cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.c.3635846_d2.v1
title: Additional file 2: Table S1. of Carriers of human mitochondrial DNA macrohaplogroup M colonized India from southeastern Asia

description: Haplogroup M in Saudi Arabia. In bold haplotypes from this study. Table S2. Super-haplogroup Ages and Geographic links. Table S3. Haplogroup M geographic ranges and ages in kiloyears (kya). Table S4. Populations used in the AMOVA and k-means clustering analyses. Table S5. Mitochondrial DNA M haplogroup ages and coordinates for their respective geographic centers used in the correlation analysis. Table S6. Modern human oldest fossil dating in different regions of Asia and oldest archaeological dating at the eastern side of the Wallace Line. (XLSX 91 kb)
DOI: 10.6084/m9.figshare.c.3635972_d1.v1
title: MOESM1 of MYC copy gain, chromosomal instability and PI3K activation as potential markers of unfavourable outcome in trastuzumab-treated patients with metastatic breast cancer

description: Additional file 1. Supplemental tables S1 to S10.
DOI: 10.6084/m9.figshare.c.3636005_d2.v1
title: Additional file 11: Table S7. of Genome-wide DNA methylation profiling in the superior temporal gyrus reveals epigenetic signatures associated with Alzheimerâ  s disease

description: SNPs within DMRs exhibiting strong LD with AD GWAS hits and brain eQTLs. (XLSX 9 kb)
DOI: 10.6084/m9.figshare.c.3636005_d1.v1
title: Additional file 1: Table S1. of Genome-wide DNA methylation profiling in the superior temporal gyrus reveals epigenetic signatures associated with Alzheimerâ  s disease

description: Clinical features of AD and control samples. (XLSX 41 kb)
DOI: 10.6084/m9.figshare.c.3636080_d2.v1
title: Additional file 4: of Nilotinib (Tasignaâ ˘) in the treatment of early diffuse systemic sclerosis: an open-label, pilot clinical trial

description: Spearman correlation statistics (correlation coefficients and p values) for intrinsic subset assignment. (XLSX 11 kb)
DOI: 10.6084/m9.figshare.c.3636080_d4.v1
title: Additional file 5: of Nilotinib (Tasignaâ ˘) in the treatment of early diffuse systemic sclerosis: an open-label, pilot clinical trial

description: Detailed output for the 666 gene signature in improvers from Fig.Â  4b . For each gene in the improver gene signature, the following information is provided: where it is upregulated (baseline or post treatment), gene symbol, gene name, raw p value, false discovery rate (FDR)(BH), q value, fold change, baseline mean expression value and post-treatment mean expression value. (XLSX 73 kb)
DOI: 10.6084/m9.figshare.c.3636080_d6.v1
title: Additional file 3: of Nilotinib (Tasignaâ ˘) in the treatment of early diffuse systemic sclerosis: an open-label, pilot clinical trial

description: List of 651 intrinsic genes used to cluster nilotinib samples in Fig.Â  2 . Gene symbols are color-coded based on their association with inflammatory (purple), normal-like (green) or fibroproliferative (red) intrinsic subsets. (XLSX 32 kb)
DOI: 10.6084/m9.figshare.c.3636086_d4.v1
title: Additional file 2: of 
                     Ixodes scapularis and Ixodes ricinus tick cell lines respond to infection with tick-borne encephalitis virus: transcriptomic and proteomic analysis

description: Protein identification after proteomics analysis. (XLS 461 kb)
DOI: 10.6084/m9.figshare.c.3636089_d2.v1
title: Additional file 3: Table S1, S2 and S3. of Proton irradiation induces persistent and tissue-specific DNA methylation changes in the left ventricle and hippocampus

description: Significant DMRs and DHMRs annotated with the closest RefSeq transcriptional start site. (XLS 9469 kb)
DOI: 10.6084/m9.figshare.c.3636092_d2.v1
title: Additional file 1: of Sex differences in DNA methylation assessed by 450Â K BeadChip in newborns

description: Sex-associated autosomal DMPs. Results for all significant autosomal DMPs associated with sex in CHAMACOS newborns ranked by P value. (CSV 150Â kb)
DOI: 10.6084/m9.figshare.c.3636092_d3.v1
title: Additional file 4: of Sex differences in DNA methylation assessed by 450Â K BeadChip in newborns

description: Sex-associated DMRs. Results for all significant DMRs associated with sex in CHAMACOS newborns ranked by P value. (CSV 449Â kb)
DOI: 10.6084/m9.figshare.c.3636092_d4.v1
title: Additional file 3: of Sex differences in DNA methylation assessed by 450 K BeadChip in newborns

description: Summary of sex-associated DMRs. Number of DMRs significantly hyper- and hypo-methylated in newborn girls compared to boys at FDR multiple testing threshold (q
DOI: 10.6084/m9.figshare.c.3636218_d1.v1
title: Additional file 1: of The host-pathogen interaction between wheat and yellow rust induces temporally coordinated waves of gene expression

description: Contains supplementary Tables S1-S21. Microsoft Excel Workbook containing twenty-one worksheets. Table S1: RNA-based sequence alignments against wheat and PST-130 reference genomes, using data from infection of wheat (Vuka) with PST 87/66. Table S2: Depth of coverage when RNA-seq data aligned to previously published PST-130 gene models. Table S3: Depth of coverage when RNA-seq data aligned to PST gene models generated herein. Table S4: Comparison of PST-130 gene models and those generated herein. Table S5: Wheat gene annotations. Table S6: 4,307 wheat triplets mined from Ensembl Plants Triticum aestivum portal. Table S7: 239 triplets identified as wheat core eukaryotic genes. Table S8: Mean correlation of expression vectors and mean relative difference comparing Cufflinks, RSEM, Salmon, and Kallisto. Table S9: Gene expression analysis of susceptible wheat cultivar Vuka infected with PST 87/66. Table S10: Gene expression analysis of a  resistant wheat line infected with PST 87/66. Table S11: Gene expression analysis of PST on Vuka . Table S12: KEGG pathway memberships displaying significant enrichment in each cluster for the 7 wheat clusters. Table S13: GO term annotations displaying significant enrichment for the 7 wheat clusters. Table S14: KEGG pathway memberships displaying significant enrichment for the 8 PST clusters. Table S15: GO term annotations displaying significant enrichment for the 8 PST clusters. Table S16: RNA-based sequence alignments against wheat and PST-130, using data from infection of wheat (Avocet line containing Yr5) with PST 87/66. Table S17: Transcripts per million (TPM) values for homologs of the defensome in a susceptible and resistant interaction with PST 87/66. Table S18: TPM values for PST vesicle trafficking components. Table S19: Summary of TPM values for PST vesicle trafficking components. Table S20: TPM values for host genes from a susceptible interaction with PST 87/66. Table S21: TPM values for host genes from a resistant interaction with PST 87/66. (XLSX 35.6 mb)
DOI: 10.6084/m9.figshare.c.3636218_d2.v1
title: Additional file 2: of The host-pathogen interaction between wheat and yellow rust induces temporally coordinated waves of gene expression

description: Annotation of updated PST gene models generated herein. (TSV 21048Â kb)
DOI: 10.6084/m9.figshare.c.3636230_d1.v1
title: MOESM1 of Semiautomatic segmentation of the kidney in magnetic resonance images using unimodal thresholding

description: Additional file 1. unimodcode.zip: a zipped folder containing the following files: unimodscript.py: the central script for the unimodal thresholding approach, l03threshSTD.py: the monomodal thresholding algorithm function, l02shrink.py: a function to remove most of the whitespace from a masked volume, detect_peaks.py: the peak detection function by Marcos Duarte, also available at https://github.com/demotu/BMC/blob/master/functions/detect_peaks.py , example.nii.gz: an anonymized abdominal MRI in NIfTI format, example_left_kidney_preseg.nii.gz: a manual pre-segmentation of the left kidney of the example MRI, done with the Multi-image Analysis GUI (MANGO), available at http://ric.uthscsa.edu/mango/ , example_right_kidney_preseg.nii.gz: a manual pre-segmentation of the right kidney of the example MRI, done with the Multi-image Analysis GUI (MANGO), available at http://ric.uthscsa.edu/mango/ , LICENSE.txt: the MIT license text, readme.txt: description of the included files, list of dependencies, instructions for installation and use.
DOI: 10.6084/m9.figshare.c.3636245_d2.v1
title: Additional file 3: Table S2. of Correlation analysis of the transcriptome of growing leaves with mature leaf parameters in a maize RIL population

description: All phenotyping data per plant and averages per line. (XLSX 188 kb)
DOI: 10.6084/m9.figshare.c.3636245_d3.v1
title: Additional file 2: Table S1. of Correlation analysis of the transcriptome of growing leaves with mature leaf parameters in a maize RIL population

description: List of 1740 genes with expression levels in the leaf division zone of the RILs (anti-)correlating with at least one of the traits. (XLSX 363 kb)
DOI: 10.6084/m9.figshare.c.3636254_d1.v1
title: Additional file 2: of Exploiting biological priors and sequence variants enhances QTL discovery and genomic prediction of complex traits

description: List of genes in the "Lactation Gene Set" that were used as our independent biological prior for the BayesRC Lact model. (TXT 36Â kb)
DOI: 10.6084/m9.figshare.c.3636341_d10.v1
title: Additional file 11: of Phylogenetic relationships of the New World titi monkeys (Callicebus): first appraisal of taxonomy based on molecular evidence

description: List of sequence length and loci coverage for samples in the combined and nuclear datasets. (XLSX 49 kb)
DOI: 10.6084/m9.figshare.c.3636341_d12.v1
title: Additional file 8: of Phylogenetic relationships of the New World titi monkeys (Callicebus): first appraisal of taxonomy based on molecular evidence

description: List of genetic samples used in this study including ID, source and corresponding dataset. (XLSX 52 kb)
DOI: 10.6084/m9.figshare.c.3636341_d14.v1
title: Additional file 14: of Phylogenetic relationships of the New World titi monkeys (Callicebus): first appraisal of taxonomy based on molecular evidence

description: Partitioning schemes and substitution models selected by PartitionFinder. The selected partitioning schemes were implemented in RAxML v. 8.1, MrBayes 3.2.3 or BEAST v 1.8.1. Numbers in parentheses refer to codon position for coding mitochondrial and nuclear sequences. (XLSX 28 kb)
DOI: 10.6084/m9.figshare.c.3636353_d1.v1
title: MOESM1 of A genome-wide association study for genetic susceptibility to Mycobacterium bovis infection in dairy cattle identifies a susceptibility QTL on chromosome 23

description: Additional file 1: Table S1. All_SNP_effects_SSR.csv. A list of all the SNP effects estimated from single-SNP regression analysis. Columns are, chromosome, solution, error, t-like, P value, Log10 (P value), SNP id, genetic position, q-value.
DOI: 10.6084/m9.figshare.c.3636356_d2.v1
title: Additional file 2: of Assessment of population genetic structure in the arbovirus vector midge, Culicoides brevitarsis (Diptera: Ceratopogonidae), using multi-locus DNA microsatellites

description: C. brevitarsis primer optimization. A subset of 38 primers was used to amplify 10 individuals. Twelve of these primer pairs PCR amplified 100% of the individuals. The remainders amplified inconsistently and were not used further. (XLS 28Â kb)
DOI: 10.6084/m9.figshare.c.3636356_d1.v1
title: Additional file 4: of Assessment of population genetic structure in the arbovirus vector midge, Culicoides brevitarsis (Diptera: Ceratopogonidae), using multi-locus DNA microsatellites

description: Probability values of population assignments for samples K = 2. The population Q matrix derived from STRUCTURE clustering analysis show the inferred ancestry membership proportions of each individual, in each cluster. Each individual is represented by a single vertical line, partitioned into K colored segments that represents that individual’s estimated membership fraction in each of the K inferred clusters. The X axis corresponds to the pre-defined populations (TL, PNG, QLD, NT and NSW) and the Y axis represents the proportional estimates of the estimated membership in clusters which add up to one. (TXT 11 kb)
DOI: 10.6084/m9.figshare.c.3636353_d2.v1
title: MOESM2 of A genome-wide association study for genetic susceptibility to Mycobacterium bovis infection in dairy cattle identifies a susceptibility QTL on chromosome 23

description: Additional file 2: Table S2. All_SNP_effects_Bayesian.csv. Description: A list of all the SNP effects estimated from the Bayesian approach applied to GWAS data. Columns are chromosome, SNP id, genetic position, SNP effect, effect variance, model frequency, window frequency, genetic frequency, genetic variance, effect delta, standard deviation of effect delta, t-like, shrink effect, Bayes factor.
DOI: 10.6084/m9.figshare.c.3636356_d3.v1
title: Additional file 3: of Assessment of population genetic structure in the arbovirus vector midge, Culicoides brevitarsis (Diptera: Ceratopogonidae), using multi-locus DNA microsatellites

description: Summary of allelic variation in 11 microsatellite loci. Allelic variation among N = 141 [Timor-Leste (N = 24), Papua New Guinea (N = 24), Queensland (N = 8), Northern Territory (N = 40) and New South Wales (N = 45)] C. brevitarsis specimens sampled from regional populations. Nallele- Null allele, m - monomorphic locus, observed (Ho) and expected (He) heterozygosity, probability of deviation from Hardy-Weinberg Equilibrium (PHWE) and inbreeding co-efficient (FIS) as described. Significantly deviated FIS values (P
DOI: 10.6084/m9.figshare.c.3636356_d4.v1
title: Additional file 1: of Assessment of population genetic structure in the arbovirus vector midge, Culicoides brevitarsis (Diptera: Ceratopogonidae), using multi-locus DNA microsatellites

description: A summary file of the total number of primers designed to the flanking regions of the microsatellite repeats. From the total primers isolated, 420 primers were either found to be similar to each other or blasted to sequences from other organisms in the database, while 106 primers were unique and did not blast to anything in the NCBI database. After blasting the 106 unique primers against the sequenced reads, 93 primer pairs were predicted to anneal to a single unique read while 13 primer pairs were predicted to anneal to more than one read or to more than one site on a single read. (XLS 36Â kb)
DOI: 10.6084/m9.figshare.c.3636368_d1.v1
title: Additional file 3: Figure S2. of Carbon ion therapy (C12) for high-grade malignant salivary gland tumors (MSGTs) of the head and neck: do non-ACCs profit from dose escalation?

description: PFS according to site of origin (ODP 16 kb)
DOI: 10.6084/m9.figshare.c.3636368_d2.v1
title: Additional file 1: Table S1. of Carbon ion therapy (C12) for high-grade malignant salivary gland tumors (MSGTs) of the head and neck: do non-ACCs profit from dose escalation?

description: Treatment-related acute and late toxicity (XLSX 32 kb)
DOI: 10.6084/m9.figshare.c.3636368_d4.v1
title: Additional file 2: Figure S1. of Carbon ion therapy (C12) for high-grade malignant salivary gland tumors (MSGTs) of the head and neck: do non-ACCs profit from dose escalation?

description: PFS according to histologic subtype. AC: adenocarcinoma; ACI: acinic cell carcinoma; MEC: mucoepidermoid carcinoma. Note only the most frequent subtypes are shown to improve visibility (ODP 16 kb)
DOI: 10.6084/m9.figshare.c.3636368_d3.v1
title: Additional file 4: Figure S3. of Carbon ion therapy (C12) for high-grade malignant salivary gland tumors (MSGTs) of the head and neck: do non-ACCs profit from dose escalation?

description: OS according to site of origin (ODP 16 kb)
DOI: 10.6084/m9.figshare.c.3636377_d1.v1
title: Additional file 2: of A nonsense mutation in the COL7A1 gene causes epidermolysis bullosa in Vorderwald cattle

description: R script that implements the haplotype-based GWAS to map epidermolysis bullosa. Description: R script that reads haplotypes, SNP-positions, eigenvectors and phenotypes to perform a haplotype-based association study. A small dataset to perform the association study between epidermolysis bullosa in 43 VWD animals and haplotypes on chromosome 22 is provided in the Additional files 3, 4, 5 and 6. The script was tested in an unix environment. (TXT 4 kb)
DOI: 10.6084/m9.figshare.c.3636368_d5.v1
title: Additional file 5: Figure S4. of Carbon ion therapy (C12) for high-grade malignant salivary gland tumors (MSGTs) of the head and neck: do non-ACCs profit from dose escalation?

description: LC according to resection status (ODP 17 kb)
DOI: 10.6084/m9.figshare.c.3636377_d2.v1
title: Additional file 6: of A nonsense mutation in the COL7A1 gene causes epidermolysis bullosa in Vorderwald cattle

description: Eigenvectors for the top 10 principal components. Description: Eigenvectors for two calves with EB, 14 parents of affected calves and 27 control animals of the VWD population. (TXT 4 kb)
DOI: 10.6084/m9.figshare.c.3636377_d3.v1
title: Additional file 5: of A nonsense mutation in the COL7A1 gene causes epidermolysis bullosa in Vorderwald cattle

description: Positions of 1009 SNPs on bovine chromosome 22. Description: The SNPs are ordered according to their chromosomal position and correspond to the haplotype phases in Additional file 4. (TXT 32 kb)
DOI: 10.6084/m9.figshare.c.3636485_d1.v1
title: Additional file 1: of Design and rationale of the IN CONTROL trial: the effects of real-time continuous glucose monitoring on glycemia and quality of life in patients with type 1 diabetes mellitus and impaired awareness of hypoglycemia

description: Table S1. Overview of visits, telephone consultations and outcome assessments. (XLS 34 kb)
DOI: 10.6084/m9.figshare.c.3636494_d2.v1
title: MOESM2 of Mechanism of imidazolium ionic liquids
            toxicity in Saccharomyces cerevisiae and rational
            engineering of a tolerant, xylose-fermenting strain

description: Additional file 2. Significantly responsive protein abundance in [EMIM]Cl.
DOI: 10.6084/m9.figshare.c.3636500_d1.v1
title: Additional file 2: of DNA replication stress: a source of APOBEC3B expression in breast cancer

description: Supplementary Table 1. (XLSX 68Â kb)
DOI: 10.6084/m9.figshare.c.3636506_d2.v1
title: Additional file 3 of Identifying model error in metabolic flux analysis â   a generalized least squares approach

description: SBML file. An SBML representation of the metabolic model. (XML 89 kb)
DOI: 10.6084/m9.figshare.c.3636512_d2.v1
title: Additional file 4: of Study protocol: realist evaluation of effectiveness and sustainability of a community health workers programme in improving maternal and child health in Nigeria

description: Ethical approvals from the University of Nigeria. (ZIP 1568Â kb)
DOI: 10.5519/qd.pj6fdyq1
title: Query on the Natural History Museum Data Portal (data.nhm.ac.uk) (35 records)
DOI: 10.6084/m9.figshare.c.3636518_d1.v1
title: Additional file 1: of Brace Classification Study Group (BCSG): part one â   definitions and atlas

description: Round table: Braces conceptual and technical approach to scoliosis: JC de Mauroy and N Price. The spreadsheet reproduces the Classification of the 6 most used braces in Europe according to 16 biomechanical parameters. (XLSX 658 kb)
DOI: 10.6084/m9.figshare.c.3636590_d12.v1
title: Additional file 6: Table S2. of The compact genome of the plant pathogen Plasmodiophora brassicae is adapted to intracellular interactions with host Brassica spp

description: Position of SNPs idnetified among different pathotypes of P. brassicae, using pathotype 3 as reference. (XLSX 7838Â kb)
DOI: 10.6084/m9.figshare.c.3636593_d1.v1
title: Additional file 4: Table S13. of Comprehensive promoter level expression quantitative trait loci analysis of the human frontal lobe

description: Manual annotation of intergenic CAGE-clusters. Manual annotation of intergenic CAGE-clusters using the following public databases/datasets: RefSeq genes; FANTOM5 phase I permissive TSSs; Repetitive Elements database; CAGEseq expression derived enhancer dataset; frontal cortex H3K4me3 ChIP-Seq dataset. Overlap between datasets is provided. (XLSX 60 kb)
DOI: 10.6084/m9.figshare.c.3636593_d2.v1
title: Additional file 3: Table S12. of Comprehensive promoter level expression quantitative trait loci analysis of the human frontal lobe

description: List of all identified CAGE-clusters. List of all identified CAGE-clusters reported with their chromosomal locations gene ID, gene and transcript type class according to GENCODE version 17, and expression characteristics. (XLSX 2347 kb)
DOI: 10.6084/m9.figshare.c.3636593_d3.v1
title: Additional file 7: Table S16. of Comprehensive promoter level expression quantitative trait loci analysis of the human frontal lobe

description: All identified sentinel cis eQTLs. List of possible causal variant cis eQTL based on location and lowest p value including CAGE-cluster and SNPs chromosomal positions; gene ID; biotype class according to GENCODE; FDR values and RegulomeDB scores. (XLSX 419 kb)
DOI: 10.6084/m9.figshare.c.3636593_d4.v1
title: Additional file 1: Table S1. of Comprehensive promoter level expression quantitative trait loci analysis of the human frontal lobe

description: All included samples with their characteristics. List of all the samples passing quality controls used in this study with sample details including gender, age, RNA integrity number, postmortem interval, number of mapped reads, included in exome sequencing, and brain bank origin. (XLSX 361 kb)
DOI: 10.6084/m9.figshare.c.3636593_d6.v1
title: Additional file 5: Table S14. of Comprehensive promoter level expression quantitative trait loci analysis of the human frontal lobe

description: All identified cis eQTL variants. List of all cis eQTL variants identified in this study including chromosomal position, gene ID, transcript class according to GENCODE, FDR values and Matrix eQTL statistics, SNPs characteristics, and distant between variants and CAGE-clusters. (XLSX 18351 kb)
DOI: 10.6084/m9.figshare.c.3636593_d7.v1
title: Additional file 6: Table S15. of Comprehensive promoter level expression quantitative trait loci analysis of the human frontal lobe

description: All identified trans eQTL variants. List of all trans eQTL identified in this study including details for CAGE-cluster and SNPs chromosomal positions, FDR values, and information about co-occurrence of trans and cis-eQTLs. (XLSX 1110 kb)
DOI: 10.6084/m9.figshare.c.3636593_d8.v1
title: Additional file 8: Table S17. of Comprehensive promoter level expression quantitative trait loci analysis of the human frontal lobe

description: Overlap between GWAS database and identified eQTL variants. List of all the identified cis eQTL linked to GWAS variants. Provided in this table are: chromosomal locations of the CAGE-clusters and SNPs, FDR values, pubmed ID, and disease traits. (XLSX 207 kb)
DOI: 10.6084/m9.figshare.c.3636596_d1.v1
title: MOESM1 of Endovascular external carotid artery occlusion for brain selective targeting: a cerebrovascular swine model

description: Additional file 1. Temperature Data following cold saline injection at baseline and post modification.
DOI: 10.6084/m9.figshare.c.3636689_d10.v1
title: Additional file 3 of Drug combinatorics and side effect estimation on the signed human drug-target network

description: Text file containing all drug pairs having synergistic scores a i (j)â Ľ0.5 but 0
DOI: 10.6084/m9.figshare.c.3636716_d2.v1
title: Additional file 1: Table S1. of Transcriptional analysis of phloem-associated cells of potato

description: Summary of RNA-seq output of LCM collected PAC samples. (XLSX 43 kb)
DOI: 10.6084/m9.figshare.c.3636716_d1.v1
title: Additional file 3: Table S2. of Transcriptional analysis of phloem-associated cells of potato

description: Complete RNA-seq profile. (XLSX 3811 kb)
DOI: 10.6084/m9.figshare.c.3636716_d3.v1
title: Additional file 20: Table S14. of Transcriptional analysis of phloem-associated cells of potato

description: Source of GO information for entire potato genome. (TXT 17703 kb)
DOI: 10.6084/m9.figshare.c.3636716_d5.v1
title: Additional file 7: Table S6. of Transcriptional analysis of phloem-associated cells of potato

description: RNA profiles of select RNA-binding proteins. (XLSX 106 kb)