cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.c.3606836_d6.v1
title: Additional file 18: Text S1. of A genome-wide BAC-end sequence survey provides first insights into sweetpotato (Ipomoea batatas (L.) Lam.) genome composition

description: The list of NCBI Genbank accession numbers for sweetpotato BESs. (TXT 298 kb)
DOI: 10.6084/m9.figshare.c.3606857_d3.v1
title: Additional file 2: Table S2. of Abnormal serum microRNA profiles in tuberous sclerosis are normalized during treatment with everolimus: possible clinical implications

description: Univariate comparison results of miRNA expression in patients with tuberous sclerosis (TSC) before treatment and the control group. (XLSX 25 kb)
DOI: 10.6084/m9.figshare.c.3608711_d8.v1
title: Additional file 6: of Heritable gene expression differences between apomictic clone members in Taraxacum officinale: Insights into early stages of evolutionary divergence in asexual plants

description: Assembled transcripts annotated with transposable element or repeat description from the SwissProt database. (XLSX 12Â kb)
DOI: 10.6084/m9.figshare.c.3608747_d3.v1
title: Additional file 2: Table S2. of A method for automated pathogenic content estimation with application to rheumatoid arthritis

description: a. Running platform and b. elapsed time of species classification by applying eudysbiome package on RA data. (XLSX 35 kb)
DOI: 10.6084/m9.figshare.c.3608711_d11.v1
title: Additional file 8: of Heritable gene expression differences between apomictic clone members in Taraxacum officinale: Insights into early stages of evolutionary divergence in asexual plants

description: Genes highly connected from overall differentially expressed semi-natural field genes (67 genes); in grey, DEGs unique to field conditions (in white common in both experiments). Annotations and functions were retrieved from the TAIR website ( www.arabidopsis.org ). (XLSX 11Â kb)
DOI: 10.6084/m9.figshare.c.3608768_d2.v1
title: Additional file 2: of Cynicism and other attitudes towards patients in an emergency department in a middle eastern tertiary care center

description: COREQ questionnaire guidelines. (XLSX 11Â kb)
DOI: 10.6084/m9.figshare.c.3610877_d6.v1
title: Additional file 2: of RNA-Sequencing for profiling goat milk transcriptome in colostrum and mature milk

description: Enriched Gene Ontology term analysis in D1 and D2 lactation samples. (XLSX 68 kb)
DOI: 10.6084/m9.figshare.c.3610889_d3.v1
title: MOESM4 of Chemical disguise of myrmecophilous cockroaches and its implications for understanding nestmate recognition mechanisms in leaf-cutting ants

description: Additional file 4. The data collected in the behavioural experiment. Included are raw numbers of the occurrences of different behaviours (ignorance, investigation, grooming, threat, biting) per replicate and information on whether (1) or not (0) a cockroach died within 48Â h in the aggression arena.
DOI: 10.6084/m9.figshare.c.3610889_d4.v1
title: MOESM2 of Chemical disguise of myrmecophilous cockroaches and its implications for understanding nestmate recognition mechanisms in leaf-cutting ants

description: Additional file 2. The raw chemical data (total ion count) per sample for Acromyrmex colonies. Peaks are numbered according to Table 1 and additional file 1; sample names include information about colony number and whether the sample is a cockroach (“roach”) or a worker (“mw”).
DOI: 10.6084/m9.figshare.c.3610877_d8.v1
title: Additional file 5: of RNA-Sequencing for profiling goat milk transcriptome in colostrum and mature milk

description: Differentially Expressed Genes (DEGs) between D1 and D2 lactation samples. (XLS 89 kb)
DOI: 10.6084/m9.figshare.c.3612875_d2.v1
title: Additional file 5: of Composition and dynamics of the respiratory tract microbiome in intubated patients

description: R markdown analysis outline. The code used to read study data, aggregate OTUs for heatmap analysis, determine OTU proportional abundance, evaluate alpha and beta diversity, and perform generalized estimating equations (GEE) modeling of longitudinal data is demonstrated. (RMD 8.30 KB)
DOI: 10.6084/m9.figshare.c.3612875_d3.v1
title: Additional file 4: of Composition and dynamics of the respiratory tract microbiome in intubated patients

description: De novo OTU table. Taxonomic assignments of de novo OTUs. Sequence data was analyzed using the Quantitative Insights Into Microbial Ecology (QIIME) bioinformatics pipeline, version 1.8.0. Sequence alignment was performed via PyNAST, with de novo operational taxonomic unit (OTU) formation via uclust as per QIIME default settings. Taxonomic assignment of de novo OTUs was based on BLAST of representative sequences against the Living Tree Project database (SSU release 119), with the highest bit-score chosen. De novo OTUs were used in comparison to clinical culture data. (ZIP 404 KB)
DOI: 10.6084/m9.figshare.c.3612890_d1.v1
title: Additional file 1: Table S1. of Molecular epidemiology of carbapenem resistant Enterobacteriaceae in Valle dâ  Aosta region, Italy, shows the emergence of KPC-2 producing Klebsiella pneumoniae clonal complex 101 (ST101 and ST1789)

description: Phenotypic and genotypic features of Enterobacteriaceae included in the study. (XLSX 19Â kb)
DOI: 10.6084/m9.figshare.c.3612875_d4.v1
title: Additional file 2: Figure S2. of Composition and dynamics of the respiratory tract microbiome in intubated patients

description: Comparison of Illumina MiSeq and Roche/454 sequencing applied to identical samples. (A) Subjects 1–5 had upper and lower respiratory tract samples 16S rRNA gene sequencing performed on both the Illumina MiSeq and Roche/454 platforms. A heatmap displays family-level taxonomic assignment (as in Fig. 2). Vertical black lines separate each sample pair, allowing direct comparison of results obtained across the two sequencing platforms. (B) Procrustes analysis comparing weighted, normalized UniFrac distances calculated from the closed-reference OTUs formed from each sequencing platform. Balls indicate samples, colored by subject (red—subject 001, blue—subject 002, orange—subject 003, green—subject 004, purple—subject 005); edges connect the results of sequencing on Roche/454 and Illumina MiSeq platforms. Procrustes m2 was 0.13 (p
DOI: 10.6084/m9.figshare.c.3612875_d5.v1
title: Additional file 3: of Composition and dynamics of the respiratory tract microbiome in intubated patients

description: Closed-reference OTU table. Closed-reference OTU taxonomic assignments. Sequence data was analyzed using the Quantitative Insights Into Microbial Ecology (QIIME) bioinformatics pipeline, version 1.8.0. Sequence alignment was performed via PyNAST, closed-reference operational taxonomic unit (OTU) formation, and taxonomic assignment was based on the Greengenes (13.8) taxonomy. Closed-reference OTUs were used in all comparisons between intubated subjects and healthy controls. (ZIP 90.8 KB)
DOI: 10.6084/m9.figshare.c.3612893_d1.v1
title: Additional file 1: Table S1. of 
                     Panx3 links body mass index and tumorigenesis in a genetically heterogeneous mouse model of carcinogen-induced cancer

description: Genotype marker locations and associated rsIDs. An Excel file (.xlsx) containing information about the genotyping markers used in this analysis. (XLSX 66 kb)
DOI: 10.6084/m9.figshare.c.3612905_d1.v1
title: MOESM1 of Inherent bacterial DNA contamination of extraction and sequencing reagents may affect interpretation of microbiota in low bacterial biomass samples

description: Additional file 1: Table S1. Taxonomic listing of all bacterial genera and species detected as contaminants of DNA extraction and processing kits in the present study and previously reported.
DOI: 10.6084/m9.figshare.c.3612893_d3.v1
title: Additional file 3: Table S7. of 
                     Panx3 links body mass index and tumorigenesis in a genetically heterogeneous mouse model of carcinogen-induced cancer

description: Gene expression phenotypes and sample IDs. This Excel file (.xlsx) contains phenotype information for the cohort of mice used for expression analysis. The samples are labeled both by mouse ID as well as by.CEL name, corresponding to the.CEL files available from the GEO site under access number GSE52650. (XLSX 90 kb)
DOI: 10.15468/dl.yfnsd7
title: Occurrence Download

description: A dataset containing 51970 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Ariopsis felis (Linnaeus, 1766)",
 "HasGeospatialIssue is false",
 "HasCoordinate is true",
 "OccurrenceStatus is Present",
 "Year is greater than or equal to 1900",
 "CoordinateUncertaintyInMeters is less than or equal to 10000"
 ]
}

 The dataset includes 51970 records from 48 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0038229-241126133413365/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.3613745_d13.v1
title: Additional file 1: of Comprehensive analysis of the endoplasmic reticulum stress response in the soybean genome: conserved and plant-specific features

description: A list of known/predicted orthologous genes involved in the Glycine max and Arabidopsis thaliana UPR pathways. (XLS 152Â kb)
DOI: 10.6084/m9.figshare.c.3613775_d2.v1
title: Additional file 2: of A comprehensive method for amplicon-based and metagenomic characterization of viruses, bacteria, and eukaryotes in freshwater samples

description: Excel file contains output data from MG-RAST, mPUMA, and MetaVir reported in this study. Singletons have been removed from the analysis. (XLSX 1941Â kb)
DOI: 10.6084/m9.figshare.c.3613790_d1.v1
title: Additional file 4: of High-throughput discovery of post-transcriptional cis-regulatory elements

description: 8mer categories tested in the screen. (XLS 28Â kb)
DOI: 10.6084/m9.figshare.c.3614804_d2.v1
title: Additional file 7: Table S5. of High-density P300 enhancers control cell state transitions

description: Table S5: Cell-specific SE-associated miRNAs in T helper cells.(XLSX 35Â kb)
DOI: 10.6084/m9.figshare.c.3614804_d5.v1
title: Additional file 2: Table S1. of High-density P300 enhancers control cell state transitions

description: Publicly available datasets used to curate SE catalogs.(XLSX 51Â kb)
DOI: 10.6084/m9.figshare.c.3615767_d5.v1
title: Additional file 6: Table S3. of Axitinib and sorafenib are potent in tyrosine kinase inhibitor resistant chronic myeloid leukemia cells

description: Anti-GAB2 IP of Axitinib vs DMSO treated cells. SILAC ratios are normalized to GAB2 and log2 transformed. Significant affected proteins are determined using Significance A (MaxQuant, p
DOI: 10.6084/m9.figshare.c.3615797_d1.v1
title: Additional file 2: of Comprehensive identification of sexually dimorphic genes in diverse cattle tissues using RNA-seq

description: Results of the Statistical tests. (XLSX 2242Â kb)
DOI: 10.6084/m9.figshare.c.3615767_d6.v1
title: Additional file 7: Table S4. of Axitinib and sorafenib are potent in tyrosine kinase inhibitor resistant chronic myeloid leukemia cells

description: Anti-GAB2 IP of Imatinib, Axitinib and Sorafenib vs DMSO treated cells. SILAC ratios are normalized to GAB2. Only sites with localization probabilities greater 0.75 and Andromeda scores greater 40 are shown. PEP: posterior error probability. (XLSX 12 kb)
DOI: 10.6084/m9.figshare.c.3615767_d7.v1
title: Additional file 4: Table S1. of Axitinib and sorafenib are potent in tyrosine kinase inhibitor resistant chronic myeloid leukemia cells

description: Anti-GAB2 IP of Imatinib vs DMSO treated cells. Experiment 1 and 2 are averages of two replicates each. SILAC ratios are normalized to GAB2 and log2 transformed. Significant affected proteins are determined using Significance A (MaxQuant, p
DOI: 10.15468/dl.r97ma5
title: Occurrence Download

description: A dataset containing 472 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Ariosoma balearicum (Delaroche, 1809)",
 "HasGeospatialIssue is false",
 "HasCoordinate is true",
 "OccurrenceStatus is Present",
 "Year is greater than or equal to 1900",
 "CoordinateUncertaintyInMeters is less than or equal to 10000"
 ]
}

 The dataset includes 472 records from 18 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0038230-241126133413365/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.3615827_d2.v1
title: MOESM2 of RNA:DNA hybrids in the human genome have distinctive nucleotide characteristics, chromatin composition, and transcriptional relationships

description: Additional file 2. Supplemental Tables.
DOI: 10.6084/m9.figshare.c.3615842_d2.v1
title: Additional file 2: of Circulating miRNA signatures of early pregnancy in cattle

description: Small-RNA sequencing data. Normalised expression data (reads per million mapped) and differential expression analysis results for bovine plasma miRNAs, generated using small-RNA sequencing. (XLSX 102Â kb)
DOI: 10.6084/m9.figshare.c.3616820_d7.v1
title: Additional file 6: Table S2. of Determining the origin of synchronous multifocal bladder cancer by exome sequencing

description: Potential driver mutations in samples identified from COSMIC or ATLAS databases and literature. (XLS 33 kb)
DOI: 10.5281/zenodo.11187813
title: Intermittent, Heterogeneous, and Transient River-Groundwater Transitions from Disconnection to Connection

description: This repository includes the data for model setup and HYDRUS-2D input/output files.
DOI: 10.5281/zenodo.11187812
title: Intermittent, Heterogeneous, and Transient River-Groundwater Transitions from Disconnection to Connection

description: This repository includes the data for model setup and HYDRUS-2D input/output files.

The first version was released on 05/24/2024. The second version was released on 12/17/2024.
DOI: 10.5281/zenodo.14511055
title: Intermittent, Heterogeneous, and Transient River-Groundwater Transitions from Disconnection to Connection

description: This repository includes the data for model setup and HYDRUS-2D input/output files.

The first version was released on 05/24/2024. The second version was released on 12/17/2024.
DOI: 10.6084/m9.figshare.c.3616868_d1.v1
title: Additional file 3 of Aligning the unalignable: bacteriophage whole genome alignments

description: Detailed comparison of Alpha and Mauve alignments for the four S. aureus phages phiETA3, phiNM2, phiNM1 and B236. (XLSX 83 kb)
DOI: 10.6084/m9.figshare.c.3617825_d2.v1
title: Additional file 3: of Differences in genome-wide gene expression response in peripheral blood mononuclear cells between young and old men upon caloric restriction

description: Gene expression file with expression analysis (A) baseline, (B) response to intervention in old men compared to response to intervention in young men, and (C) genes in old towards a young expression profile. (ZIP 4761 kb)
DOI: 10.6084/m9.figshare.c.3617825_d3.v1
title: Additional file 4: of Differences in genome-wide gene expression response in peripheral blood mononuclear cells between young and old men upon caloric restriction

description: Gene Set Enrichment Analysis outputs for (A) old men compared to young men before intervention, (B) response to intervention in young men, (C) response to intervention in old men, and (D) response to intervention in old men compared to response to intervention in young men. (ZIP 75 kb)
DOI: 10.6084/m9.figshare.c.3617777_d13.v1
title: Additional file 9: of Contact diaries versus wearable proximity sensors in measuring contact patterns at a conference: method comparison and participantsâ   attitudes

description: Contact data â   survey. (CSV 5 kb)
DOI: 10.6084/m9.figshare.c.3617822_d3.v1
title: Additional file 6: Table S5. of Characterizing the morbid genome of ciliopathies

description: Ciliopathy disease burden in the population for each pathogenic variant identified in known ciliopathy genes. (XLSX 19 kb)
DOI: 10.6084/m9.figshare.c.3617840_d1.v1
title: Additional file 1: Table-S1. of Effect of root-extracts of Ficus benghalensis (Banyan) in memory, anxiety, muscle co-ordination and seizure in animal models

description: Step down latency (s). Table S2. Mean Step-down latency (s). Table S3. One-Way ANOVA Test- mean Step-down latency (s). Table S4. Tukey HSD post hoc tests-comparing mean Step-down latency (s). Table S5. Step down error. Table S6. Comparison of mean Step-down error. Table S7. One-Way ANOVA Test- mean Step down error. Table S8. Tukey HSD post hoc test comparing mean Step down error. Table S9. Time spent in shock zone in s. Table S10. Comparison of mean Time spent in shock-zone. Table S11. Mann–Whitney U test comparing mean time spent in shock-zone (s). Table S12. No. of squares crossed. Table S13. Comparison of mean Number of squares crossed. Table S14. One-Way ANOVA Test- Number of squares crossed. Table S15. Tukey HSD post hoc tests-comparing mean Number of squares. Table S16. Time spent in Central Square(s). Table S17. Comparison of mean Time spent in central-square(s). Table S18. Mann–Whitney U test comparing mean Time (s) spent in Central Square. Table S19. Number of rearing. Table S20. Comparison of mean Number of Rearing. Table S21. Mann-Whitney U test comparing mean number of rearing. Table S22. Total sleep time (s). Table S24. One-Way ANOVA Test- mean total sleep time in Pentobarbital-induced sleep potentiation test. Table S25. Tukey HSD post hoc tests-comparing mean total sleep time. Table S26. Fall-off time (s). Table S27. Comparison of mean Fall-off time. Table S28. Mann–Whitney U test comparing mean fall-off time. Table 29. Animals not showing seizure. Table S30. Latency of seizure onset (s). Table S31. Comparison of mean Latency of seizure-onset (s). Table S32. Mann–Whitney U test comparing mean latency (s) in PTZ-seizure model. Table S33. Animals not showing seizure. Table S34. Duration of tonic hind limb extension (s). Table S35. Comparison of mean duration of tonic hind-limb extension. Table S36. Mann–Whitney U test comparing mean duration of tonic hind limb extension. (XLSX 11 kb)
DOI: 10.6084/m9.figshare.c.3617822_d4.v1
title: Additional file 5: Table S4. of Characterizing the morbid genome of ciliopathies

description: Identification of TXNDC15 interacting proteins using tandem affinity purification (TAP). The list of 224 unique proteins is significantly enriched in known or predicted ciliary proteins. (XLSX 30 kb)
DOI: 10.6084/m9.figshare.c.3617843_d1.v1
title: Additional file 1: of Tobacco use and associated factors among Adults in Uganda: Findings from a nationwide survey

description: Tobacco survey data. (XLS 5053 kb)
DOI: 10.6084/m9.figshare.c.3617825_d5.v1
title: Additional file 5: of Differences in genome-wide gene expression response in peripheral blood mononuclear cells between young and old men upon caloric restriction

description: Ingenuity Pathway Analysis Upstream regulators output used for Additional file 1: Table S1 (A) baseline, (B) response to intervention in young men, and (C) response to intervention in old men. (ZIP 27 kb)
DOI: 10.6084/m9.figshare.c.3617822_d5.v1
title: Additional file 2: Table S3. of Characterizing the morbid genome of ciliopathies

description: Clinical and genomic data for all cases in the study. (XLSX 83 kb)
DOI: 10.6084/m9.figshare.c.3617837_d3.v1
title: Additional file 6: of Inequalities in the coverage of place of delivery and skilled birth attendance: analyses of cross-sectional surveys in 80 low and middle-income countries

description: (XLSX 47 kb)
DOI: 10.6084/m9.figshare.c.3617858_d1.v1
title: Additional file 1: of Establishment of reference intervals of thyroid function tests from cord blood of neonates in two selected hospitals, Addis Ababa, Ethiopia

description: TSH, fT4 and fT3 results of Study participants. (XLSX 15 kb)
DOI: 10.15468/dl.xrkfx6
title: Occurrence Download

description: A dataset containing 4 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Ariosoma selenops Reid, 1934",
 "HasGeospatialIssue is false",
 "HasCoordinate is true",
 "OccurrenceStatus is Present",
 "Year is greater than or equal to 1900",
 "CoordinateUncertaintyInMeters is less than or equal to 10000"
 ]
}

 The dataset includes 4 records from 2 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0038231-241126133413365/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.3618755_d8.v1
title: Additional file 8 of Identification of nuclear genes controlling chlorophyll synthesis inÂ barley by RNA-seq

description: Sequences generated by Trinity from Bowman libraries that did not align to H. vulgare reference genome. (FASTA 337Â kb)
DOI: 10.6084/m9.figshare.c.3618773_d2.v1
title: Additional file 8: of Comparative genomics provides new insights into the diversity, physiology, and sexuality of the only industrially exploited tremellomycete: Phaffia rhodozyma

description: FASTA alignments of catalase proteins (related to Fig. 4). (FASTA 157 kb)
DOI: 10.6084/m9.figshare.c.3618773_d3.v1
title: Additional file 3: Table S3. of Comparative genomics provides new insights into the diversity, physiology, and sexuality of the only industrially exploited tremellomycete: Phaffia rhodozyma

description: List of photoprotective and antioxidant genes of P. rhodozyma. (XLS 1304 kb)
DOI: 10.6084/m9.figshare.c.3618773_d4.v1
title: Additional file 1: Table S1. of Comparative genomics provides new insights into the diversity, physiology, and sexuality of the only industrially exploited tremellomycete: Phaffia rhodozyma

description: List of P. rhodozyma putative orphan genes. (XLS 44 kb)
DOI: 10.6084/m9.figshare.c.3618773_d5.v1
title: Additional file 7: of Comparative genomics provides new insights into the diversity, physiology, and sexuality of the only industrially exploited tremellomycete: Phaffia rhodozyma

description: Protein multiple sequence alignment used for cladogram construction (related to Fig. 3). (NEX 1505 kb)
DOI: 10.6084/m9.figshare.c.3618788_d1.v1
title: Additional file 1: of A transgenic male-only strain of the New World screwworm for an improved control program using the sterile insect technique

description: Female lethality data for C. hominivorax FL11 and FL12 homozygous lines. (XLSX 38 kb)
DOI: 10.6084/m9.figshare.c.3618773_d6.v1
title: Additional file 4: Table S4. of Comparative genomics provides new insights into the diversity, physiology, and sexuality of the only industrially exploited tremellomycete: Phaffia rhodozyma

description: List of mating genes of P. rhodozyma. (XLSX 192 kb)
DOI: 10.6084/m9.figshare.c.3618785_d3.v1
title: Additional file 2: Table S2. of Comparative genomics of Clostridium bolteae and Clostridium clostridioforme reveals species-specific genomic properties and numerous putative antibiotic resistance determinants

description: Overview of the three flagellar loci found in C. bolteae. (XLSX 14 kb)
DOI: 10.6084/m9.figshare.c.3618773_d7.v1
title: Additional file 2: Table S2. of Comparative genomics provides new insights into the diversity, physiology, and sexuality of the only industrially exploited tremellomycete: Phaffia rhodozyma

description: NCBI public sequences found in P. rhodozyma CBS 7918T. (XLS 1327 kb)
DOI: 10.6084/m9.figshare.c.3618788_d4.v1
title: Additional file 2: of A transgenic male-only strain of the New World screwworm for an improved control program using the sterile insect technique

description: Female lethality data for C. hominivorax FL11 and FL12 heterozygous lines. (XLSX 36 kb)
DOI: 10.6084/m9.figshare.c.3618773_d8.v1
title: Additional file 6: of Comparative genomics provides new insights into the diversity, physiology, and sexuality of the only industrially exploited tremellomycete: Phaffia rhodozyma

description: List of orphan genes with links to PFAM (related to Additional file 1: Table S1). (ZIP 1428 kb)
DOI: 10.6084/m9.figshare.c.3618785_d5.v1
title: Additional file 1: Table S1. of Comparative genomics of Clostridium bolteae and Clostridium clostridioforme reveals species-specific genomic properties and numerous putative antibiotic resistance determinants

description: Lactose operons of C.bolteae and C. clostridioforme. (XLSX 10 kb)