cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.c.3605375_d5
title: Additional file 6: of Genome-wide binding analysis of the transcriptional regulator TrmBL1 in Pyrococcus furiosus

description: Gene-annotation enrichment analysis. (XLSX 13Â kb)
DOI: 10.6084/m9.figshare.c.3605381_d1
title: Additional file 1: Table S1. of Widespread hepatitis B virus genotype G (HBV-G) infection during the early years of the HIV epidemic in the Netherlands among men who have sex with men

description: Contains the sequences of the PCR-primers used in the study. (XLS 39Â kb)
DOI: 10.6084/m9.figshare.c.3605375_d6
title: Additional file 4: of Genome-wide binding analysis of the transcriptional regulator TrmBL1 in Pyrococcus furiosus

description: Position of the TrmBL1 binding sites in relation to annotated genes, RNA transcripts and promoter regions and differential expression of these genes under glycolytic versus gluconeogenic growth conditions. (XLSX 23Â kb)
DOI: 10.6084/m9.figshare.c.3605375_d8
title: Additional file 1: of Genome-wide binding analysis of the transcriptional regulator TrmBL1 in Pyrococcus furiosus

description: Used primer sequences and plasmids. (XLSX 24Â kb)
DOI: 10.6084/m9.figshare.c.3605399_d1
title: Additional file 1: Table S1. of High-performance web services for querying gene and variant annotation

description: The gene-specific annotation fields available from MyGene.info. (XLS 32 kb)
DOI: 10.6084/m9.figshare.c.3605441_d1
title: Additional file 3: of Characterization of multiple sequence alignment errors using complete-likelihood score and position-shift map

description: A ZIP archive, containing the results of our manual validation analyses of our prototype Perl script to classify MSA errors into various types. See â  README.txtâ   contained in it for its synoptic explanation. (ZIP 1247 kb)
DOI: 10.6084/m9.figshare.c.3605453_d1
title: Additional file 1: of Eco-epidemiological study of an endemic Chagas disease region in northern Colombia reveals the importance of Triatoma maculata (Hemiptera: Reduviidae), dogs and Didelphis marsupialis in Trypanosoma cruzi maintenance

description: Geographic distribution of studied localities.
DOI: 10.6084/m9.figshare.c.3605441_d3
title: Additional file 2: of Characterization of multiple sequence alignment errors using complete-likelihood score and position-shift map

description: The ZIP archive of a package that contains the original versions of Perl modules and scripts used for creating the simulated and reconstructed MSAs and for analyzing these MSAs. It also contains a README file that describes how to use the modules and scripts. (The modules and scripts will run on a Mac OS X terminal. And it will probably run on other UNIX platforms, although we have not tested whether they indeed do.) The package also contains the Dawg control files that were used for the simulations. The latest version of the package (“ComplLiMment_P.verxxx”) can be found in the ‘lolipog’ directory at the FTP repository of the Bioinformatics Organization [85]. (ZIP 4746 kb)
DOI: 10.6084/m9.figshare.c.3605501_d2
title: MOESM4 of Defining rules of CD8+ T cell expansion against pre-erythrocytic Plasmodium antigens in sporozoite-immunized mice

description: Additional file 4. Title: Common peptides from syntenic orthologues of P. falciparum 3D7/P. vivax Sal1. This file provides multiple worksheets listing â Ľ8 amino acid contiguous stretches of homology for P. falciparum 3D7/P. vivax Sal1 syntenic orthologue pairs for all lifecycle stages, sporozoite stage and liver stage proteins.
DOI: 10.6084/m9.figshare.c.3605501_d3
title: MOESM3 of Defining rules of CD8+ T cell expansion against pre-erythrocytic Plasmodium antigens in sporozoite-immunized mice

description: Additional file 3. Title: Common peptides from syntenic orthologues of P. yoelii 17XNL and P. berghei ANKA. This file provides multiple worksheets listing â Ľ8 amino acid contiguous stretches of homology for P. yoelii 17XNL/P. berghei ANKA syntenic orthologue pairs for all lifecycle stages, sporozoite stage and liver stage proteins.
DOI: 10.15468/dl.drppdp
title: Occurrence Download

description: A dataset containing 15 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Crepidiastrum hallaisanense (H.Lév.) Pak"
 ]
}

 The dataset includes 15 records from 8 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0032695-241126133413365/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.6084/m9.figshare.c.3605477_d6
title: Additional file 6: of Comparative analysis of Wnt expression identifies a highly conserved developmental transition in flatworms

description: List of genes studied in this work. The GeneDB codes ( www.genedb.org ) of E. multilocularis and H. microstoma gene models are given, together with the primer sequences used for transcript amplification by RT-PCR. (XLSX 12 kb)
DOI: 10.15468/dl.u6tqqt
title: Occurrence Download

description: A dataset containing 49 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Dendranthema coreanum (H.Lév. & Vaniot) Vorosch."
 ]
}

 The dataset includes 49 records from 9 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0032696-241126133413365/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.6084/m9.figshare.c.3605567_d4
title: MOESM1 of Collapse of an iconic conifer: long-term changes in the demography of Widdringtonia cedarbergensis using repeat photography

description: Additional file 1: Table S1. Details of photographers for all 87 repeat photograph photo-pairs taken in the Cederberg Wilderness Area between 1931 and 2013.
DOI: 10.6084/m9.figshare.c.3605582_d1
title: Additional file 2: of Charting the evolution of approaches employed by the Global Alliance for Vaccines and Immunizations (GAVI) to address inequities in access to immunization: a systematic qualitative review of GAVI policies, strategies and resource allocation mechanisms through an equity lens (1999â  2014)

description: Detailed literature results. (XLSX 79 kb)
DOI: 10.15468/dl.6u22xw
title: Occurrence Download

description: A dataset containing 91 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Dendranthema oreastrum (Hance) Y.Ling"
 ]
}

 The dataset includes 91 records from 17 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0032697-241126133413365/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.6084/m9.figshare.c.3605591_d2
title: Additional file 2: of Impact of tissue sampling on accuracy of Ki67 immunohistochemistry evaluation in breast cancer

description: Initial dataset of the study. (XLSX 2 mb)
DOI: 10.15468/dl.nnyk9q
title: Occurrence Download

description: A dataset containing 180 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Leontopodium coreanum Nakai"
 ]
}

 The dataset includes 180 records from 21 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0032698-241126133413365/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.6084/m9.figshare.c.3605630_d3
title: Additional file 4: of In vivo gene expression in a Staphylococcus aureus prosthetic joint infection characterized by RNA sequencing and metabolomics: a pilot study

description: Complete list of differentially expressed genes computed using EdgeR. FC: fold change; CPM: count per million; FDR: false discovery rate. (XLSX 84 kb)
DOI: 10.6084/m9.figshare.c.3605597_d8
title: Additional file 4: of RNA-seq analyses of changes in the Anopheles gambiae transcriptome associated with resistance to pyrethroids in Kenya: identification of candidate-resistance genes and candidate-resistance SNPs

description: Lists of DE genes. List of the 2457 genes significantly DE between field-caught resistant and susceptible mosquitoes (Sheet 2457 RvS). List of the 182 genes significantly DE between field-caught resistant and susceptible mosquitoes of the Kisumu strain, but not field-caught susceptible mosquitoes and Kisumu mosquitoes (sheet 182 constitutive DE gene). List of the 55 DE genes in mosquitoes from Western Kenya in 2010 and 2012 (Sheet 55 candidate resistance genes). (XLSX 394 kb)
DOI: 10.6084/m9.figshare.c.3605654_d1
title: Additional file 1: of The effect of motherâ  s educational status on early initiation of breastfeeding: further analysis of three consecutive Nepal Demographic and Health Surveys

description: Detail results of the hierarchical modeling using logistic regression. (XLSX 35 kb)
DOI: 10.6084/m9.figshare.c.3605720_d2
title: Additional file 1: of Unaltered sequence of dental, skeletal, and sexual maturity in domestic dogs compared to the wolf

description: Tooth eruption and growth plate closure stages in the wolves and domestic dogs examined in this study. (XLSX 34 kb)
DOI: 10.6084/m9.figshare.c.3605732_d2
title: Additional file 2: of A Colletotrichum graminicola mutant deficient in the establishment of biotrophy reveals early transcriptional events in the maize anthracnose disease interaction

description: Supplemental Data Tables. (XLSX 1099 kb)
DOI: 10.6084/m9.figshare.c.3605711_d7
title: Additional file 4: Table S4. of The rumen microbial metagenome associated with high methane production in cattle

description: KEGG dataset in order of the ratio of gene abundance, high:low emitters. (XLSX 443 kb)
DOI: 10.6084/m9.figshare.c.3605759_d3
title: Additional file 10: Table S8. of Post-weaning blood transcriptomic differences between Yorkshire pigs divergently selected for residual feed intake

description: Association of gene expression with RFI phenotype. (XLSX 12 kb)
DOI: 10.6084/m9.figshare.c.3605759_d4
title: Additional file 2: Table S2. of Post-weaning blood transcriptomic differences between Yorkshire pigs divergently selected for residual feed intake

description: Primers used to validate differentially expressed genes by RT-qPCR. (XLSX 17 kb)
DOI: 10.6084/m9.figshare.c.3605759_d5
title: Additional file 3: Table S3. of Post-weaning blood transcriptomic differences between Yorkshire pigs divergently selected for residual feed intake

description: Statistical summary of raw, trimmed, mapped and residual globin reads. (XLSX 17 kb)
DOI: 10.6084/m9.figshare.c.3605759_d7
title: Additional file 13: Table S11. of Post-weaning blood transcriptomic differences between Yorkshire pigs divergently selected for residual feed intake

description: Association of module eigengenes with RFI phenotype. (XLSX 10 kb)
DOI: 10.6084/m9.figshare.c.3605780_d1
title: Additional file 1:  of Rapid-Onset Obesity with Hypothalamic Dysfunction, Hypoventilation, and Autonomic Dysregulation (ROHHAD): exome sequencing of trios, monozygotic twins and tumours

description: Low-coverage proportions of candidate genes in replication exomes. (XLSX 43 kb)
DOI: 10.6084/m9.figshare.c.3605759_d8
title: Additional file 9: Table S7. of Post-weaning blood transcriptomic differences between Yorkshire pigs divergently selected for residual feed intake

description: Validation of differentially expressed genes by RT-qPCR assays. (XLSX 18 kb)
DOI: 10.6084/m9.figshare.c.3605759_d9
title: Additional file 11: Table S9. of Post-weaning blood transcriptomic differences between Yorkshire pigs divergently selected for residual feed intake

description: Differentially expressed WGCNA modules between the RFI groups. (XLSX 307 kb)
DOI: 10.6084/m9.figshare.c.3605780_d2
title: Additional file 2:  of Rapid-Onset Obesity with Hypothalamic Dysfunction, Hypoventilation, and Autonomic Dysregulation (ROHHAD): exome sequencing of trios, monozygotic twins and tumours

description: Genes carrying putative candidate mutations in 2 of 7 ROHHAD probands in the discovery cohort. (XLSX 44 kb)
DOI: 10.6084/m9.figshare.c.3605759_d10
title: Additional file 4: Table S4. of Post-weaning blood transcriptomic differences between Yorkshire pigs divergently selected for residual feed intake

description: Differentially expressed genes identified by RNA-seq. (XLSX 5306 kb)
DOI: 10.6084/m9.figshare.c.3605789_d2
title: Additional file 2 of MISSEL: a method to identify a large number of small species-specific genomic subsequences and its application to viruses classification

description: This supplementary data package includes the experimental results of MISSEL. In particular, the reader may find three folders.
DOI: 10.6084/m9.figshare.c.3605849_d1
title: Additional file 2: Table S2. of Effects of repeated comparative intradermal tuberculin testing on test results: a longitudinal study in TB-free red deer

description: Individual results for red deer hinds under repeated (every 6 months) comparative tuberculin skin testing on skin test and ELISA response (in E%). In the skin test the animals were considered TB reactors if the skin fold increase to bPPD was greater than 2 mm and more than 1 mm larger than the skin fold increase to aPPD; and avian reactors were defined as those with a skin fold increase to aPPD &gt;3 mm (all single reactors are in yellow). In the ELISA tests for antibodies against avian antigens (aPPD and PPA3) and bovine antigens (bPPD and MPB70), sera with E% values greater than 100 were considered positive (in red) (XLS 120 kb)
DOI: 10.15468/dl.bb39rv
title: Occurrence Download

description: A dataset containing 187 species occurrences available in GBIF matching the query:
{
 "and" : [
 "BasisOfRecord is Specimen",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "TaxonKey is Tantilla rubra Cope, 1875"
 ]
}

 The dataset includes 187 records from 28 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0032699-241126133413365/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.6084/m9.figshare.c.3605870_d1
title: Additional file 4: of Effect of a diet enriched with omega-6 and omega-3 fatty acids on the pig liver transcriptome

description: The list of DEGs specific to experimental (E) group. A list of significant annotation clusters based on the analysis of functional ontologies using the DAVID tools including DEGs above detection level only in the E diet group. (XLS 1109 kb)
DOI: 10.6084/m9.figshare.c.3605870_d2
title: Additional file 1: of Effect of a diet enriched with omega-6 and omega-3 fatty acids on the pig liver transcriptome

description: The list of genes related to fatty acid metabolism from Cytoscape-ClueGo. (XLS 409 kb)
DOI: 10.6084/m9.figshare.c.3605888_d1
title: Additional file 1 of Parasail: SIMD C library for global, semi-global, and local pairwise sequence alignments

description: Parasail v1.0.0 source code. The source code of Parasail version 1.0.0 as a gzipped tar archive file. (GZ 1180 kb)
DOI: 10.6084/m9.figshare.c.3605870_d3
title: Additional file 2: of Effect of a diet enriched with omega-6 and omega-3 fatty acids on the pig liver transcriptome

description: The list of significantly differentially expressed genes (DEGs). Significant annotation clusters were listed based on the analysis of functional ontologies using the DAVID tools including all DEGs. (XLS 4445 kb)
DOI: 10.6084/m9.figshare.c.3605870_d4
title: Additional file 5: of Effect of a diet enriched with omega-6 and omega-3 fatty acids on the pig liver transcriptome

description: Cytoscape-ClueGo analysis, including genes with detectable gene expression found only in the E diet group. (XLS 423 kb)
DOI: 10.6084/m9.figshare.c.3605870_d5
title: Additional file 3: of Effect of a diet enriched with omega-6 and omega-3 fatty acids on the pig liver transcriptome

description: Cytoscape-ClueGo analysis including all DEGs. (XLS 212 kb)
DOI: 10.6084/m9.figshare.c.3605870_d6
title: Additional file 7: of Effect of a diet enriched with omega-6 and omega-3 fatty acids on the pig liver transcriptome

description: Cytoscape-ClueGo analysis of genes with detectable gene expression found only in the C diet group. (XLS 162 kb)
DOI: 10.6084/m9.figshare.c.3605951_d1
title: Additional file 1: Table S1. of Genome sequence of the clover symbiont Rhizobium leguminosarum bv. trifolii strain CC275e

description: List of strain names and associated NCBI GenBank accession numbers for bacterial isolates in Fig. 2. (XLSX 13 kb)
DOI: 10.6084/m9.figshare.c.3605978_d1
title: Additional file 15: Figure S7. of Transcription analysis of neonicotinoid resistance in Mediterranean (MED) populations of B. tabaci reveal novel cytochrome P450s, but no nAChR mutations associated with the phenotype

description: Amino acid sequences (fasta format) of P450s from B. tabaci transcriptome with available protein sequences from other insect species included in the phylogeny (Additional file 13: Figure S6). (FAS 223 kb)
DOI: 10.6084/m9.figshare.28008611
title: H5ad_files

description: The cellular components and defense mechanisms of innate immunity have diversified alongside the evolution from invertebrates to vertebrates to adapt to a rapidly changing environment. It remains unclear how immune functions and corresponding molecules are conserved or have diverged during evolution. Here, we generated invertebrate hemolymph and vertebrate blood single cell transcriptome landscapes across six species at different taxonomic nodes and combined them with public data to construct a comprehensive cross-species cellular hierarchy. We defined distinctive phagocytic-like cells (PLCs) within various invertebrates that share homologous transcriptional programs with vertebrate myeloid cells. Through cross-species comparisons, we identified a variety of functional molecules and transcription factors shared by phagocytic cells in invertebrates and myeloid cells in vertebrates, which are the core regulatory programs for the inheritance of phagocytic capabilities. Remarkably, we combined the latest Stereo-Cell technology to define specific hemocyte subtypes in invertebrates as potential ancestors of thrombocytes through the expression of coagulation-related factors in clots. Our study elucidates the ancient and conserved aspects of phagocytosis in immune system evolution and provides the first specific definition for the origin of thrombocytes.
DOI: 10.6084/m9.figshare.28008611.v1
title: H5ad_file

description: The cellular components and defense mechanisms of innate immunity have diversified alongside the evolution from invertebrates to vertebrates to adapt to a rapidly changing environment. It remains unclear how immune functions and corresponding molecules are conserved or have diverged during evolution. Here, we generated invertebrate hemolymph and vertebrate blood single cell transcriptome landscapes across six species at different taxonomic nodes and combined them with public data to construct a comprehensive cross-species cellular hierarchy. We defined distinctive phagocytic-like cells (PLCs) within various invertebrates that share homologous transcriptional programs with vertebrate myeloid cells. Through cross-species comparisons, we identified a variety of functional molecules and transcription factors shared by phagocytic cells in invertebrates and myeloid cells in vertebrates, which are the core regulatory programs for the inheritance of phagocytic capabilities. Remarkably, we combined the latest Stereo-Cell technology to define specific hemocyte subtypes in invertebrates as potential ancestors of thrombocytes through the expression of coagulation-related factors in clots. Our study elucidates the ancient and conserved aspects of phagocytosis in immune system evolution and provides the first specific definition for the origin of thrombocytes.
DOI: 10.15468/dl.gvyyn8
title: Occurrence Download

description: A dataset containing 2487 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Lupinus lepidus Douglas ex Lindl."
 ]
}

 The dataset includes 2487 records from 110 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0032700-241126133413365/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.6084/m9.figshare.c.3605990_d5
title: Additional file 4: Table S3. of Novel equine tissue miRNAs and breed-related miRNA expressed in serum

description: Novel miRNA characteristics. An Excel table with novel miRNAs identified in this study. Mature miRNA sequences, genomic coordinates of the hairpins, strand and miRDeep2 score are given. (XLSX 85 kb)
DOI: 10.6084/m9.figshare.c.3605996_d4
title: Additional file 5: of The neurotranscriptome of the Aedes aegypti mosquito

description: Is a table of transcript abundance (in units of TPM) for all non-blood-fed and male tissues, AaegL.RU annotation. (XLSX 20937 kb)
DOI: 10.6084/m9.figshare.c.3605993_d5
title: Additional file 9: Table S10. of A machine learning strategy for predicting localization of post-translational modification sites in protein-protein interacting regions

description: List of known PTMs identified to be located inside/outside PPIRs after mapping process. (XLSX 677 kb)
DOI: 10.15468/dl.fbpz0o
title: Occurrence Download

description: A dataset containing 11778 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Sylvilagus floridanus (J.A.Allen, 1890)"
 ]
}

 The dataset includes 11778 records from 109 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0000557-150528172251762/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.xavz8n
title: Occurrence Download

description: A dataset containing 145 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Androcymbium Willd."
 ]
}

 The dataset includes 145 records from 28 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0004853-231002084531237/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.errn5a
title: Occurrence Download

description: A dataset containing 19247028 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Mollusca"
 ]
}

 The dataset includes 19247028 records from 5215 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0004856-231002084531237/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.6084/m9.figshare.28590530
title: Files for Valley Floor, Organic Carbon, Formations - Organic Carbon Storage Project (NSERC Discovery Grant, Dr. Yvonne Martin)

description: The research project considers geological and geomorphological controls on organic carbon storage associated with vegetation in Kananaskis, Canadian Rockies.
DOI: 10.6084/m9.figshare.28590560
title: Files for Mapping - Organic Carbon Storage Project (NSERC Discovery Grant, Dr. Yvonne Martin)

description: This research project considers geological and geomorphological controls on organic carbon storage associated with vegetation in Kananaskis, Canadian Rockies.
DOI: 10.15468/dl.4f9gzh
title: Occurrence Download

description: A dataset containing 234237 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Continent is South America",
 "TaxonKey is Myiozetetes cayanensis (Linnaeus, 1766)"
 ]
}

 The dataset includes 234237 records from 474 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0017182-250310093411724/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.