cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.c.3625583_d4
title: Additional file 4: Table S1. of Why do different oceanic archipelagos harbour contrasting levels of species diversity? The macaronesian endemic genus Pericallis (Asteraceae) provides insight into explaining the ‘Azores diversity Enigma’

description: Sample information for accessions used in the AFLP and morphological analyses (collector’s name(s), collection number, collection date, island, locality, altitude, latitude, longitude, analysis/es applied to sample, well number (AFLP), population code for AMOVA (AFLP) and morphometric data for each sample analysed (imputed and standardized)). (XLSX 81 kb)
DOI: 10.6084/m9.figshare.c.3625589_d2
title: Additional file 5: Table S1. of A proteome analysis of freezing tolerance in red clover (Trifolium pratense L.)

description: Use of the cyanine (Cy) dyes to label the different samples. (XLSX 12 kb)
DOI: 10.6084/m9.figshare.c.3625574_d3
title: Additional file 3: Table S1. of WIDDE: a Web-Interfaced next generation database for genetic diversity exploration, with a first application in cattle

description: Summary of average allele sharing distance results obtained for the new individuals belonging to Tarentaise and Montbéliard populations. The top five averages allele sharing distance calculated between 7 new individuals belonging to Tarentaise (125) and Montbéliard (221) populations and the 2250 individuals from the 45 public populations of the WIDDE reference dataset are presented. For each new individual, the minimum and maximum allele sharing distances per reference population are also mentioned. Table S2. Summary of the supervised clustering results obtained for the 7 new individuals belonging to Tarentaise (125) and Montbéliard (221) populations. For each individual, the different proportions of ancestry above 1 % attributed to a reference population are indicated in descending order. (XLSX 14 kb)
DOI: 10.6084/m9.figshare.c.3625577_d3
title: Additional file 6 of iRDA: a new filter towards predictive, stable, and enriched candidate genes

description: Table S6. Collapsed Genes. The file is a supplement to Table 9 to provide all the collapsed genes over six cancer benchmarks for GSEA. (XLSX 15 kb)
DOI: 10.6084/m9.figshare.c.3625589_d3
title: Additional file 4: Table S4b. of A proteome analysis of freezing tolerance in red clover (Trifolium pratense L.)

description: List of DIGE-spots with homology with sequences in databases that are down-regulated in response to cold acclimation (ANOVA, Pâ
DOI: 10.6084/m9.figshare.c.3625595_d5
title: Additional file 15: of Dynamic transcriptome profiling of Bean Common Mosaic Virus (BCMV) infection in Common Bean (Phaseolus vulgaris L.)

description: Significant alternate-splice transcripts for NL1-I at 8Â days after infection. (ZIP 20Â kb)
DOI: 10.6084/m9.figshare.c.3625610_d1
title: Additional file 4: of Evaluation of whole-genome sequencing of four Chinese crested dogs for variant detection using the ion proton system

description: Alignment statistics. Table describing the alignment statistics (percentage of mapped and duplicate reads). (XLSX 42Â kb)
DOI: 10.6084/m9.figshare.c.3625673_d1
title: Additional file 2: of Lifespan of restriction-modification systems critically affects avoidance of their recognition sites in host genomes

description: List of all analyzed prokaryotic genomic sequences. Tab-delimited table of chromosomes and plasmids of complete prokaryotic genomes that were analyzed in the work. (TSV 445 kb)
DOI: 10.6084/m9.figshare.c.3625595_d16
title: Additional file 20: of Dynamic transcriptome profiling of Bean Common Mosaic Virus (BCMV) infection in Common Bean (Phaseolus vulgaris L.)

description: Gene ontology terms for differentially expressed genes under NL1-I infection. (ZIP 43Â kb)
DOI: 10.6084/m9.figshare.c.3625619_d13
title: Additional file 9: of Global identification and analysis of long non-coding RNAs in diploid strawberry Fragaria vesca during flower and fruit development

description: Differentially expressed lncRNA isoforms in pairwise comparisons. (XLSX 3558 kb)
DOI: 10.6084/m9.figshare.c.3625676_d1
title: Additional file 2: Table S1. of Genome-wide identification of microRNAs in pomegranate (Punica granatum L.) by high-throughput sequencing

description: Length distribution and frequency of small RNA tags. (XLSX 10Â kb)
DOI: 10.6084/m9.figshare.c.3625619_d14
title: Additional file 7: of Global identification and analysis of long non-coding RNAs in diploid strawberry Fragaria vesca during flower and fruit development

description: The annotation file of 335 contigs in the .gff3 format (BLAT output). (GFF3 19 kb)
DOI: 10.6084/m9.figshare.c.3625673_d2
title: Additional file 3: of Lifespan of restriction-modification systems critically affects avoidance of their recognition sites in host genomes

description: List of all analyzed genomic sequences of eukaryotic viruses. Tab-delimited table of viral genome sequence IDs. (TSV 191 kb)
DOI: 10.6084/m9.figshare.c.3625676_d2
title: Additional file 1: Table S8. of Genome-wide identification of microRNAs in pomegranate (Punica granatum L.) by high-throughput sequencing

description: Primers used in this study for stem-loop RT-qPCR. (XLSX 10Â kb)
DOI: 10.6084/m9.figshare.c.3625673_d3
title: Additional file 4: of Lifespan of restriction-modification systems critically affects avoidance of their recognition sites in host genomes

description: The actual pairs dataset. Tab-delimited table of site-genome pairs where site is the recognition site of one of R-M systems encoded in the genome. (TSV 435 kb)
DOI: 10.6084/m9.figshare.c.3625676_d3
title: Additional file 5: Table S4. of Genome-wide identification of microRNAs in pomegranate (Punica granatum L.) by high-throughput sequencing

description: Novel miRNAs with the first nucleotide bias for 18- to 26-nt small RNAs. (XLSX 8Â kb)
DOI: 10.6084/m9.figshare.c.3625673_d4
title: Additional file 1: of Lifespan of restriction-modification systems critically affects avoidance of their recognition sites in host genomes

description: List of sites of all R-M systems available in REBASE. Tab-delimited table of recognition sites of R-M systems that were analyzed in the work. (TSV 162 kb)
DOI: 10.6084/m9.figshare.c.3625595_d18
title: Additional file 21: of Dynamic transcriptome profiling of Bean Common Mosaic Virus (BCMV) infection in Common Bean (Phaseolus vulgaris L.)

description: Gene ontology terms for differentially expressed genes under BCMV-S2 infection. (ZIP 41Â kb)
DOI: 10.6084/m9.figshare.c.3625676_d9
title: Additional file 8: Table S7. of Genome-wide identification of microRNAs in pomegranate (Punica granatum L.) by high-throughput sequencing

description: List of different KEGG pathways. (XLSX 19Â kb)
DOI: 10.6084/m9.figshare.c.3625700_d3
title: Additional file 2: Table S1. of Gender differences in murine pulmonary responses elicited by cellulose nanocrystals

description: Broad groups of enriched GO_terms based on the GO_slim classification system. The Cellular Component, Biological Process and Molecular Function annotations were classified into broad groups based on the GO-slim classification system using CateGOrizer. (XLSX 18 kb)
DOI: 10.6084/m9.figshare.c.3625745_d5
title: Additional file 11: of An efficient algorithm for identifying primary phenotype attractors of a large-scale Boolean network

description: Attractors for proliferation in the reduced CACC model. (XLSX 38Â kb)
DOI: 10.6084/m9.figshare.c.3625745_d8
title: Additional file 5: of An efficient algorithm for identifying primary phenotype attractors of a large-scale Boolean network

description: Attractors for apoptosis in the colitis-associated colon cancer (CACC) model. (XLSX 107Â kb)
DOI: 10.6084/m9.figshare.c.3625802_d1
title: MOESM5 of Profiling and bioinformatics analyses reveal differential circular RNA expression in radioresistant esophageal cancer cells

description: Additional file 5: Table S5. circRNA_miRNA.target gene.GO.
DOI: 10.6084/m9.figshare.c.3625787_d2
title: Additional file 1: of Venom-gland transcriptome and venom proteome of the Malaysian king cobra (Ophiophagus hannah)

description: Malaysian Ophiophagus hannah venom-gland transcriptome (Transcript FPKM &gt;1). (XLSX 13641 kb)
DOI: 10.6084/m9.figshare.c.3625802_d2
title: MOESM3 of Profiling and bioinformatics analyses reveal differential circular RNA expression in radioresistant esophageal cancer cells

description: Additional file 3: Table S3. circRNA_miRNA_pair.
DOI: 10.6084/m9.figshare.c.3625868_d2
title: Additional file 2:Â patient records. of The 2014 Ebola virus disease outbreak in Pujehun, Sierra Leone: epidemiology and impact of interventions

description: (XLSX 44 kb)
DOI: 10.6084/m9.figshare.c.3625862_d3
title: Additional file 2: Matrix S1. of Dengue research networks: building evidence for policy and planning in Brazil

description: Institutional network dataset (1995-1999). (CSV 3 kb)
DOI: 10.6084/m9.figshare.c.3625862_d4
title: Additional file 5: Matrix S4. of Dengue research networks: building evidence for policy and planning in Brazil

description: Institutional network dataset (2010-2014). (CSV 240 kb)
DOI: 10.15468/dl.6esa6v
title: Occurrence Download

description: A dataset containing 200 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Mammalia",
 "Geometry POLYGON ((-98.98333 21.63333, -98.65 21.63333, -98.65 21.85, -98.98333 21.85, -98.98333 21.63333))",
 "Year is greater than or equal to 1900",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present",
 {
 "not" : {
 "BasisOfRecord" : [
 "is one of (Fossil, Material citation)"
 ]
 }
 }
 ]
}

 The dataset includes 200 records from 9 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0033763-241126133413365/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.3625862_d5
title: Additional file 3: Matrix S2. of Dengue research networks: building evidence for policy and planning in Brazil

description: Institutional network dataset (2000-2004). CSV 17 kb
DOI: 10.6084/m9.figshare.c.3625862_d6
title: Additional file 6:Â Table S2. of Dengue research networks: building evidence for policy and planning in Brazil

description: List of paper titles and corresponding macro research themes (1995-2014). (XLSX 88 kb)
DOI: 10.6084/m9.figshare.c.3625943_d2
title: Additional file 3: of Analysis of nucleosome positioning landscapes enables gene discovery in the human malaria parasite Plasmodium falciparum

description: Primes used for predicted gene validation. (XLSX 12 kb)
DOI: 10.6084/m9.figshare.c.3625946_d1
title: Additional file 4: Table S4. of Insights into transcriptional changes that accompany organelle sequestration from the stolen nucleus of Mesodinium rubrum

description: Description and classification of DESeq log2FC over-expressed genes in KN. Genes of note are in bold with parenthetical notation indicating the pathway to which they belong. (XLSX 37 kb)
DOI: 10.15468/dl.8kpvz7
title: Occurrence Download

description: A dataset containing 257497 species occurrences available in GBIF matching the query:
{
 "and" : [
 "HasGeospatialIssue is false",
 "HasCoordinate is true",
 "OccurrenceStatus is Present",
 {
 "not" : {
 "BasisOfRecord" : [
 "is one of (Fossil, Living Specimen)"
 ]
 }
 },
 "TaxonKey is Aedes vexans (Meigen, 1830)"
 ]
}

 The dataset includes 257497 records from 94 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0033761-241126133413365/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.3626006_d1
title: Additional file 1: of Characterization of proliferating cell nuclear antigen (PCNA) from pathogenic yeast Candida albicans and its functional analyses in S. Cerevisiae

description: Table S1. Average O.D. 600of three sets of experiments (XLSX 11 kb)
DOI: 10.6084/m9.figshare.c.3626006_d2
title: Additional file 2: of Characterization of proliferating cell nuclear antigen (PCNA) from pathogenic yeast Candida albicans and its functional analyses in S. Cerevisiae

description: Table S2. Quantification of band intensities of Semi-quantitative RT PCR for yeast expressing various PCNAs (XLSX 11 kb)
DOI: 10.6084/m9.figshare.c.3626030_d1
title: Additional file 1: of Analysis of the genetic diversity and structure across a wide range of germplasm reveals prominent gene flow in apple at the European level

description: List of the 2446 accessions considered in the present study with their accession code (AcceNumber), name (AcceName), the name of the providing collection (Collection), their duplicate code according to the SSR profile (FBUNQ, see text), their ploidy level (Ploidy) determined according to the occurrences of three alleles per locus (see text), their status (Analyzed) as analyzed or not-analyzed within the duplicate group (when adequate), their documented European geographic region of origin (Eur_reg_orig), their putative country of origin (Country_orig), their group assignment (Group) inferred by the Structure analysis with the highest proportion of ancestry (qImax), and their subgroup assignment (Subgroup) inferred by the nested Structure analysis with the highest proportion of ancestry (qImax nested). (XLSX 394 kb)
DOI: 10.6084/m9.figshare.c.3626030_d2
title: Additional file 3: of Analysis of the genetic diversity and structure across a wide range of germplasm reveals prominent gene flow in apple at the European level

description: Characteristics of the 16 SSR markers used in this study with indication of the corresponding multiplex and dye. Footnotes: a [61]; b [60]; c [59]; d [62]; e Primer concentration within a given multiplex has been adjusted to get more homogeneous SSR marker amplification intensities. (XLSX 10 kb)
DOI: 10.6084/m9.figshare.c.3626042_d1
title: Additional file 2: of De novo SNP discovery and genetic linkage mapping in poplar using restriction site associated DNA and whole-genome sequencing technologies

description: Detailed information on genetic distance and linkage phase between adjacent SNP markers on the genetic linkage map of the female P. deltoides â  I-69â  . The corresponding identical SNPs identified based on the P. trichocarpa reference genome are also included. (XLS 452Â kb)
DOI: 10.6084/m9.figshare.c.3626126_d5
title: Additional file 4: of 
                     Ostreococcus tauri is a new model green alga for studying iron metabolism in eukaryotic phytoplankton

description: Data Sets 1. Detailed list of the genes whose expression was significantly modified in iron deprivation (−Fe) compared to iron excess (+Fe) condition. (XLS 1381 kb)
DOI: 10.6084/m9.figshare.c.3626126_d7
title: Additional file 5: of 
                     Ostreococcus tauri is a new model green alga for studying iron metabolism in eukaryotic phytoplankton

description: Data Sets 2. All information regarding all the genes for which expression was monitored using RNAseq technology. (XLS 7032 kb)
DOI: 10.15468/dl.xzz9yq
title: Occurrence Download

description: A dataset containing 218 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is Cabo Verde",
 "OccurrenceStatus is Present",
 "TaxonKey is Elasmobranchii"
 ]
}

 The dataset includes 218 records from 22 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0033764-241126133413365/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.3626195_d1
title: Additional file 3: of End-to-end automated microfluidic platform for synthetic biology: from design to functional analysis

description: PR-PR scripts.zip. Zip file containing files Gibson_Assembly.pr, IHDC_1.pr, IHDC_2.pr, IHDC_3.pr, Induction.pr, MBTH.pr and Transformation.pr, input script files for PR-PR. (ZIP 5.73 kb)
DOI: 10.15468/dl.segs3v
title: Occurrence Download

description: A dataset containing 2 species occurrences available in GBIF matching the query:
{
 "and" : [
 "CatalogNumber is one of (UMMZI-00165543, UMMZI-00165544)",
 "Country is United States of America"
 ]
}

 The dataset includes 2 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0033765-241126133413365/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.snbzdk
title: Occurrence Download

description: A dataset containing 231 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is Tanzania, United Republic of",
 "OccurrenceStatus is Present",
 "TaxonKey is Procavia capensis (Pallas, 1766)"
 ]
}

 The dataset includes 231 records from 10 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0033766-241126133413365/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.3626252_d12
title: Additional file 3: Table S3. of Mycoplasma non-coding RNA: identification of small RNAs and targets

description: Transcriptional analysis of the predicted M. hyopneumoniae sRNAs from different culture cultivations. (XLSX 69Â kb)
DOI: 10.6084/m9.figshare.c.3626279_d1
title: Additional file 4: Table S2. of Defining the nitrogen regulated transcriptome of Mycobacterium smegmatis using continuous culture

description: Comparison of the gene expression profile between nitrogen-depleted continuous culture versus batch culture of M. smegmatis. (XLSX 88Â kb)
DOI: 10.6084/m9.figshare.c.3626282_d1
title: Additional file 3: of The parameter sensitivity of random forests

description: Pairwise t-test results for sampsize intra-parameter groups for the low p/n data. All p-values were adjusted using a Benjamini-Hochberg procedure. There were no groups that differed significantly from each other. (TXT 333 bytes)
DOI: 10.6084/m9.figshare.c.3626276_d2
title: Additional file 2: of Identification of a RAI1-associated disease network through integration of exome sequencing, transcriptomics, and 3D genomics

description: Fourteen supporting tables. A table caption of each is given within the file. (XLSX 1540 kb)
DOI: 10.6084/m9.figshare.c.3626282_d2
title: Additional file 2: of The parameter sensitivity of random forests

description: AUC results for low p/n data. Low p/n results for prediction accuracy using AUC as the performance metric for non-cross-validation results, 10-fold cross-validation and stratified 10-fold cross-validation. Ranks indicate the relative performance of different models with lower ranks representing higher performing models i.e., a rank of 1 is the best model. The default settings (n tree  = 500, m try  = 3, sampsize = 720) are found on row 1502 of the table. (CSV 116 kb)
DOI: 10.6084/m9.figshare.c.3626279_d2
title: Additional file 5: Table S3. of Defining the nitrogen regulated transcriptome of Mycobacterium smegmatis using continuous culture

description: A list of genes that are differentially expressed in continuous culture, but not in batch culture. (XLSX 89Â kb)
DOI: 10.6084/m9.figshare.c.3626282_d3
title: Additional file 12: of The parameter sensitivity of random forests

description: Pairwise t-test results for sampsize intra-parameter groups for the combined NSCLC validation data. All p-values were adjusted using a Benjamini-Hochberg procedure. Significant differences were observed between large and small sampsize values, in particular, sampsize 26 from sampsize 102 − 255; sampsize 51 from sampsize 128 − 255; sampsize 77 from sampsize 128 − 255, etc. (TXT 1 kb)
DOI: 10.6084/m9.figshare.c.3626282_d4
title: Additional file 16: of The parameter sensitivity of random forests

description: Random forest usage in papers. A summary table of papers referencing random forest over a seven month period (January 1 to November 4) from BMC Bioinformatics. Information was recorded whether the paper uses a RF algorithm, and if so, whether they parameterized and report the tuned parameters. Eleven of sixteen papers use the RF algorithm and less than half of samples performed model tuning. An even fewer number of papers reported the optimized values [62â  87]. (CSV 434 bytes)
DOI: 10.6084/m9.figshare.c.3626282_d5
title: Additional file 1: of The parameter sensitivity of random forests

description: RF parameter settings. RF parameter settings for low p/n data (SeqControl; p = 15) and high p/n data (NSCLC; p = 12,138). (CSV 515 bytes)
DOI: 10.6084/m9.figshare.c.3626282_d13
title: Additional file 6: of The parameter sensitivity of random forests

description: Pairwise t-test results for m try intra-parameter groups for the low p/n data. All p-values were adjusted using a Benjamini-Hochberg procedure. Each sampsize group was found to differ from at least 12 other groups. (TXT 2 kb)
DOI: 10.6084/m9.figshare.c.3626279_d9
title: Additional file 2: Table S1. of Defining the nitrogen regulated transcriptome of Mycobacterium smegmatis using continuous culture

description: A complete list of genes that are differentially expressed in response to nitrogen limitation in M. smegmatis. (XLSX 2413Â kb)
DOI: 10.15468/dl.vs5ej4
title: Occurrence Download

description: A dataset containing 1948 species occurrences available in GBIF matching the query:
{
 "and" : [
 "HasGeospatialIssue is false",
 "HasCoordinate is true",
 "OccurrenceStatus is Present",
 {
 "not" : {
 "BasisOfRecord" : [
 "is one of (Fossil, Living Specimen)"
 ]
 }
 },
 "TaxonKey is Aedes vigilax (Skuse, 1889)"
 ]
}

 The dataset includes 1948 records from 16 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0033767-241126133413365/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.3626411_d2
title: Additional file 1: Table S1. of Iroquois homeobox 2 suppresses cellular motility and chemokine expression in breast cancer cells

description: Genes in primary breast tumors showing exhibited correlation with IRX2 expression and functional annotation of these genes. SAM-analysis (Significance Analysis of Microarrays) on and functional annotation was used on a large published data set of breast cancer patients (GSE6532). (XLS 79 kb)
DOI: 10.6084/m9.figshare.c.3626429_d1
title: Additional file 1: of The relationship between self-reported habitual exercise and visual field defect progression: a retrospective cohort study

description: Analyzed datasets. (XLSX 36 kb)
DOI: 10.6084/m9.figshare.c.3626498_d3
title: Additional file 1: of Identification of genes for engineering the male germline of Aedes aegypti and Ceratitis capitata

description: Sequencing and alignment statistics. Table of sequencing and alignment statistics. (XLSX 47Â kb)
DOI: 10.6084/m9.figshare.c.3626498_d4
title: Additional file 2: of Identification of genes for engineering the male germline of Aedes aegypti and Ceratitis capitata

description: Candidate genes tested experimentally. Tables of candidate Ae. aegypti and C. capitata testis-specifically expressed and testis-specifically spliced genes tested experimentally. (XLSX 42Â kb)
DOI: 10.6084/m9.figshare.c.3626534_d1
title: Additional file 1: of Comparing research investment to United Kingdom institutions and published outputs for tuberculosis, HIV and malaria: a systematic analysis across 1997â  2013

description: Supplementary information for publication. (XLSX 49 kb)
DOI: 10.6084/m9.figshare.c.3626537_d1
title: Additional file 2: of Fatty acid profiles and desaturase-encoding genes are different in thermo- and psychrotolerant strains of the Bacillus cereus Group

description: Fatty acid (FA) composition of B. cereus sl strains belonging to the 7 phylogenetic groups. This file contains the raw FA composition data of the B. cereus sl strains used to generate Table 1 and Figure 1.