cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.c.3646346_d4.v1
title: Additional file 4: of Frequent mutations in acetylation and ubiquitination sites suggest novel driver mechanisms of cancer

description: Table of genes with significant PTM-specific mutations from ActiveDriver. (CSV 2 kb)
DOI: 10.6084/m9.figshare.c.3646346_d5.v1
title: Additional file 1: of Frequent mutations in acetylation and ubiquitination sites suggest novel driver mechanisms of cancer

description: DISOPRED2 predicted disordered regions in FASTA format (1 = disordered, 0 = ordered). (FASTA 10762 kb)
DOI: 10.6084/m9.figshare.c.3646346_d6.v1
title: Additional file 3: of Frequent mutations in acetylation and ubiquitination sites suggest novel driver mechanisms of cancer

description: Table of cancer mutations in PTM sites. (CSV 1742 kb)
DOI: 10.6084/m9.figshare.c.3646379_d1.v1
title: MOESM1 of Nutrigenomics approach elucidates health-promoting effects of high vegetable intake in lean and obese men

description: Supplementary material 1 (XLSX 13Â kb)
DOI: 10.5517/ccdc.csd.cc2f12m6
title: CCDC 2235367: Experimental Crystal Structure Determination

description: Related Article: Petr Vosáhlo, Petr Štěpnička|2023|New J.Chem.|47|4510|doi:10.1039/D3NJ00201B
description: An entry from the Cambridge Structural Database, the world’s repository for small molecule crystal structures. The entry contains experimental data from a crystal diffraction study. The deposited dataset for this entry is freely available from the CCDC and typically includes 3D coordinates, cell parameters, space group, experimental conditions and quality measures.
DOI: 10.6084/m9.figshare.c.3646445_d3.v1
title: MOESM5 of Multi-breed and multi-trait co-association analysis of meat tenderness and other meat quality traits in three French beef cattle breeds

description: Additional file 5: Table S3. Description of the genes that overlap with the QTL for Warner-bratzler shear force (WBSF) according to the Cattle QTLdb.
DOI: 10.6084/m9.figshare.c.3646445_d2.v1
title: MOESM7 of Multi-breed and multi-trait co-association analysis of meat tenderness and other meat quality traits in three French beef cattle breeds

description: Additional file 7: Table S5. List of 80 common genes that are associated with intramuscular fat deposition in Australian beef cattle.
DOI: 10.6084/m9.figshare.c.3646445_d6.v1
title: MOESM4 of Multi-breed and multi-trait co-association analysis of meat tenderness and other meat quality traits in three French beef cattle breeds

description: Additional file 4: Table S2. Description of the 22 common overrepresented GO biological processes identified across the three breeds.
DOI: 10.6084/m9.figshare.c.3646445_d5.v1
title: MOESM9 of Multi-breed and multi-trait co-association analysis of meat tenderness and other meat quality traits in three French beef cattle breeds

description: Additional file 9: Table S7. Enriched TF binding motifs and candidate TF that can bind these motifs identified by iRegulon (default parameters) for the 206 common genes. The data describe the in silico identified TF binding sites motifs in the cis-regulatory elements of the co-associated genes identified across the three breeds. The TF that present a direct motif similarity and are functionally related with skeletal muscle development are highlighted in black.
DOI: 10.6084/m9.figshare.c.3646445_d7.v1
title: MOESM6 of Multi-breed and multi-trait co-association analysis of meat tenderness and other meat quality traits in three French beef cattle breeds

description: Additional file 6: Table S4. List of 60 common genes that are associated with WBSF in Brazilian Nelore beef cattle. The data describe the 60 common genes that were previously reported to be associated with WBSF in Brazilian Nelore beef cattle.
DOI: 10.6084/m9.figshare.c.3646445_d8.v1
title: MOESM2 of Multi-breed and multi-trait co-association analysis of meat tenderness and other meat quality traits in three French beef cattle breeds

description: Additional file 2: Table S1. Comparison of genetic correlations between traits and SNP-based correlations (777K, AWM and 206 common genes). The data summarize the comparison between genetic correlations and SNP-based correlations across the three beef cattle breeds.
DOI: 10.15468/dl.6vnkzf
title: Occurrence Download

description: A dataset containing 1688 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Baccharis platypoda DC."
 ]
}

 The dataset includes 1688 records from 126 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0038014-241126133413365/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.tkgjz3
title: Occurrence Download

description: A dataset containing 3372 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is one of (Parambassis siamensis (Fowler, 1937), Pristolepis fasciata (Bleeker, 1851), Esomus metallicus Ahl, 1923)",
 "Year is not null",
 {
 "not" : {
 "Issue" : [
 "is one of (Recorded date invalid, Taxon match fuzzy, Taxon match higher rank)"
 ]
 }
 }
 ]
}

 The dataset includes 3372 records from 45 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0038015-241126133413365/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.3646487_d2.v1
title: Additional file 2: of Transcriptomic and metabolomic profiling of ionic liquid stimuli unveils enhanced secondary metabolism in Aspergillus nidulans

description: Microarray raw data and list of differentially expressed genes. (XLSX 3421Â kb)
DOI: 10.6084/m9.figshare.c.3646487_d3.v1
title: Additional file 3: of Transcriptomic and metabolomic profiling of ionic liquid stimuli unveils enhanced secondary metabolism in Aspergillus nidulans

description: List of all the differential compounds identified in the culture extracts. (XLSX 107Â kb)
DOI: 10.6084/m9.figshare.c.3646502_d5.v1
title: Additional file 10: Figure S7. of Sub-clinical detection of gut microbial biomarkers of obesity and type 2 diabetes

description: The genomic contribution of the microbial-to-functional associations. (A) Each entry denotes the fraction of genomic reference sequences of a specific microbe (column) that has genes from a specific functional module (row). This matrix accounts for most of the significant correlations we find on Fig.Â 4. (B) Taxa co-occurrence matrix in our data, using Spearman correlation. (ZIP 6726 kb)
DOI: 10.6084/m9.figshare.c.3646502_d8.v1
title: Additional file 13: Figure S10. of Sub-clinical detection of gut microbial biomarkers of obesity and type 2 diabetes

description: Marker genes abundance profiles of (A) Akkermansia muciniphila; (B) Roseburia intestinalis; (C) Bifidobacterium bifidum; (D) Faecalibacterium prausnitzii, formatted as in Fig.Â 5b and c. (ZIP 6685 kb)
DOI: 10.6084/m9.figshare.c.3646535_d1.v1
title: MOESM3 of Confirmation of a non-synonymous SNP in PNPLA8 as a candidate causal mutation for Weaver syndrome in Brown Swiss cattle

description: Additional file 3: Table S1. Genotype distribution of 41 candidate causal mutations for Weaver syndrome in 1147 animals. The distribution of the genotypes of 41 candidate causal mutations (McClure et al. [23]) for Weaver syndrome in 1147 animals sequenced in the course of the 1000 bull genomes project was analyzed. The sequenced animals were grouped by breed. Numbers represent the within-breed frequency of the alternative allele. The distribution of genotypes for each breed is given in parentheses (homozygous animals for the reference allele | heterozygous animals | homozygous animals for the alternative allele). The grey background indicates candidate causal variations within the 1.72-Mb segment of extended homozygosity. Blue color indicates two variants that were perfectly associated with the Weaver status of 1147 sequenced animals. However, only one compatible variant (rs800397662, Chr4:49,878,773Â bp) is located within the segment of extended homozygosity.
DOI: 10.6084/m9.figshare.c.3646538_d1.v1
title: Additional file 2: of High content screening application for cell-type specific behaviour in heterogeneous primary breast epithelial subpopulations

description: contains Table S2 (differentially expressed genes by group, and genes by sample). (XLSX 156 kb)
DOI: 10.6084/m9.figshare.c.3646592_d2.v1
title: Additional file 1: of Systems-level organization of yeast methylotrophic lifestyle

description: Transcriptomic, proteomic, and metabolomic regulation of P. pastoris during methylotrophic growth. Containing the following eight sheets: Summary Omics Data: number of significantly regulated genes, proteins or metabolites (e.g. “up” refers to up-regulation in methanol/glycerol compared to glucose). Transcriptomics and proteomics: Average fold changes and P values of transcriptomics and proteomics comparing P. pastoris cultivated with methanol/glycerol or glucose as carbon source in chemostat. Average values derive from three biological replicates per condition. Metabolomics: Average fold changes and P values of metabolomics measurements comparing P. pastoris cultivated with methanol/glycerol or glucose as carbon source in chemostat cultivations. Average values derive from three biological replicates per condition. Co-regulation (related to Fig. 1 in the text): Regulation of the 575 gene-protein pairs with transcriptomics and proteomics data available and assignment to regulatory groups. Central carbon metabolism (related to Fig. 4 in the text): Average fold changes and P values of transcriptomics, proteomics, and metabolomics measurement depicted in Fig. 4. Amino acid metabolism (related to Fig. 6 in the text): Average fold changes and P values of transcriptomics, proteomics, and metabolomics measurement depicted in Fig. 6. Vitamin biosynthesis (related to Fig. 7 in the text): Average fold changes and P values of transcriptomics, proteomics, and metabolomics measurement depicted in Fig. 7. Peroxisomal gene regulation: Average fold changes and P values of transcriptomics and proteomics for all mentioned peroxisomal genes. Average values derive from three biological replicates per condition. (XLSX 2348 kb)
DOI: 10.6084/m9.figshare.c.3646592_d4.v1
title: Additional file 2: of Systems-level organization of yeast methylotrophic lifestyle

description: Comparison of gene regulation in P. pastoris cultivated with methanol/glycerol or glucose as carbon source in chemostat to transcriptomics data obtained in fed batch cultivation with methanol glycerol or glucose as carbon source. Average fold changes and P values of regulation patterns for methanol vs glycerol and methanol vs glucose 1 h our after starting the methanol feed are shown. Average values derive from three biological replicates per condition. Containing the following four sheets: Description: Experimental setup of the fed batch cultivations, description, and discussion of observed similarities and differences in gene regulations. Upregulated_methanol: Comparison of all genes upregulated in P. pastoris cultivated with methanol/glycerol or glucose as carbon source in chemostat to transcriptomics data obtained by analyzing methanol vs glycerol and methanol vs glucose fed batches. Downregulated_methanol: Comparison of all genes downregulated in P. pastoris cultivated with methanol/glycerol or glucose as carbon source in chemostat to transcriptomics data obtained by analyzing methanol vs glycerol and methanol vs glucose fed batches. All_data: Transcriptomics data of Additional file 1 (P. pastoris cultivated with methanol/glycerol or glucose as carbon source in chemostat) compared to transcriptomics data obtained by analyzing methanol vs glycerol and methanol vs glucose fed batches. (XLSX 1178 kb)
DOI: 10.6084/m9.figshare.c.3646598_d2.v1
title: Additional file 1: Table S1. of Variation of global DNA methylation levels with age and in autistic children

description: Sample information and methylation data. (XLSX 118Â kb)
DOI: 10.6084/m9.figshare.c.3646655_d3.v1
title: Additional file 8: Table S5. of A unified analytic framework for prioritization of non-coding variants of uncertain significance in heritable breast and ovarian cancer

description: Variants Predicted by IT to Affect SRFBSs (XLSX 30Â kb)
DOI: 10.6084/m9.figshare.c.3646655_d8.v1
title: Additional file 10: Table S7. of A unified analytic framework for prioritization of non-coding variants of uncertain significance in heritable breast and ovarian cancer

description: Top Changes in RBBSs Predicted by IT for Variants Predicted to Significantly Alter RNA Structure (XLSX 10Â kb)
DOI: 10.6084/m9.figshare.c.3646655_d5.v1
title: Additional file 3: Table S1. of A unified analytic framework for prioritization of non-coding variants of uncertain significance in heritable breast and ovarian cancer

description: TFs For Which Information Weight Matrices Were Built And Factorâ  s Role in Transcription (XLSX 17Â kb)
DOI: 10.6084/m9.figshare.c.3646655_d6.v1
title: Additional file 14: Table S11. of A unified analytic framework for prioritization of non-coding variants of uncertain significance in heritable breast and ovarian cancer

description: All Flagged and Prioritized Variants by Patient (XLSX 26Â kb)
DOI: 10.6084/m9.figshare.c.3646655_d9.v1
title: Additional file 12: Table S9. of A unified analytic framework for prioritization of non-coding variants of uncertain significance in heritable breast and ovarian cancer

description: Missense Variants and Their Classification (XLSX 27Â kb)
DOI: 10.6084/m9.figshare.c.3646655_d10.v1
title: Additional file 5: Table S3. of A unified analytic framework for prioritization of non-coding variants of uncertain significance in heritable breast and ovarian cancer

description: Primer Sequences for Sanger Sequencing of Likely Pathogenic Variants (XLSX 10Â kb)
DOI: 10.6084/m9.figshare.c.3646655_d12.v1
title: Additional file 4: Table S2. of A unified analytic framework for prioritization of non-coding variants of uncertain significance in heritable breast and ovarian cancer

description: UTR Sequences Used for SHAPE Analysis on SNPfold-flagged Variants (XLSX 9Â kb)
DOI: 10.6084/m9.figshare.c.3646655_d13.v1
title: Additional file 9: Table S6. of A unified analytic framework for prioritization of non-coding variants of uncertain significance in heritable breast and ovarian cancer

description: Variants Predicted by IT to Affect TFBSs (XLSX 14Â kb)
DOI: 10.6084/m9.figshare.c.3646655_d14.v1
title: Additional file 13: Table S10. of A unified analytic framework for prioritization of non-coding variants of uncertain significance in heritable breast and ovarian cancer

description: Prioritized Variants by Gene (XLSX 16Â kb)
DOI: 10.6084/m9.figshare.c.3646658_d1.v1
title: Additional file 1: Table S1. of ENVE: a novel computational framework characterizes copy-number mutational landscapes in colorectal cancers from African American patients

description: Cohorts, ethnicity, and tumor stage of samples used for WES, SNP array, and qPCR. Table S2. Regions with significant copy-number alterations, as detected by ENVE, in the 30 AA CRC WES cases. Table S3. Regions with significant copy-number alterations, as detected by ENVE, in the 30 predominantly late-stage Caucasian TCGA CRC WES cases. Table S4. Recurrent somatic copy-number altered regions in the 30 AA CRC WES cases estimated by GISTIC. Table S5. Recurrent focal copy-number amplifications and deletions in the 30 AA CRC WES cases estimated by GISTIC. Table S6. Chromosomal arm-level sCNA frequencies in AA and TCGA CRCs estimated by GISTIC. (XLSX 535 kb)
DOI: 10.6084/m9.figshare.c.3646670_d1.v1
title: Additional file 8: Table S3. of Analysis of three genomes within the thermophilic bacterial species Caldanaerobacter subterraneus with a focus on carbon monoxide dehydrogenase evolution and hydrolase diversity

description: Esterases found in C. subterraneus genomes. (XLSX 7Â kb)
DOI: 10.6084/m9.figshare.c.3646670_d3.v1
title: Additional file 12: Table S5. of Analysis of three genomes within the thermophilic bacterial species Caldanaerobacter subterraneus with a focus on carbon monoxide dehydrogenase evolution and hydrolase diversity

description: 16S rRNA sequences utilized in this study. (XLSX 11Â kb)
DOI: 10.6084/m9.figshare.c.3646670_d4.v1
title: Additional file 11: Table S4. of Analysis of three genomes within the thermophilic bacterial species Caldanaerobacter subterraneus with a focus on carbon monoxide dehydrogenase evolution and hydrolase diversity

description: Proteases found in C. subterraneus genomes. (XLSX 11Â kb)
DOI: 10.6084/m9.figshare.c.3647507_d1.v1
title: Additional file 4: Table S3. of Transcriptome analysis in switchgrass discloses ecotype difference in photosynthetic efficiency

description: SNPs in or near genes detected for K5 and VS16 against AP13 at â Ľ100x coverage and 5% minor allele frequency. (XLSX 91Â kb)
DOI: 10.6084/m9.figshare.c.3647519_d1.v1
title: Additional file 1: of Comparison of the lifetime host-to-tick transmission between two strains of the Lyme disease pathogen Borrelia afzelii

description: Data analysed in the present study. (XLSX 154Â kb)
DOI: 10.6084/m9.figshare.c.3647528_d1.v1
title: Additional file 1: of Urogenital schistosomiasis transmission on Unguja Island, Zanzibar: characterisation of persistent hot-spots

description: Results of univariable and multivariable analyses. (XLS 49 kb)
DOI: 10.6084/m9.figshare.c.3647510_d2.v1
title: Additional file 2 of A novel independence test for somatic alterations in cancer shows that biology drives mutual exclusivity but chance explains most co-occurrence

description: Table S1. Significantly mutually exclusive alterations found in the pan-cancer data at a maximum FDR of 1%. (XLSX 16 kb)
DOI: 10.6084/m9.figshare.c.3647516_d2.v1
title: Additional file 2: of IMP: a pipeline forÂ reproducible reference-independent integrated metagenomic and metatranscriptomic analyses

description: Supplementary tables. Tables S1â  S12. Detailed table legends available within file. (XLSX 4350 kb)
DOI: 10.6084/m9.figshare.c.3647507_d3.v1
title: Additional file 2: Table S2. of Transcriptome analysis in switchgrass discloses ecotype difference in photosynthetic efficiency

description: Gene expression (upregulation) among AP13 (LL), K5 (LL), and VS16 (UL) switchgrass genotypes (LL = lowland ecotype, UP = upland ecotype, 4X = tetraploid). (XLSX 2247 kb)
DOI: 10.6084/m9.figshare.c.3648626_d1.v1
title: Additional file 3 of Concordant morphological and molecular clines in a contact zone of the Common and Spined toad (Bufo bufo and B. spinosus) in the northwest of France

description: Appendix III. Microsatellite data in GenePop format [20]. Populations are in the order 1–17, as in Table 1. (TXT 27 kb)
DOI: 10.15468/dl.sktx9p
title: Occurrence Download

description: A dataset containing 3372 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is one of (Parambassis siamensis (Fowler, 1937), Pristolepis fasciata (Bleeker, 1851), Esomus metallicus Ahl, 1923)",
 "Year is not null",
 {
 "not" : {
 "Issue" : [
 "is one of (Recorded date invalid, Taxon match fuzzy, Taxon match higher rank)"
 ]
 }
 }
 ]
}

 The dataset includes 3372 records from 45 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0038017-241126133413365/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.3648929_d4.v1
title: MOESM1 of Copy number variability of expression plasmids determined by cell sorting and Droplet Digital PCR

description: Additional file 1. This spreadsheet file contains statistical information on the flow cytometry data presented in this study.
DOI: 10.6084/m9.figshare.c.3649817_d1.v1
title: MOESM8 of Mapping the membrane proteome of anaerobic gut fungi identifies a wealth of carbohydrate binding proteins and transporters

description: Additional file 8: Table S2. The G-protein coupled sequences (GPCRs) identified in this study.
DOI: 10.6084/m9.figshare.c.3649814_d1.v1
title: Additional file 7: Table S6. of Resilient microorganisms in dust samples of the International Space Station—survival of the adaptation specialists

description: Comparison of the ISS microbial community of archived dust samples (this study; “Dust filter and “Dust collector” samples) and freshly retrieved samples (Checinska et al. 2015; “HEPA-debris” and “vacuum-cleaner-bag-debris” samples). (XLSX 60 kb)
DOI: 10.6084/m9.figshare.c.3649829_d1.v1
title: Additional file 1 of Skeleton-based cerebrovascular quantitative analysis

description: Normal047-MRA.mha. This file is the original file of NO.47 data stored by.mha format which is compressed by DICOM series data. It is the initial data and the foundation of the follow-up data (e.g. the segmentation data, the skeleton data). (MHA 24064 kb)
DOI: 10.6084/m9.figshare.c.3649817_d2.v1
title: MOESM3 of Mapping the membrane proteome of anaerobic gut fungi identifies a wealth of carbohydrate binding proteins and transporters

description: Additional file 3: Database 1. The assembled transcriptome for Neocallimastix californiae.
DOI: 10.6084/m9.figshare.c.3649829_d5.v1
title: Additional file 4 of Skeleton-based cerebrovascular quantitative analysis

description: Normal047-skeleton.obj. This file is the skeleton data of the NO.47 data based on the Additional file 2: Normal047-segmentation.obj and cleansed of noise points except the CoW. (OBJ 13.4 kb)
DOI: 10.6084/m9.figshare.c.3649817_d6.v1
title: MOESM4 of Mapping the membrane proteome of anaerobic gut fungi identifies a wealth of carbohydrate binding proteins and transporters

description: Additional file 4: Database 2. The assembled transcriptome for Anaeromyces robustus.
DOI: 10.15468/dl.zktav4
title: Occurrence Download

description: A dataset containing 13332 species occurrences available in GBIF matching the query:
{
 "and" : [
 "BasisOfRecord is one of (Machine Observation, Human Observation, Specimen, Occurrence evidence)",
 "StateProvince is one of (Utah, Utah (State), UTAH (ALT: 2000 FT))",
 "TaxonKey is Amphibia"
 ]
}

 The dataset includes 13332 records from 47 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0038018-241126133413365/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.3649817_d7.v1
title: MOESM6 of Mapping the membrane proteome of anaerobic gut fungi identifies a wealth of carbohydrate binding proteins and transporters

description: Additional file 6: Table S3. Annotation of the Piromyces finnis transcriptome.
DOI: 10.6084/m9.figshare.c.3650735_d2.v1
title: Additional file 9: of Smoking influences the need for surgery in patients with the inflammatory bowel diseases: a systematic review and meta-analysis incorporating disease duration

description: Raw study Data. Excel file containing hazard ratios from individual studies included in the meta-analysis. (XLSX 45 kb)
DOI: 10.15468/dl.8cmq2x
title: Occurrence Download

description: A dataset containing 3372 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is one of (Parambassis siamensis (Fowler, 1937), Pristolepis fasciata (Bleeker, 1851), Esomus metallicus Ahl, 1923)",
 "Year is not null",
 {
 "not" : {
 "Issue" : [
 "is one of (Recorded date invalid, Taxon match fuzzy, Taxon match higher rank)"
 ]
 }
 }
 ]
}

 The dataset includes 3372 records from 45 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0038019-241126133413365/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.3651728_d3.v1
title: Additional file 3: of Genes of susceptibility to early neurodegenerative changes in the rat retina and brain: analysis by means of congenic strains

description: Contains DAVID results for the set of separately analyzed 1498 genes (XLSX 156Â kb)