cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.c.3643643_d1.v1
title: Additional file 4: of 
                     De novo sequencing and analysis of Lophophora williamsii transcriptome, and searching for putative genes involved in mescaline biosynthesis

description: L. williamsii unigenes. (ZIP 7124 kb)
DOI: 10.6084/m9.figshare.c.3643643_d5.v1
title: Additional file 1: TrnL-trnF intergenic spacer. of 
                     De novo sequencing and analysis of Lophophora williamsii transcriptome, and searching for putative genes involved in mescaline biosynthesis

description: (FASTA 978 bytes)
DOI: 10.6084/m9.figshare.c.3643643_d4.v1
title: Additional file 5: Alignment of Pyridoxal DeC protein domain.  of 
                     De novo sequencing and analysis of Lophophora williamsii transcriptome, and searching for putative genes involved in mescaline biosynthesis

description: (FASTA 2 kb)
DOI: 10.6084/m9.figshare.c.3643643_d6.v1
title: Additional file 3: Table S1. of 
                     De novo sequencing and analysis of Lophophora williamsii transcriptome, and searching for putative genes involved in mescaline biosynthesis

description: Alkaloids found in the ethanol extracts of buttons and roots of L. williamsii. Table S2. Reads statistics of the L. williamsii dataset. Table S3. Annotation of Lophophora williamsii unigenes. (TAIRv10; http://www.arabidopsis.org/ and NCBI; ftp://ftp.ncbi.nih.gov/refseq/release/plant/ Table S4. Funtional classification of L williamsii unigenes based on Arabidopsis GO annotation. Table S5. Detailed information for L. williamsii unigenes mapped on KEGG pathways. Table S6. Expression profile matrix of L. williamsii unigenes. Table S7. Preferentially expressed unigenes in specific organs (buttons and roots) of L. williamsii. (XLSX 16694 kb)
DOI: 10.6084/m9.figshare.c.3643643_d7.v1
title: Additional file 6: Alignment of PPO1-KFDV protein domain. of 
                     De novo sequencing and analysis of Lophophora williamsii transcriptome, and searching for putative genes involved in mescaline biosynthesis

description: (FASTA 1009 bytes)
DOI: 10.6084/m9.figshare.c.3643643_d8.v1
title: Additional file 7: Alignment of αKG-dependent dioxigenase proteins. of 
                     De novo sequencing and analysis of Lophophora williamsii transcriptome, and searching for putative genes involved in mescaline biosynthesis

description: (FASTA 33 kb)
DOI: 10.6084/m9.figshare.c.3643649_d1.v1
title: Additional file 4: of Epigenetic profiling of human brain differential DNA methylation networks in schizophrenia

description: The protein complexes involved in SDMGs and SCZCGs. (XLSX 27Â kb)
DOI: 10.6084/m9.figshare.c.3643649_d4.v1
title: Additional file 1: of Epigenetic profiling of human brain differential DNA methylation networks in schizophrenia

description: Differentially methylated genes with differential expression databases. (XLSX 170Â kb)
DOI: 10.6084/m9.figshare.c.3643649_d2.v1
title: Additional file 2: of Epigenetic profiling of human brain differential DNA methylation networks in schizophrenia

description: Pathway enrichment analysis of SDMGs, hypermethylating SDMGs and SDMGs with level 1 PPI. (XLSX 576Â kb)
DOI: 10.6084/m9.figshare.c.3643649_d3.v1
title: Additional file 3: of Epigenetic profiling of human brain differential DNA methylation networks in schizophrenia

description: The shared common genes of 688 SDMG promoters and PsyGeNET. (XLSX 20Â kb)
DOI: 10.6084/m9.figshare.c.3644099_d16.v1
title: Additional file 6: Table S6. of Comparative transcriptome profiling of resistant and susceptible rice genotypes in response to the seedborne pathogen Fusarium fujikuroi

description: Up-regulated and down-regulated glycoside hydrolase genes. (XLSX 20 kb)
DOI: 10.6084/m9.figshare.c.3644099_d17.v1
title: Additional file 5: Table S5. of Comparative transcriptome profiling of resistant and susceptible rice genotypes in response to the seedborne pathogen Fusarium fujikuroi

description: Up-regulated and down-regulated PR genes. (XLSX 20 kb)
DOI: 10.6084/m9.figshare.c.3644513_d2.v1
title: Additional file 5: Table S3. of Expression of microRNAs and isomiRs in the porcine endometrium: implications for gene regulation at the maternal-conceptus interface

description: Lists of DE miRNAs found in pregnant and cyclic endometria on different days of the estrous cycle and early pregnancy. Differences were considered significant with FDR  1. Comparison analysis between different days of the estrous cycle or pregnancy performed in EdgeR using ANOVA-like analysis. Expression profiles between pregnancy and estrus cycle were compared using t-test. Values in red correspond to up-regulated and in green to down-regulated sequences in selected comparison. Prefixes stand for: hsa - Homo sapiens, mmu - Mus musculus, ssc - Sus scrofa, bta- Bos taurus, cfa - Canis familiaris, eca - Equus caballus, ggo - Gorilla gorilla, oan - Ornithorhynchus anatinus, cgr - Cricetulus griseus, mdo - Monodelphis domestica, rno - Rattus norvegicus, age - Ateles geoffroyi, lla - Lagothrix lagotricha, ptr - Pan troglodytes, sha - Sarcophilus harrisii, ppy - Pongo pygmaeus, mml - Macaca mulatta, oar - Ovis aries. (XLSX 604 kb)
DOI: 10.6084/m9.figshare.c.3644513_d3.v1
title: Additional file 9: Table S6. of Expression of microRNAs and isomiRs in the porcine endometrium: implications for gene regulation at the maternal-conceptus interface

description: Results of IPA functional annotations and processes enriched with common targets for canonical miR-140-3p (seed sequence ACCACAG) and its 5â   isomiR with seed sequence CCACAGG. (XLSX 21 kb)
DOI: 10.6084/m9.figshare.c.3644513_d8.v1
title: Additional file 7: Table S4. of Expression of microRNAs and isomiRs in the porcine endometrium: implications for gene regulation at the maternal-conceptus interface

description: List of DE miRNAs found in pregnant and cyclic endometria organized into 7 clusters according to the SOTA algorithm. Numbers in brackets indicate numbers of miRNAs displaying similar profiles and assigned to each cluster. (XLSX 19 kb)
DOI: 10.6084/m9.figshare.c.3644513_d9.v1
title: Additional file 8: Table S5. of Expression of microRNAs and isomiRs in the porcine endometrium: implications for gene regulation at the maternal-conceptus interface

description: Results of IPA functional annotations and processes enriched with DE miRNAs between different days of the estrous cycle and early pregnancy. All mature, canonical miRNAs which were orthologs to human miRNAs (input data with human identifiers) were used for analysis. (XLSX 16 kb)
DOI: 10.6084/m9.figshare.c.3644513_d13.v1
title: Additional file 3: Table S2. of Expression of microRNAs and isomiRs in the porcine endometrium: implications for gene regulation at the maternal-conceptus interface

description: List of sequences annotated and not annotated to known porcine and mammalian miRNAs. In total, 873 sequences, showing 100Â % homology to the reference sequence, were annotated to mature or stem-loop miRNAs represented in miRBase v. 18, Ensembl, EMBL or NCBI databases. (XLSX 781 kb)
DOI: 10.15468/dl.2j7wd3
title: Occurrence Download

description: A dataset containing 2364 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Lynx pardinus (Temminck, 1827)"
 ]
}

 The dataset includes 2364 records from 31 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0038622-241126133413365/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.qdwk6c
title: Occurrence Download

description: A dataset containing 1304 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Terminalia chebula Retz."
 ]
}

 The dataset includes 1304 records from 86 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0038621-241126133413365/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.3644969_d4.v1
title: Additional file 4: Table S2. of Evolutionary history of endemic Sulawesi squirrels constructed from UCEs and mitogenomes sequenced from museum specimens

description: Number of reads for each individual enriched for UCEs, and total number of recovered loci. (XLSX 48 kb)
DOI: 10.6084/m9.figshare.c.3644972_d3.v1
title: Additional file 1: of Reproducibility of Illumina platform deep sequencing errors allows accurate determination of DNA barcodes in cells

description: The script ‘barcodecleanup.R’ applies the clean-up procedure as described in the main text. It expects an input file consisting of a table with read counts, organized such that the columns represent the different samples and the rows represent the different barcodes. A detailed explanation of the requirements for the input file is given in the commentary of the script, and an example input file ‘testartificialdata.txt’ containing example artificial data is also provided. Barcodes containing at least one position with an ‘N’ should be removed from the input file and the barcodes should be sorted on the basis of total read count in descending order. Based on user-provided parameters (such as maximal sequence similarity between presumed correct mother-daughter pairs), the algorithm delivers two output files representing barcodes considered correct and those considered incorrect. (R 6 kb)
DOI: 10.6084/m9.figshare.c.3644972_d7.v1
title: Additional file 2: of Reproducibility of Illumina platform deep sequencing errors allows accurate determination of DNA barcodes in cells

description: The file ‘testartificialdata.txt’ contains example artificial data to which the clean-up procedure (i.e., the script ‘barcodecleanup.R’) can be applied. (TXT 399 bytes)
DOI: 10.15468/dl.4q6jet
title: Occurrence Download

description: A dataset containing 1304 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Terminalia chebula Retz."
 ]
}

 The dataset includes 1304 records from 86 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0038624-241126133413365/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.jff5pz
title: Occurrence Download

description: A dataset containing 6293 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Aeluropus littoralis (Gouan) Parl."
 ]
}

 The dataset includes 6293 records from 238 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0038623-241126133413365/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.3645476_d1.v1
title: Additional file 2: Table S1. of Unraveling the early molecular and physiological mechanisms involved in response to phenanthrene exposure

description: Transcriptome data obtained for each performed comparison. Table S2. Genes found to be differentially expressed in all the comparisons between PHN-treated and control plants (hybridizations 5–9). Table S3. Genes found to be differentially expressed in all the comparisons between PHN-treated and control plants (hybridizations 5–9), selected after ANOVA analysis. Table S4. The 467 DEGs found to be differentially expressed in all the comparisons between PHN-treated and control plants (hybridizations 5–9), selected after ANOVA analysis. Table S5. Biological pathways with significantly over-represented genes. Table S6. Primers used for quantitative RT-PCR. (XLSX 17507 kb)
DOI: 10.6084/m9.figshare.c.3645500_d1.v1
title: Additional file 1: of Comparison of sodium ion levels between an arterial blood gas analyzer and an autoanalyzer in preterm infants admitted to the neonatal intensive care unit: a retrospective study

description: The datasets supporting the conclusion of this study. (XLSX 820Â kb)
DOI: 10.6084/m9.figshare.c.3645512_d1.v1
title: Additional file 5: Table S4. of Negative selection maintains transcription factor binding motifs in human cancer

description: Overview of DNase accessibility data analysis including mutation counts, motif predictions and data sources used to filter mutations in regulatory regions for breast cancer and lung adenocarcinoma. (XLSX 153 kb)
DOI: 10.6084/m9.figshare.c.3645512_d3.v1
title: Additional file 4: Table S3. of Negative selection maintains transcription factor binding motifs in human cancer

description: Binding motifs under positive and negative selection. Data for separate motifs is shown, as well as aggregated data for the motifs grouped by family (number of significantly protected motifs is shown, family name and ID are given according to TFClass). (XLSX 30 kb)
DOI: 10.6084/m9.figshare.c.3645512_d4.v1
title: Additional file 7: Table S5. of Negative selection maintains transcription factor binding motifs in human cancer

description: Binding motifs found under positive and negative selection in a basic test considering mutations overlapping and avoiding binding sites predictions. Raw data on binding sites predictions are given along with the resulting aggregated information for motif families. (XLSX 370 kb)
DOI: 10.6084/m9.figshare.c.3645512_d5.v1
title: Additional file 2: Table S2. of Negative selection maintains transcription factor binding motifs in human cancer

description: Raw data on binding sites predictions across mutation-centered windows in all evaluated cancer data sets as well as the respective generated control data sets. (XLSX 624 kb)
DOI: 10.6084/m9.figshare.c.3645512_d7.v1
title: Additional file 1: Table S1. of Negative selection maintains transcription factor binding motifs in human cancer

description: Mutation counts, frequencies of mutation contexts and relative control sizes for different cancer types. Initial as well as the final size (after binding sites predictions and equalizing the mutation contexts distribution) of each control set is shown. (XLSX 17 kb)
DOI: 10.5281/zenodo.14512071
title: Age variables
DOI: 10.5281/zenodo.14512072
title: Age variables
DOI: 10.6084/m9.figshare.c.3645899_d1.v1
title: Additional file 1: of The transcription factor ERG increases expression of neurotransmitter receptors on prostate cancer cells

description: ERG-dependent neurotransmitter receptor expression, pathscan data, and patient tumor pathology scoring. (XLSX 100 kb)
DOI: 10.6084/m9.figshare.c.3645908_d1.v1
title: Additional file 2 of Comparison of different approaches to estimating age standardized net survival

description: Stata Do file to generate and analyse the simulated data for scenario 2. (PDF 3 kb)
DOI: 10.6084/m9.figshare.c.3645908_d2.v1
title: Additional file 1 of Comparison of different approaches to estimating age standardized net survival

description: Stata Do file to generate and analyse the simulated data for scenario 1. (PDF 3 kb)
DOI: 10.6084/m9.figshare.c.3645941_d1.v1
title: Additional file 2: of Analysis of thromboelastography, PT, APTT and fibrinogen in intraosseous and venous samples—an experimental study

description: TEG parameters reaction time (R), kinetics (K), α-angle (α), Maximal amplitude (MA) and lysis at 30 minutes (Ly30) in intraosseous (IO) and venous (IV) samples at first (1) and second (2) sampling, and differences. (XLSX 12 kb)
DOI: 10.6084/m9.figshare.c.3645941_d2.v1
title: Additional file 1: of Analysis of thromboelastography, PT, APTT and fibrinogen in intraosseous and venous samplesâ  an experimental study

description: Values of Prothrombin Time (PT), Activated Partial Thromboplastin Time (APTT) and Fibrinogen (FIB) in intraosseous (IO) and venous (IV) samples and differences (D) at first (1) and second (2) sampling. (XLSX 9Â kb)
DOI: 10.6084/m9.figshare.c.3645950_d2.v1
title: Additional file 1: Table S1. of Omic personality: implications of stable transcript and methylation profiles for personalized medicine

description: Amount of variation among individuals. Table S2. Experimental design file. Table S3. Principal components of the omic measures. Table S4. Methylation R-squared statistics by CpG location and type. Table S5. Correlations between peak CpG and nearest transcript abundance. Table S6. Correlations with cell counts. Table S7. Correlations with Axis scores. Table S8. Extreme transcripts by individual. Table S9. Extreme peak CpG by individual. Table S10. Enriched pathways in extremes of expression and methylation. Table S11. Correlations between miRNA and mRNA. Table S12. Allele-specific expression. Table S13. Axis scores (PC1 of the blood informative transcripts). (XLSX 6779Â kb)
DOI: 10.6084/m9.figshare.c.3645953_d1.v1
title: MOESM1 of Case report: Weilâ  s disease with multiple organ failure in a child living in dengue endemic area

description: Additional file 1. Dataset for the case report.
DOI: 10.6084/m9.figshare.c.3645959_d1.v1
title: MOESM1 of MaGelLAn 1.0: a software to facilitate quantitative and population genetic analysis of maternal inheritance by combination of molecular and pedigree information

description: Additional file 1. Zip archive of MaGelLAn1.0 source code consisting of four Python3 scripts.
DOI: 10.6084/m9.figshare.c.3646409_d1.v1
title: Additional file 1: Table S1. of The evolutionary dynamics of tRNA-gene copy number and codon-use in E. coli.

description: The tRNA gene copy number for major E. coli strains used in this study. (XLSX 41 kb)
DOI: 10.6084/m9.figshare.c.3651722_d1.v1
title: Additional file 1: Table S1. of A compendium of human genes regulating feeding behavior and body weight, its functional characterization and identification of GWAS genes involved in brain-specific PPI network

description: Human genes (105) controlling feeding behavior that were collected from scientific publications (research papers and review articles); Table S2. Human genes (336) controlling feeding behavior or body weight that were collected from OMIM; Table S3. Human genes (37) associated with syndromes that include obesity as one of the phenotypic characteristics (Bardet-Biedl, Prader-Willi, Alstrom, etc); Table S4. Data from the GWAS meta-analysis papers. Lead SNPs with genome-wide significant (p-value
DOI: 10.6084/m9.figshare.c.3651719_d2.v1
title: Additional file 2: of Sacral agenesis: a pilot whole exome sequencing and copy number study

description: All called variants after QC and MAF. (XLSX 1329Â kb)
DOI: 10.6084/m9.figshare.c.3651740_d1.v1
title: Additional file 1: of The gene-expression profile of renal medulla in ISIAH rats with inherited stress-induced arterial hypertension

description: Genes differentially expressed in renal medulla of hypertensive ISIAH and normotensive control WAG rats. (XLS 197 kb)
DOI: 10.6084/m9.figshare.c.3651734_d2.v1
title: Additional file 2: Table S1. of Haploid yeast cells undergo a reversible phenotypic switch associated with chromosome II copy number

description: Expression values for all genes in an Ispâ   isolate (m2) relative to an Isp+ one (p2) and mean coverage in approximately 1kb-long windows for an Ispâ   isolate (m2) relative to an Isp+ one (p3). Genes/windows are sorted by chromosomal position. Genes or windows located on duplicated chromosomes are in bold. (XLS 1215 kb)
DOI: 10.6084/m9.figshare.c.3651728_d2.v1
title: Additional file 2: of Genes of susceptibility to early neurodegenerative changes in the rat retina and brain: analysis by means of congenic strains

description: Contains the lists of RNO1 genes which are located within examined regions of rat chromosome 1 (Additional file 2: Tables S1, S2, S3, S4 and S5) (XLSX 349Â kb)
DOI: 10.6084/m9.figshare.c.3651740_d2.v1
title: Additional file 6: of The gene-expression profile of renal medulla in ISIAH rats with inherited stress-induced arterial hypertension

description: Metabolic pathways enriched with genes differentially expressed in ISIAH and WAG renal medulla. (XLS 41 kb)
DOI: 10.6084/m9.figshare.c.3651752_d1.v1
title: Additional file 1: of ESAP plus: a web-based server for EST-SSR marker development

description: Supplementary materials. Lists of in-house Shell script in ESAP Plus. Nine in-house Shell scripts including: (1) est1_formatting.sh, (2) est2_length_N.sh, (3) est3_vector.sh, (4) est4_lowcom.sh, (5) est5_est_clustering_cdhitest.sh, (6) est5_est_clustering_tgicl.sh, (7) est6_ssr_misa.sh, (8) est6_ssr_repeatmasker.sh, and (9) est7_primer.sh. Format: The above shell scripts were compressed in one zip file. (ZIP 10Â kb)
DOI: 10.6084/m9.figshare.c.3656945_d3
title: Additional file 6 of ChimPipe: accurate detection of fusion genes and transcription-induced chimeras from RNA-seq data

description: Common chimeras between human and mouse (TSV 52kb)
DOI: 10.6084/m9.figshare.c.3656954_d5.v1
title: Additional file 3: of The transcriptome of the mosquito Aedes fluviatilis (Diptera: Culicidae), and transcriptional changes associated with its native Wolbachia infection

description: Annotated, differentially expressed Ae. fluviatilis contigs. Table depicting all differentially expressed contigs, relevant annotations, and expression data. (XLSX 55 kb)
DOI: 10.6084/m9.figshare.c.3656948_d4.v1
title: Additional file 6: of Horizontal gene transfer drives the evolution of Rh50 permeases in prokaryotes

description: Multiple sequence alignment of Rh50 protein dataset (before trimming). (PHY 339Â kb)
DOI: 10.6084/m9.figshare.c.3656948_d4
title: Additional file 6: of Horizontal gene transfer drives the evolution of Rh50 permeases in prokaryotes

description: Multiple sequence alignment of Rh50 protein dataset (before trimming). (PHY 339Â kb)
DOI: 10.6084/m9.figshare.c.3656954_d5
title: Additional file 3: of The transcriptome of the mosquito Aedes fluviatilis (Diptera: Culicidae), and transcriptional changes associated with its native Wolbachia infection

description: Annotated, differentially expressed Ae. fluviatilis contigs. Table depicting all differentially expressed contigs, relevant annotations, and expression data. (XLSX 55 kb)
DOI: 10.15468/dl.hpjddv
title: Occurrence Download

description: A dataset containing 10899 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Lynx canadensis Kerr, 1792"
 ]
}

 The dataset includes 10899 records from 85 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0038625-241126133413365/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.3658847_d2.v1
title: Additional file 2: Tables S2. of Polyploidy and the relationship between leaf structure and function: implications for correlated evolution of anatomy, morphology, and physiology in Brassica

description: Difference in trait ranges between parents and hybrids. (XLSX 52 kb)
DOI: 10.6084/m9.figshare.c.3658847_d2
title: Additional file 2: Tables S2. of Polyploidy and the relationship between leaf structure and function: implications for correlated evolution of anatomy, morphology, and physiology in Brassica

description: Difference in trait ranges between parents and hybrids. (XLSX 52 kb)
DOI: 10.6084/m9.figshare.c.3658847_d3.v1
title: Additional file 1: Table S1. of Polyploidy and the relationship between leaf structure and function: implications for correlated evolution of anatomy, morphology, and physiology in Brassica

description: Raw phenotypic data. (CSV 29 kb)
DOI: 10.6084/m9.figshare.c.3658847_d3
title: Additional file 1: Table S1. of Polyploidy and the relationship between leaf structure and function: implications for correlated evolution of anatomy, morphology, and physiology in Brassica

description: Raw phenotypic data. (CSV 29 kb)