cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.c.3645932_d2
title: Additional file 2: Table S1. of An expansion of rare lineage intestinal microbes characterizes rheumatoid arthritis

description: Association of clinical variables with gut microbial diversity. The association of Îą-diversity was assessed by a linear model and the association of Î˛-diversity was assessed by PERMANOVA. Table S2. Differential abundance analysis of phylum, family, and genus-level taxa. Table S3. Summary statistics of differentially abundant taxa at a false discovery rate of 15Â %. Table S4. Differential abundance analysis results of major KEGG pathways. Table S5. Importance scores of the genera determined by the random forests algorithm. Table S6. Abundance of metabolites in RA and relatives. Mean and standard deviation are given. (XLSX 36 kb)
DOI: 10.6084/m9.figshare.c.3645929_d1
title: Additional file 2: Table S1A. of Hairy Canola (Brasssica napus) re-visited: Down-regulating TTG1 in an AtGL3-enhanced hairy leaf background improves growth, leaf trichome coverage, and metabolite gene expression diversity

description: Primer sequences used in the construction and analysis of B. napus transgenic lines. Table S1B. Blast of batch leaf Q-PCR primers to the B. rapa, B. oleracea, and B. napus genomes for five trichome regulatory genes and two control genes in B. napus. Table S1C. “Detectable” B. napus homologues of five trichome regulatory genes in first true leaves (from RNA sequencing). Table S1D. BlastP for five Arabidopsis trichome regulatory genes against the Brassica napus genome in NCBI. Table S2A. Differentially expressed leaf trichome ESTs (p
DOI: 10.6084/m9.figshare.c.3644981_d8
title: Additional file 4: of Comparative genomic analyses of freshly isolated Giardia intestinalis assemblage A isolates

description: Unique assemblage AII genes. Unique genes in the assemblage AII genomes AS98 and AS175 compared to assemblageAI isolate WB. (XLSX 40 kb)
DOI: 10.6084/m9.figshare.c.3644981_d4
title: Additional file 6: of Comparative genomic analyses of freshly isolated Giardia intestinalis assemblage A isolates

description: Nucleotide diversity between assemblage A orthologs. List of assemblage AI and AII orthologs and the nucleotide diversity of the alignment. The most diverse genes are at the top, with decreasing diversity. (XLS 690 kb)
DOI: 10.6084/m9.figshare.c.3643592_d4
title: Additional file 3: Table S2. of Decreased expression levels of Ifi genes is associated to the increased resistance to spontaneous arthritis disease in mice deficiency of IL-1RA

description: Down and up regulated genes comparing congenic strain to that of DBA Il1rn mutation. List of names and DiffScores of changes of down or up regulated genes in congenic strain in comparison to that of DBA Il1rn mutation. (XLSX 21 kb)
DOI: 10.6084/m9.figshare.c.3643592_d1
title: Additional file 1: Table S1. of Decreased expression levels of Ifi genes is associated to the increased resistance to spontaneous arthritis disease in mice deficiency of IL-1RA

description: Down and up regulated genes comparing congenic strain to that in DBA wild type. List of names and DiffScores of changes of down or up regulated genes in congenic strain in comparison to that of DBA wild type. (XLSX 26 kb)
DOI: 10.6084/m9.figshare.c.3643592_d2
title: Additional file 4: Table S3. of Decreased expression levels of Ifi genes is associated to the increased resistance to spontaneous arthritis disease in mice deficiency of IL-1RA

description: Down and up regulated genes comparing congenic stain to the Balb/c wild type. List of names and DiffScores of changes of down or up regulated genes in congenic strain in comparison to that of Balb/c wild type. (XLSX 10 kb)
DOI: 10.15468/dl.8ztcb4
title: Occurrence Download

description: A dataset containing 60319 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Eucalanidae",
 "Geometry POLYGON((170 20, 170 50, 120 50, 120 20, 170 20))",
 "HasCoordinate is true"
 ]
}

 The dataset includes 60319 records from 10 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0032833-241126133413365/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.3642563_d3
title: MOESM2 of In silico profiling for secondary metabolites from Lepidium meyenii (maca) by the pharmacophore and ligand-shape-based joint approach

description: Additional file 2. WEGA validation scores.
DOI: 10.6084/m9.figshare.c.3642563_d1
title: MOESM1 of In silico profiling for secondary metabolites from Lepidium meyenii (maca) by the pharmacophore and ligand-shape-based joint approach

description: Additional file 1. IPA druggable datasheet.
DOI: 10.15468/dl.zq98cm
title: Occurrence Download

description: A dataset containing 9728 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Pteridophyta"
 ]
}

 The dataset includes 9728 records from 145 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0032834-241126133413365/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.3642554_d1
title: Additional file 2: of Roux-en-Y gastric bypass surgery of morbidly obese patients induces swift and persistent changes of the individual gut microbiota

description: Five supporting tables. A table caption of each is given within the file. (XLSX 84 kb)
DOI: 10.6084/m9.figshare.c.3642491_d3
title: Additional file 4: Table S3. of Comprehensive analysis of promoter-proximal RNA polymerase II pausing across mammalian cell types

description: List of primers used in this study. (XLSX 10 kb)
DOI: 10.6084/m9.figshare.c.3642491_d4
title: Additional file 3: Table S2. of Comprehensive analysis of promoter-proximal RNA polymerase II pausing across mammalian cell types

description: GO biological process enrichment analysis for the top and bottom 25Â % of genes by PI for each cell type. (XLSX 23028 kb)
DOI: 10.6084/m9.figshare.c.3642491_d1
title: Additional file 2: Table S1. of Comprehensive analysis of promoter-proximal RNA polymerase II pausing across mammalian cell types

description: Datasets used in this study. (XLSX 19 kb)
DOI: 10.6084/m9.figshare.c.3642455_d1
title: MOESM1 of 3C-digital PCR for quantification of chromatin interactions

description: Additional file 1: Table S1. Table of sequences of the primers and TaqMan probes used for dPCR.
DOI: 10.6084/m9.figshare.c.3642422_d2
title: Additional file 2: of Draft genomic sequence of a chromate- and sulfate-reducing Alishewanella strain with the ability to bioremediate Cr and Cd contamination

description: Table S1. Putative proteins involved in sulfate and chromate reduction. Table S2. Putative proteins involved in heavy metal resistance. (XLSX 14Â kb)
DOI: 10.6084/m9.figshare.c.3641597_d13
title: MOESM10 of Identification of selective sweeps reveals divergent selection between Chinese Holstein and Simmental cattle populations

description: Additional file 10: Table S4. DAVID analyses on candidate genes.
DOI: 10.6084/m9.figshare.c.3641597_d11
title: MOESM12 of Identification of selective sweeps reveals divergent selection between Chinese Holstein and Simmental cattle populations

description: Additional file 12: Table S5. Distribution of six components inferred by FlexMix analysis and number of SNPs in each component.
DOI: 10.6084/m9.figshare.c.3641597_d9
title: MOESM5 of Identification of selective sweeps reveals divergent selection between Chinese Holstein and Simmental cattle populations

description: Additional file 5: Table S1. The top 5 genetically closest populations to Chinese Holstein and Simmental individuals in breed assignment analyses.
DOI: 10.6084/m9.figshare.c.3641597_d8
title: MOESM8 of Identification of selective sweeps reveals divergent selection between Chinese Holstein and Simmental cattle populations

description: Additional file 8: Table S2. Overlapping windows between LRH, XP-EHH and FST tests.
DOI: 10.15468/dl.qzgugp
title: Occurrence Download

description: A dataset containing 10013 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Rhincalanidae",
 "Geometry POLYGON((170 20, 170 50, 120 50, 120 20, 170 20))",
 "HasCoordinate is true"
 ]
}

 The dataset includes 10013 records from 7 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0032835-241126133413365/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.vb5a3w
title: Occurrence Download

description: A dataset containing 118 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Fritillaria delavayi Franch."
 ]
}

 The dataset includes 118 records from 20 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0032836-241126133413365/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.3640694_d6
title: Additional file 6: of Transcriptomic analysis reveals the gene expression profile that specifically responds to IBA during adventitious rooting in mung bean seedlings

description: Top up- and down regulated DEGs in IBA24 versus IBA6. (XLSX 28 kb)
DOI: 10.6084/m9.figshare.c.3640694_d7
title: Additional file 7: of Transcriptomic analysis reveals the gene expression profile that specifically responds to IBA during adventitious rooting in mung bean seedlings

description: Top significantly up- and down- regulated DEGs involved in plant hormone signaling between the samples. (XLSX 16 kb)
DOI: 10.6084/m9.figshare.c.3640694_d4
title: Additional file 8: of Transcriptomic analysis reveals the gene expression profile that specifically responds to IBA during adventitious rooting in mung bean seedlings

description: Top most differentially expressed transcription factor (TF) coding genes between the samples. (XLSX 12 kb)
DOI: 10.6084/m9.figshare.c.3640694_d5
title: Additional file 4: of Transcriptomic analysis reveals the gene expression profile that specifically responds to IBA during adventitious rooting in mung bean seedlings

description: Top up- and down regulated DEGs in the sample treated with IBA for 6Â h. (XLSX 18 kb)
DOI: 10.6084/m9.figshare.c.3640694_d3
title: Additional file 2: of Transcriptomic analysis reveals the gene expression profile that specifically responds to IBA during adventitious rooting in mung bean seedlings

description: Top list of significantly up- and down-regulated GOs. (XLSX 43 kb)
DOI: 10.6084/m9.figshare.c.3640694_d1
title: Additional file 3: of Transcriptomic analysis reveals the gene expression profile that specifically responds to IBA during adventitious rooting in mung bean seedlings

description: Top list of significantly up- and down-regulated KOs. (XLSX 14 kb)
DOI: 10.6084/m9.figshare.c.3640619_d17
title: Additional file 9: of Multi-label multi-instance transfer learning for simultaneous reconstruction and cross-talk modeling of multiple human signaling pathways

description: Text file contains the predicted cross-talk signaling components between human signaling pathways (target instance). (ZIP 4 KB)
DOI: 10.6084/m9.figshare.c.3640619_d16
title: Additional file 10: of Multi-label multi-instance transfer learning for simultaneous reconstruction and cross-talk modeling of multiple human signaling pathways

description: Text file contains the predicted cross-talk signaling components between human signaling pathways (homolog instance). (ZIP 36 KB)
DOI: 10.6084/m9.figshare.c.3640619_d14
title: Additional file 2: of Multi-label multi-instance transfer learning for simultaneous reconstruction and cross-talk modeling of multiple human signaling pathways

description: Text file contains the predicted signaling components for each human signaling pathway (target instance). (ZIP 37 KB)
DOI: 10.6084/m9.figshare.c.3640619_d13
title: Additional file 16: of Multi-label multi-instance transfer learning for simultaneous reconstruction and cross-talk modeling of multiple human signaling pathways

description: Text file contains the GO enrichment analysis of the predicted signaling components (molecular functions). (ZIP 143 KB)
DOI: 10.6084/m9.figshare.c.3640619_d11
title: Additional file 15: of Multi-label multi-instance transfer learning for simultaneous reconstruction and cross-talk modeling of multiple human signaling pathways

description: Text file contains the GO enrichment analysis of the predicted signaling components (biological processes). (ZIP 702 KB)
DOI: 10.6084/m9.figshare.c.3640619_d12
title: Additional file 13: of Multi-label multi-instance transfer learning for simultaneous reconstruction and cross-talk modeling of multiple human signaling pathways

description: Text file contains the derived cross-talk signaling PPIs between human signaling pathways (homolog instance). (ZIP 23 KB)
DOI: 10.6084/m9.figshare.c.3640619_d10
title: Additional file 17: of Multi-label multi-instance transfer learning for simultaneous reconstruction and cross-talk modeling of multiple human signaling pathways

description: Text file contains the GO enrichment analysis of the predicted signaling components (cellular compartments). (ZIP 171 KB)
DOI: 10.6084/m9.figshare.c.3640619_d8
title: Additional file 12: of Multi-label multi-instance transfer learning for simultaneous reconstruction and cross-talk modeling of multiple human signaling pathways

description: Text file contains the derived cross-talk signaling PPIs between human signaling pathways (target instance). (ZIP 17 KB)
DOI: 10.6084/m9.figshare.c.3640619_d6
title: Additional file 1: of Multi-label multi-instance transfer learning for simultaneous reconstruction and cross-talk modeling of multiple human signaling pathways

description: Text file contains the total predicted signaling components. (ZIP 203 KB)
DOI: 10.6084/m9.figshare.c.3640619_d7
title: Additional file 5: of Multi-label multi-instance transfer learning for simultaneous reconstruction and cross-talk modeling of multiple human signaling pathways

description: Text file contains the derived signaling PPIs for each human signaling pathway (homolog instance). (ZIP 23 KB)
DOI: 10.6084/m9.figshare.27888042
title: Interview data - The Band 5.5 Trap

description: Data from the 2024 journal article entitled 'The Band 5.5 Trap'
DOI: 10.6084/m9.figshare.27888042.v1
title: Interview data - The Band 5.5 Trap

description: Data from the 2024 journal article entitled 'The Band 5.5 Trap'
DOI: 10.6084/m9.figshare.c.3639428_d4
title: Additional file 11: Table S1. of Comparative analyses of CTCF and BORIS occupancies uncover two distinct classes of CTCF binding genomic regions

description: Pathways altered with BORIS downregulation in K562 cells. Table S2 Functional annotation of genes that changed transcription upon BORIS downregulation in K562 cells. Table S3 The top diseases and functions enriched for the genes that changed transcription upon BORIS downregulation in K562 cells. Table S4 Pathways altered with BORIS induction in MCF7 cells. Table S5 Functional annotation of genes that changed transcription upon BORIS induction in MCF7 cells (Clone1). Table S6 The top diseases and functions enriched for the genes that changed transcription upon BORIS induction in MCF7 cells (Clone1). Table S7 Comparison of functional annotation of genes that changed transcription upon BORIS depletion (K562) and BORIS induction (MCF7, Clone1). Table S8 Comparison of canonical pathways that altered upon BORIS depletion (K562) and BORIS induction (MCF7, Clone1). (XLSX 257Â kb)
DOI: 10.6084/m9.figshare.c.3639413_d1
title: Additional file 1 of The systems biology format converter

description: SBFC Web Services usage example. The file UsageExample.java presents some code using several methods of the SBFCWebServiceClient class to perform some conversions, retrieve the results and save them to local files. (JAVA 5 kb)
DOI: 10.6084/m9.figshare.c.3637763_d1
title: Additional file 2: of Genome of the Asian longhorned beetle (Anoplophora glabripennis), a globally significant invasive species, reveals key functional and evolutionary innovations at the beetleâ  plant interface

description: Large supporting tables. (XLSX 344 kb)
DOI: 10.6084/m9.figshare.c.3637748_d1
title: MOESM3 of Development and validation of new glomerular filtration rate predicting models for Chinese patients with type 2 diabetes

description: Additional file 3. A simple EXCEL software to calculate eGFR by ANN3.
DOI: 10.6084/m9.figshare.c.3637727_d11
title: Additional file 11: of High-frequency, precise modification of the tomato genome

description: Annotated sequence of the vector pTC223. (GB 33 kb)
DOI: 10.6084/m9.figshare.c.3637727_d9
title: Additional file 3: of High-frequency, precise modification of the tomato genome

description: Annotated sequence of the vector pTC144. (GB 53 kb)
DOI: 10.6084/m9.figshare.c.3637727_d8
title: Additional file 4: of High-frequency, precise modification of the tomato genome

description: Annotated sequence of the vector pTC146. (GB 49 kb)
DOI: 10.6084/m9.figshare.c.3637727_d7
title: Additional file 9: of High-frequency, precise modification of the tomato genome

description: Annotated sequence of the vector pTC208. (GB 43 kb)
DOI: 10.15468/dl.umsuwx
title: Occurrence Download

description: A dataset containing 56872 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Aetideidae",
 "Geometry POLYGON((170 20, 170 50, 120 50, 120 20, 170 20))",
 "HasCoordinate is true"
 ]
}

 The dataset includes 56872 records from 15 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0032837-241126133413365/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.3636791_d20
title: Additional file 10: Table S9. of Exploring the rice dispensable genome using a metagenome-like assembly strategy

description: RNA sequencing data used in the expression profiling of predicted genes of the dispensable genome. (XLS 10Â kb)
DOI: 10.6084/m9.figshare.c.3636791_d21
title: Additional file 4: Table S3. of Exploring the rice dispensable genome using a metagenome-like assembly strategy

description: Alignment of contigs of the indica dispensable genome to different sequenced genomes of the Oryza genus. (XLS 8272Â kb)
DOI: 10.6084/m9.figshare.c.3636791_d19
title: Additional file 6: Table S5. of Exploring the rice dispensable genome using a metagenome-like assembly strategy

description: The alignment of genes in the sequenced region of Kasalath that harbors PSTOL1 to the dispensable genome. (XLS 17Â kb)
DOI: 10.6084/m9.figshare.c.3636791_d17
title: Additional file 20: Table S18. of Exploring the rice dispensable genome using a metagenome-like assembly strategy

description: LTR retrotransposons found within the dispensable genome. (XLS 2869Â kb)
DOI: 10.6084/m9.figshare.c.3636791_d18
title: Additional file 2: Table S2. of Exploring the rice dispensable genome using a metagenome-like assembly strategy

description: Mapping rate of sequencing reads aligned to the Nipponbare genome of different accessions. (XLS 107Â kb)
DOI: 10.6084/m9.figshare.c.3636791_d16
title: Additional file 14: Table S12. of Exploring the rice dispensable genome using a metagenome-like assembly strategy

description: The genomic positions relative to the Nipponbare genome of overlapping contigs of the indica and japonica dispensable genomes. Genomic positions were determined using an integration approach based on alignment and linkage disequilibrium for 7820 indica contigs corresponding to 7689 japonica contigs which were found to have reciprocal coordinate overlap of more than 60 % (identity ≥90 %). (XLS 1582 kb)
DOI: 10.6084/m9.figshare.c.3636791_d15
title: Additional file 11: Table S10. of Exploring the rice dispensable genome using a metagenome-like assembly strategy

description: Sheet 1 shows the transposon annotation results of the indica dispensable genome given by Censor. Sheet 2 is the transposon annotation results of the japonica dispensable genome given by Censor. (XLS 5583Â kb)
DOI: 10.6084/m9.figshare.c.3636791_d13
title: Additional file 8: Table S7.  of Exploring the rice dispensable genome using a metagenome-like assembly strategy

description: The alignment of predicted proteins of the indica dispensable genome to proteins coded by cloned genes of the Nipponbare genome using Blastp. (XLS 33Â kb)
DOI: 10.6084/m9.figshare.c.3636791_d14
title: Additional file 5: Table S4. of Exploring the rice dispensable genome using a metagenome-like assembly strategy

description: PCR validation of 43 DNA fragments from 30 randomly selected contigs. Primer position is the position of a primer in the sequence of the contig. (XLS 19Â kb)
DOI: 10.6084/m9.figshare.c.3636791_d12
title: Additional file 15: Table S13. of Exploring the rice dispensable genome using a metagenome-like assembly strategy

description: Identified chromosome insertion hotspots. (XLS 51Â kb)
DOI: 10.6084/m9.figshare.c.3636791_d11
title: Additional file 21: Table S19. of Exploring the rice dispensable genome using a metagenome-like assembly strategy

description: Pack-MULEs found within the indica dispensable genome. (XLS 15Â kb)
DOI: 10.6084/m9.figshare.c.3636791_d6
title: Additional file 19: Table S17. of Exploring the rice dispensable genome using a metagenome-like assembly strategy

description: Sheet 1 shows the transposon clusters found within the indica dispensable genome. Sheet 2 shows the transposon clusters found within the japonica dispensable genome. The second to sixth columns show the percentage of query coverage of the alignment of the contig to different sequenced Oryza genome. (XLS 323Â kb)
DOI: 10.6084/m9.figshare.c.3636791_d7
title: Additional file 22: Table S20. of Exploring the rice dispensable genome using a metagenome-like assembly strategy

description: Association mapping results of metabolic traits using whole genome SNPs or depth polymorphisms of the dispensable genome. Lead_SNP is the SNP with the most significant association signal for a specific metabolic trait. Chromosome is the chromosome position of Lead_SNP. Position is the chromosome position of Lead_SNP. P value is the association P value for Lead_SNP. Close_DP is the associated depth polymorphism closest to Lead_SNP. Close_DP_P value is the association P value for close_DP. Close_DP_Position is the genomic position of Close_DP relative to the Nipponbare genome. Close_DP_Distance is the distance (kb) between the Lead_SNP and the Close_DP. Lead_CDP is the continuous depth polymorphism with the most significant association signal for a specific metabolic trait. Lead_CDP_P value is the association P value for Lead_CDP. Lead_CDP_Pfam is the Pfam prediction result for Lead_CDP. Lead_BDP is the Boolean depth polymorphism with the most significant association signal for a specific metabolic trait. Lead_BDP_P value is the association P value for Lead_BDP. Lead_BDP_Pfam is the Pfam prediction result for Lead_BDP. (XLS 496Â kb)
DOI: 10.6084/m9.figshare.c.3636791_d5
title: Additional file 9: Table S8. of Exploring the rice dispensable genome using a metagenome-like assembly strategy

description: The Pfam annotation results of the predicted proteins of the indica dispensable genome. See the Pfam website [81] for more details. (XLS 222Â kb)
DOI: 10.6084/m9.figshare.c.3636791_d3
title: Additional file 13: Table S11. of Exploring the rice dispensable genome using a metagenome-like assembly strategy

description: Sheet 1 shows the genomic position relative to the Nipponbare genome for contigs of the indica dispensable genome. Sheet 2 shows the genomic position relative to the Nipponbare genome for contigs of the japonica dispensable genome. (XLS 22307Â kb)
DOI: 10.6084/m9.figshare.c.3636791_d1
title: Additional file 23: Table S21. of Exploring the rice dispensable genome using a metagenome-like assembly strategy

description: The rice accessions were classified into six groups (groups Aâ  F) to do local reassembly for contigs which could not be assigned genomic positions relative to the reference genome. (XLS 86Â kb)