optimal fitted model. The locations are described by CHR (chromosome) and Mapinfo (base pair position on the chromosome). The annotations are described by Probe SNPs (single nucleotide polymorphisms) Probe SNPs 10 (one SNP within 10 base pairs of the CpG site), Ucsc refgene group (see Additional file 1: Figure S5 for more details). Relation to ucsc CpG island (where the label Island is a region with high frequency of CpG sites, N Shore or S Shore are neighboring region 5’ or 3’ to CpG island, N Shelf or S Shelf are neighboring region 5’ or 3’ to CpG shore), DMR (differentially methylated regions), Enhancer (region of DNA that binds proteins to regulate transcription of a gene), Regulatory feature group (Promoter Associated or unclassified) and DHS (DNase I hypersensitive sites are regions where the chromatin has lost its condensed structure, exposing the DNA and making it extra accessible to DNAse cleavage). No mark means no available information. Information is taken from Illumina. (XLSX 48 kb)
DOI: 10.6084/m9.figshare.5960509.v1
title: Additional file 5 of Integrated analysis of DNA-methylation and gene expression using high-dimensional penalized regression: a cohort study on bone mineral density in postmenopausal women

description: Table S1. The 22 identified CpGs selected by our weighted Lasso with data integration, together with their annotation. The first columns give the corresponding gene symbol and Illumina ID. Next follows the estimated regression coefficient β ̂ $\hat {\boldsymbol {\beta }} $ from the optimal fitted model. The locations are described by CHR (chromosome) and Mapinfo (base pair position on the chromosome). The annotations are described by Probe SNPs (single nucleotide polymorphisms) Probe SNPs 10 (one SNP within 10 base pairs of the CpG site), Ucsc refgene group (see Additional file 1: Figure S5 for more details). Relation to ucsc CpG island (where the label Island is a region with high frequency of CpG sites, N Shore or S Shore are neighboring region 5’ or 3’ to CpG island, N Shelf or S Shelf are neighboring region 5’ or 3’ to CpG shore), DMR (differentially methylated regions), Enhancer (region of DNA that binds proteins to regulate transcription of a gene), Regulatory feature group (Promoter Associated or unclassified) and DHS (DNase I hypersensitive sites are regions where the chromatin has lost its condensed structure, exposing the DNA and making it extra accessible to DNAse cleavage). No mark means no available information. Information is taken from Illumina. (XLSX 48 kb)
DOI: 10.6084/m9.figshare.5960497
title: Additional file 1: of The English National Cohort Study of Flooding and Health: the change in the prevalence of psychological morbidity at year two

description: Survey Questionnaire. (ODT 168 kb)
DOI: 10.6084/m9.figshare.5960497.v1
title: Additional file 1: of The English National Cohort Study of Flooding and Health: the change in the prevalence of psychological morbidity at year two

description: Survey Questionnaire. (ODT 168 kb)
DOI: 10.6084/m9.figshare.5960461
title: Additional file 2: of Proteomic profiling of lung immune cells reveals dysregulation of phagocytotic pathways in female-dominated molecular COPD phenotype

description: Table S1. Heterogeneity indeces (I2) for proteins significantly altered between Smoker vs COPD groups joint gender as well as gender stratified models. Table S2. Protein identities and model statistics of proteins of interest from OPLS-DA models comparing Smoker and COPD groups for joint gender as well as gender stratified models. Table S3. Uniprot accessions, gene names, protein names, as well as and direction of alteration for proteins involved in pathways significantly altered due to COPD. Table S4. Pathways significantly enriched in female vs male COPD patients. Table S5. Names and MS/MS data of proteins used in statistical analyses. Table S6. Significantly altered proteins i Smoker vs COPD groups, stratified by gender. (XLSX 338 kb)
DOI: 10.6084/m9.figshare.5960461.v1
title: Additional file 2: of Proteomic profiling of lung immune cells reveals dysregulation of phagocytotic pathways in female-dominated molecular COPD phenotype

description: Table S1. Heterogeneity indeces (I2) for proteins significantly altered between Smoker vs COPD groups joint gender as well as gender stratified models. Table S2. Protein identities and model statistics of proteins of interest from OPLS-DA models comparing Smoker and COPD groups for joint gender as well as gender stratified models. Table S3. Uniprot accessions, gene names, protein names, as well as and direction of alteration for proteins involved in pathways significantly altered due to COPD. Table S4. Pathways significantly enriched in female vs male COPD patients. Table S5. Names and MS/MS data of proteins used in statistical analyses. Table S6. Significantly altered proteins i Smoker vs COPD groups, stratified by gender. (XLSX 338 kb)
DOI: 10.6084/m9.figshare.5960407
title: Additional file 2: of Environmental suitability for Lutzomyia (Nyssomyia) whitmani (Diptera: Psychodidae: Phlebotominae) and the occurrence of American cutaneous leishmaniasis in Brazil

description: Table S2. Compiled presence records of Lutzomyia (N.) whitmani. (XLSX 60 kb)
DOI: 10.6084/m9.figshare.5960407.v1
title: Additional file 2: of Environmental suitability for Lutzomyia (Nyssomyia) whitmani (Diptera: Psychodidae: Phlebotominae) and the occurrence of American cutaneous leishmaniasis in Brazil

description: Table S2. Compiled presence records of Lutzomyia (N.) whitmani. (XLSX 60 kb)
DOI: 10.6084/m9.figshare.5960392
title: Additional file 1: of Environmental suitability for Lutzomyia (Nyssomyia) whitmani (Diptera: Psychodidae: Phlebotominae) and the occurrence of American cutaneous leishmaniasis in Brazil

description: Table S1. Compiled presence records of American cutaneus leishmaniasis (ACL). (XLSX 113 kb)
DOI: 10.6084/m9.figshare.5960392.v1
title: Additional file 1: of Environmental suitability for Lutzomyia (Nyssomyia) whitmani (Diptera: Psychodidae: Phlebotominae) and the occurrence of American cutaneous leishmaniasis in Brazil

description: Table S1. Compiled presence records of American cutaneus leishmaniasis (ACL). (XLSX 113 kb)
DOI: 10.6084/m9.figshare.5960353
title: Additional file 1: of A loss-of-function genetic screening reveals synergistic targeting of AKT/mTOR and WTN/Î˛-catenin pathways for treatment of AML with high PRL-3 phosphatase

description: Table S1. Genes critical for survival of PRL-3 high AML cells revealed by Mission shRNA library screening. (XLS 246Â kb)
DOI: 10.6084/m9.figshare.5960353.v1
title: Additional file 1: of A loss-of-function genetic screening reveals synergistic targeting of AKT/mTOR and WTN/Î˛-catenin pathways for treatment of AML with high PRL-3 phosphatase

description: Table S1. Genes critical for survival of PRL-3 high AML cells revealed by Mission shRNA library screening. (XLS 246Â kb)
DOI: 10.17608/k6.auckland.5960092
title: Poi and Tai Chi research: cognitive data

description: Cognitive data from the poi and Tai Chi study. All measures are from CNS Vital Signs Computerized Neurocognitive Assessment Software.<b><br></b><b>Measures</b>composite memory (CMEM)verbal memory (VERMEM)visual memory (VISMEM)psychomotor speed (PSYSPD)reaction time (RT)cognitive flexibility (COGFLEX)processing speed (PROCSPD)executive function (EXECF)motor speed (MOTSPD)complex attention (COMPAT)simple attention (SIMAT)neuro cognitive index (NCI)<b><br></b><b>Time points</b>1 = one month before intervention2 = immediately before intervention3 = immediately after one month intervention4 = immediately after two month intervention5 = one month post intervention<br>
DOI: 10.17608/k6.auckland.5960092.v1
title: Poi and Tai Chi research: cognitive data

description: Cognitive data from the poi and Tai Chi study. All measures are from CNS Vital Signs Computerized Neurocognitive Assessment Software.<b><br></b><b>Measures</b>composite memory (CMEM)verbal memory (VERMEM)visual memory (VISMEM)psychomotor speed (PSYSPD)reaction time (RT)cognitive flexibility (COGFLEX)processing speed (PROCSPD)executive function (EXECF)motor speed (MOTSPD)complex attention (COMPAT)simple attention (SIMAT)neuro cognitive index (NCI)<b><br></b><b>Time points</b>1 = one month before intervention2 = immediately before intervention3 = immediately after one month intervention4 = immediately after two month intervention5 = one month post intervention<br>
DOI: 10.6084/m9.figshare.5960014
title: Performance Model

description: This is a template Palladio Component model for privacy preserving data analytics based on partial homomorphic encryption.
DOI: 10.6084/m9.figshare.5960014.v1
title: Performance Model

description: This is a template Palladio Component model for privacy preserving data analytics based on partial homomorphic encryption.
DOI: 10.17608/k6.auckland.5960008
title: Poi and Tai Chi research: physical data

description: Physical data from the poi and Tai Chi study. <br><b>Measures</b>systolic blood pressure (SYSTOLIC)diastolic blood pressure (DIASTOLIC)heart rate (HR)functional reach (FR)four stage balance test (FOURSTGBLNCE)sit to stand test (SITSTAND)9 hole peg (PEG)hand grip (HGRIP)pinch grip (PGRIP)shoulder range of motion (SHLDR)elbow range of motion (ELBOW)wrist range of motion (WRIST)critical frequency for bimanual coordination circle tracing (CRITFREQ)<br><b>Time points</b>1 = one month before intervention2 = immediately before intervention3 = immediately after one month intervention4 = immediately after two month intervention5 = one month post intervention
DOI: 10.17608/k6.auckland.5960008.v1
title: Poi and Tai Chi research: physical data

description: Physical data from the poi and Tai Chi study. <br><b>Measures</b>systolic blood pressure (SYSTOLIC)diastolic blood pressure (DIASTOLIC)heart rate (HR)functional reach (FR)four stage balance test (FOURSTGBLNCE)sit to stand test (SITSTAND)9 hole peg (PEG)hand grip (HGRIP)pinch grip (PGRIP)shoulder range of motion (SHLDR)elbow range of motion (ELBOW)wrist range of motion (WRIST)critical frequency for bimanual coordination circle tracing (CRITFREQ)<br><b>Time points</b>1 = one month before intervention2 = immediately before intervention3 = immediately after one month intervention4 = immediately after two month intervention5 = one month post intervention
DOI: 10.6084/m9.figshare.5959978
title: data.tar.gz

description: Representative outputs in a Journal paper
DOI: 10.6084/m9.figshare.5959978.v1
title: data.tar.gz

description: Representative outputs in a Journal paper
DOI: 10.6084/m9.figshare.5959960
title: cbdata20feb.csv

description: Data from 03EI study - an observational study in Ho Chi Minh CIty-Vietnam, enrolling patients in all severity.<br>
DOI: 10.6084/m9.figshare.5959960.v1
title: cbdata20feb.csv

description: Data from 03EI study - an observational study in Ho Chi Minh CIty-Vietnam, enrolling patients in all severity.<br>
DOI: 10.6084/m9.figshare.5959957
title: Adult Summary Files

description: These files provide summary statistics (mean, SD, Max) for counts/minute of the accelerometry data. Each line represents summarizes the data of one participant. There are separate files for wrist and waist, as well day (6a-10p), night and combined.<br>
DOI: 10.6084/m9.figshare.5959957.v1
title: Summary Files

description: These files provide summary statistics (mean, SD, Max) for counts/minute of the accelerometry data. Each line represents summarizes the data of one participant. There are separate files for wrist and waist, as well day (6a-10p), night and combined.<br>
DOI: 10.6084/m9.figshare.5959945
title: SEDEX2 Topographic and Bathymetric Data

description: Cross-shore transect data collected with backpack based real-time kinematic GPS was collected of the beach and dune at intervals of daily to ~monthly as part of the Sandbar Aeolian Dune Exchange Experiment (SEDEX2) in Oysterville, WA, USA. Bathymetric data is also provided from Oysterville, WA which was collected using the Coastal Profiling System (Ruggiero et al., 2005).<br>Landscape measurements published here are from a single cross-shore transect (SEDEX2 Line 17) in XYZ format. The XYZ data represents point data in the Washington State Plane (meters) horizontal coordinate system and a vertical datum of NAVD88 (m), with the date of data collection described within the filename.
DOI: 10.6084/m9.figshare.5959927
title: Array Associations

description: We have also tested whether any of the six reported SNPs available in UK Biobank had different MAFs in the UK BiLEVE and UK Biobank samples (suggestive of a chip effect); however none showed evidence of this.
DOI: 10.6084/m9.figshare.5959864
title: Male Great Bowerbirds perform courtship display using a novel structure that rivals cannot destroy

description: Male–male competition can cause less competitive males to pursue alternative mating strategies or defer reproduction until they are older. For species that display using non-bodily ornaments, male interference can also involve limiting rivals’ access to display materials. I document a novel solution to male interference with external display structures in Great Bowerbirds (<i>Ptilonorhynchus nuchalis</i>). Males build and display at stick structures (‘bowers’), but they frequently destroy other males’ bowers. I show that some males, including young individuals, adapt to this interference by displaying around tree trunks instead of bowers. Tree trunks cannot be destroyed, so males can display at them despite interference. Display rates were higher at tree trunk display sites (‘display trees’) than bowers. Display trees had a basal diameter similar to the width of the front of the bower walls, allowing males to display in a similar manner as at bowers. Bower-owning males stole more experimentally placed decorations from display trees than random trees or bowers; most attempts at bower building by males at display trees were destroyed. Display trees were located closer to bowers than bowers were to each other. Display trees may allow younger and less competitive males to attempt to attract females visiting nearby established bowers and to gain competence in display.
DOI: 10.6084/m9.figshare.5959864.v1
title: Male Great Bowerbirds perform courtship display using a novel structure that rivals cannot destroy

description: Male–male competition can cause less competitive males to pursue alternative mating strategies or defer reproduction until they are older. For species that display using non-bodily ornaments, male interference can also involve limiting rivals’ access to display materials. I document a novel solution to male interference with external display structures in Great Bowerbirds (<i>Ptilonorhynchus nuchalis</i>). Males build and display at stick structures (‘bowers’), but they frequently destroy other males’ bowers. I show that some males, including young individuals, adapt to this interference by displaying around tree trunks instead of bowers. Tree trunks cannot be destroyed, so males can display at them despite interference. Display rates were higher at tree trunk display sites (‘display trees’) than bowers. Display trees had a basal diameter similar to the width of the front of the bower walls, allowing males to display in a similar manner as at bowers. Bower-owning males stole more experimentally placed decorations from display trees than random trees or bowers; most attempts at bower building by males at display trees were destroyed. Display trees were located closer to bowers than bowers were to each other. Display trees may allow younger and less competitive males to attempt to attract females visiting nearby established bowers and to gain competence in display.
DOI: 10.6084/m9.figshare.5959768
title: Paralytic shellfish toxins in Australian Southern Rock Lobster (<i>Jasus edwardsii</i>): Acute human exposure from consumption of hepatopancreas

description: Paralytic shellfish toxins (PST) were identified in the hepatopancreas of Southern Rock Lobster (<i>Jasus edwardsii</i>) during <i>Alexandrium tamarense</i> blooms in Tasmania, Australia. Human health risk from PST in lobsters was unknown – this study assesses exposure to PST from hepatopancreas consumption. Lobster hepatopancreas samples collected during blooms (n = 181) were mostly positive for PST (&gt;88%), the highest concentration was 4032 μg STX-2HCl eq/kg. Consumer exposure to PST was estimated using a 2-D Monte Carlo model. Mean PST intake (<i>pi</i>) from hepatopancreas consumption (raw and cooked) was below the lowest-observed-adverse-effect-level (LOAEL) for PST (&lt;2.0 μg/kg bw), however the 97.5th percentile <i>pi</i> for raw meals (2.64 μg/kg bw) exceeded the LOAEL. A total of 4.1% of raw hepatopancreas meals were estimated to exceed the LOAEL. Lobster hepatopancreas consumption during <i>A. tamarense</i> blooms may be concerning for a small proportion of consumers, particularly those that eat large meals at the bloom peak. However, when the model was re-run with PST concentration capped at the bivalve regulatory limit (800 μg STX-2HCl eq/kg) <i>pi</i> decreased, with the 97.5th percentile values below the LOAEL. Thus, issuing public health warnings and harvesting restrictions for lobsters when levels exceed 800 μg STX-2HCl eq/kg would reduce the probability of illness occurring.