cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.c.3646265_d6
title: Additional file 2: of Evaluation of methods for differential expression analysis on multi-group RNA-seq count data

description: Results for simulation data with replicates (mainly Nrep = 6 and 9). Average AUC values (%) of 100 trials are shown for a total of 12 pipelines for three-group simulation data, where each group has six (Nrep = 6; Sheet 1) and nine (Nrep = 9; Sheet 2) BRs. Sheet 3: Average partial AUC values (%) of 20 trials with (1 - specificity)
DOI: 10.6084/m9.figshare.c.3646265_d5
title: Additional file 3: of Evaluation of methods for differential expression analysis on multi-group RNA-seq count data

description: R code for obtaining simulation results with replicates (Table  2 ). After execution of this R-code with default parameter settings, the average AUC values of 100 trials under the following conditions shown in Table 2 can be obtained: PDEG = 5 %, (0.5, 0.4, 0.1) for (PG1, PG2, PG3), and Nrep = 3. (R 4 kb)
DOI: 10.6084/m9.figshare.c.3646265_d4
title: Additional file 1: of Evaluation of methods for differential expression analysis on multi-group RNA-seq count data

description: R code for obtaining simulation results with replicates (Table  1 ). After execution of this R-code with default parameter settings, the average AUC values of 100 trials under the following conditions shown in Table 1 can be obtained: PDEG = 5 %, (0.5, 0.4, 0.1) for (PG1, PG2, PG3), and Nrep = 3. The results in Additional file 2 can also be obtained by changing the parameter Nrep to be 6 or 9. (R 12 kb)
DOI: 10.5281/zenodo.14419382
title: FEATURES OF DEVELOPMENT OF COGNITIVE DYSFUNCTION IN DISCIRCULATORY ENCEPHALOPATHY DIFFERENT DEGREE.
DOI: 10.5281/zenodo.14419383
title: FEATURES OF DEVELOPMENT OF COGNITIVE DYSFUNCTION IN DISCIRCULATORY ENCEPHALOPATHY DIFFERENT DEGREE.
DOI: 10.6084/m9.figshare.c.3646265_d2
title: Additional file 5: of Evaluation of methods for differential expression analysis on multi-group RNA-seq count data

description: R code for obtaining results of Blekhmanâ  s count data. After execution of this R-code, full results of real data analysis can be obtained. (R 21 kb)
DOI: 10.6084/m9.figshare.c.3646265_d1
title: Additional file 9: of Evaluation of methods for differential expression analysis on multi-group RNA-seq count data

description: Classification of expression patterns for DEGs (based on EBSeq). EBSeq defines a total of five possible patterns (Patterns 1 ~ 5). DEGs (satisfying 5 % FDR threshold) identified by individual pipelines were assigned to one of the five possible patterns. (XLSX 11 kb)
DOI: 10.6084/m9.figshare.c.3646256_d2
title: Additional file 1: Table S1. of Identification of a stable major-effect QTL (Parth 2.1) controlling parthenocarpy in cucumber and associated candidate gene analysis via whole genome re-sequencing

description: Analysis of variances (ANOVA) for parthenocarpy in F2:3 from two-season experiments Table S2. Information of SSR and InDel markers mapped on the EC1 × 8419 s-1 F2 genetic map and high-resolution map. Table S3. Statistics of genetic map constructed in this study. Table S4. Information of 21 inbred lines of cucumber. Table S5. Information of total reads, re-sequencing data quality and sequence variations of EC1 and 8419 s-1. Table S6. List of 57 candidate genes within the main-effect QTL Parth2.1 region. Table S7. Annotations and fold values of DEG within Parth2.1 and primers used for qRT-PCR. (XLS 269 kb)
DOI: 10.6084/m9.figshare.c.3646238_d7
title: Additional file 1: Table S1. of Evidence for L1-associated DNA rearrangements and negligible L1 retrotransposition in glioblastoma multiforme

description: RC-seq output summary. Table S2. Polymorphic and somatic L1 mutations called by TEBreak. Table S3. List of somatic L1 mutations and PCR validation information. Table S4. GBM cell line transfection efficiencies. Table S5. Summary of point mutations and CNVs detected from WGS (XLSX 335 kb)
DOI: 10.15468/dl.zxs4yp
title: Occurrence Download

description: A dataset containing 315 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Saurida elongata (Temminck & Schlegel, 1846)",
 "Geometry POLYGON((170 20, 170 50, 120 50, 120 20, 170 20))",
 "HasCoordinate is true"
 ]
}

 The dataset includes 315 records from 19 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0032087-241126133413365/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.3646172_d5
title: Additional file 6: of Occurrence, diversity and community structure of culturable atrazine degraders in industrial and agricultural soils exposed to the herbicide in Shandong Province, P.R. China

description: Nucleotide sequences of short gene fragments. (TXT 1007 bytes)
DOI: 10.6084/m9.figshare.c.3646100_d3
title: Additional file 2: Figure S1. of HDAC6 activity is a non-oncogene addiction hub for inflammatory breast cancers

description: Quality control studies of the shRNA screens. a Representative image showing the Pearson and Spearman correlation among the triplicates for T = 10 in the SUM149 cell line. b GO-term and KEGG-pathway analyses using genes commonly depleted in several cell lines (p &lt;0.05 in &gt;=3 cell lines, 2,555 genes) show enrichment of genes related to essential functions. c Essential genes depleted in our shRNA screen cell lines overlapped significantly with compiled screens across 72 cell lines and subtypes of cancer (Fisherâ  s exact test). (EPS 3172 kb)
DOI: 10.6084/m9.figshare.c.3645926_d1
title: Additional file 1: of Dark adaptation in relation to choroidal thickness in healthy young subjects: a cross-sectional, observational study

description: Raw data, containing the raw data sheet that was used for the statistical analyses. (XLS 32 kb)
DOI: 10.6084/m9.figshare.c.3645818_d4
title: MOESM2 of Venlafaxine ameliorates the depression-like behaviors and hippocampal S100B expression in a rat depression model

description: Additional file 2. The data of body weight.
DOI: 10.6084/m9.figshare.c.3645818_d3
title: MOESM4 of Venlafaxine ameliorates the depression-like behaviors and hippocampal S100B expression in a rat depression model

description: Additional file 4. The data of open-field test.
DOI: 10.6084/m9.figshare.c.3645818_d1
title: MOESM3 of Venlafaxine ameliorates the depression-like behaviors and hippocampal S100B expression in a rat depression model

description: Additional file 3. The data of sucrose preference.
DOI: 10.6084/m9.figshare.c.3645818_d2
title: MOESM1 of Venlafaxine ameliorates the depression-like behaviors and hippocampal S100B expression in a rat depression model

description: Additional file 1. The data of S100B protein and mRNA.
DOI: 10.15468/dl.2y5kww
title: Occurrence Download

description: A dataset containing 0 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Aulopus elongatus Temminck & Schlegel, 1846",
 "Geometry POLYGON((170 20, 170 50, 120 50, 120 20, 170 20))",
 "HasCoordinate is true"
 ]
}

 The dataset includes 0 records from 0 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0032088-241126133413365/datasets/export for details.
DOI: 10.6084/m9.figshare.c.3645800_d1
title: Additional file 2: of Functional opsin retrogene in nocturnal moth

description: Alignment of sequences used in this study. (PHY 100 kb)
DOI: 10.6084/m9.figshare.c.3645794_d4
title: Additional file 4: of A considerable proportion of CRF01_AE strains in China originated from circulating intrasubtype recombinant forms (CIRF)

description: Risk factors and sampling cities and provinces of sequences in clusters Iâ  III. (XLSX 12Â kb)
DOI: 10.5281/zenodo.13951530
title: Expression Pattern and Potential Functional Sites Analysis of ALOX12B Gene in Sheep Horn
DOI: 10.5281/zenodo.13951531
title: Expression Pattern and Potential Functional Sites Analysis of ALOX12B Gene in Sheep Horn
DOI: 10.5281/zenodo.14419393
title: Expression Pattern and Potential Functional Sites Analysis of ALOX12B Gene in Sheep Horn
DOI: 10.6084/m9.figshare.c.3645494_d11
title: Additional file 10: Table S7. of Construction of high-resolution genetic maps of Zoysia matrella (L.) Merrill and applications to comparative genomic analysis and QTL mapping of resistance to fall armyworm

description: Syntenic relationship of Diamond linkage groups and sorghum chromosomes. (XLS 137 kb)
DOI: 10.6084/m9.figshare.c.3645494_d8
title: Additional file 9: Table S6. of Construction of high-resolution genetic maps of Zoysia matrella (L.) Merrill and applications to comparative genomic analysis and QTL mapping of resistance to fall armyworm

description: Syntenic relationship of Cavalier linkage groups and sorghum chromosomes. (XLS 202 kb)
DOI: 10.6084/m9.figshare.c.3645494_d9
title: Additional file 2: Table S1. of Construction of high-resolution genetic maps of Zoysia matrella (L.) Merrill and applications to comparative genomic analysis and QTL mapping of resistance to fall armyworm

description: Summary of RADSeq. Sample name, barcode, number of reads each individual of the mapping population are listed. (XLSX 17 kb)
DOI: 10.6084/m9.figshare.c.3645494_d7
title: Additional file 8: Table S5. of Construction of high-resolution genetic maps of Zoysia matrella (L.) Merrill and applications to comparative genomic analysis and QTL mapping of resistance to fall armyworm

description: Syntenic relationship of Cavalier linkage groups and rice chromosomes. (XLS 177 kb)
DOI: 10.6084/m9.figshare.c.3645494_d6
title: Additional file 4: Table S2. of Construction of high-resolution genetic maps of Zoysia matrella (L.) Merrill and applications to comparative genomic analysis and QTL mapping of resistance to fall armyworm

description: Sequences of RAD tags mapped on Diamond linkage groups (LG). (XLSX 187 kb)
DOI: 10.6084/m9.figshare.c.3645494_d4
title: Additional file 7: Table S4. of Construction of high-resolution genetic maps of Zoysia matrella (L.) Merrill and applications to comparative genomic analysis and QTL mapping of resistance to fall armyworm

description: Syntenic relationship of Diamond linkage groups and rice chromosomes. (XLS 119 kb)
DOI: 10.6084/m9.figshare.c.3645494_d3
title: Additional file 6: Table S3. of Construction of high-resolution genetic maps of Zoysia matrella (L.) Merrill and applications to comparative genomic analysis and QTL mapping of resistance to fall armyworm

description: Sequences of RAD tags mapped on Cavalier linkage groups (LG). (XLS 729 kb)
DOI: 10.6084/m9.figshare.c.3645455_d9
title: MOESM7 of Identification of activated enhancers and linked transcription factors in breast, prostate, and kidney tumors by tracing enhancer networks using epigenetic traits

description: Additional file 7: Table S6. List of the most statistically significantly differentially expressed genes after siRNA experiments for HOXC6 and DLX1.
DOI: 10.6084/m9.figshare.c.3645455_d7
title: MOESM2 of Identification of activated enhancers and linked transcription factors in breast, prostate, and kidney tumors by tracing enhancer networks using epigenetic traits

description: Additional file 2: Table S1. Next generation sequencing data used for analyses.
DOI: 10.6084/m9.figshare.c.3645455_d8
title: MOESM3 of Identification of activated enhancers and linked transcription factors in breast, prostate, and kidney tumors by tracing enhancer networks using epigenetic traits

description: Additional file 3: Table S2. TENET parameter settings used for BRCA, PRAD, and KIRC.
DOI: 10.6084/m9.figshare.c.3645455_d6
title: MOESM6 of Identification of activated enhancers and linked transcription factors in breast, prostate, and kidney tumors by tracing enhancer networks using epigenetic traits

description: Additional file 6: Table S5. List of TFs found from TENET ET:G+ links for BRCA, PRAD, and KIRC.
DOI: 10.15468/dl.xxsupz
title: Occurrence Download

description: A dataset containing 64 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Squalus japonicus Ishikawa, 1908",
 "Geometry POLYGON((170 20, 170 50, 120 50, 120 20, 170 20))",
 "HasCoordinate is true"
 ]
}

 The dataset includes 64 records from 12 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0032089-241126133413365/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.3645341_d11
title: Additional file 4: File S2. of A comprehensive next generation sequencing-based virome assessment in brain tissue suggests no major virus - tumor association

description: HCMV analysis. (XLSX 28Â kb)
DOI: 10.6084/m9.figshare.c.3645341_d9
title: Additional file 9: File S6 of A comprehensive next generation sequencing-based virome assessment in brain tissue suggests no major virus - tumor association

description: Viral Blast analysis. (XLS 110Â kb)
DOI: 10.6084/m9.figshare.c.3645341_d7
title: Additional file 10: File S7 of A comprehensive next generation sequencing-based virome assessment in brain tissue suggests no major virus - tumor association

description: WGS meningioma. (XLS 61Â kb)
DOI: 10.6084/m9.figshare.c.3645341_d6
title: Additional file 3: File S1. of A comprehensive next generation sequencing-based virome assessment in brain tissue suggests no major virus - tumor association

description: TCGA GBM RNA. (XLS 374Â kb)
DOI: 10.6084/m9.figshare.c.3645341_d4
title: Additional file 7: File S4 of A comprehensive next generation sequencing-based virome assessment in brain tissue suggests no major virus - tumor association

description: TCGA LGG RNA. (XLSX 546Â kb)
DOI: 10.6084/m9.figshare.c.3645341_d5
title: Additional file 8: File S5 of A comprehensive next generation sequencing-based virome assessment in brain tissue suggests no major virus - tumor association

description: TCGA GBM DNA. (XLS 2545Â kb)
DOI: 10.6084/m9.figshare.c.3645341_d3
title: Additional file 6: File S3 of A comprehensive next generation sequencing-based virome assessment in brain tissue suggests no major virus - tumor association

description: Other studies. (XLS 3154Â kb)
DOI: 10.6084/m9.figshare.c.3645341_d2
title: Additional file 11: File S8 of A comprehensive next generation sequencing-based virome assessment in brain tissue suggests no major virus - tumor association

description: LGG clinical data. (XLSX 38Â kb)
DOI: 10.6084/m9.figshare.c.3645278_d1
title: Additional file 2: Table S9. of A Bayesian model for detection of high-order interactions among genetic variants in genome-wide association studies

description: QTL regions related to protein/oil contents (XLSX 19 kb)
DOI: 10.6084/m9.figshare.c.3645137_d12
title: Additional file 4: Table S2. of Integrated analysis of miRNA and mRNA expression profiles in tilapia gonads at an early stage of sex differentiation

description: Sequence and expression profiles of known miRNAs in the ovary and testis of tilapia. (XLS 1613 kb)
DOI: 10.6084/m9.figshare.c.3645137_d11
title: Additional file 11: Table S6. of Integrated analysis of miRNA and mRNA expression profiles in tilapia gonads at an early stage of sex differentiation

description: miRNAs and mRNAs in the steroid hormone biosynthesis pathway and involved in early sex differentiation. (XLS 29 kb)
DOI: 10.6084/m9.figshare.c.3645137_d6
title: Additional file 8: Table S4. of Integrated analysis of miRNA and mRNA expression profiles in tilapia gonads at an early stage of sex differentiation

description: Predicted targets of female upregulated miRNAs validated by mRNA sequencing. (XLS 1765 kb)
DOI: 10.6084/m9.figshare.c.3645137_d4
title: Additional file 9: Table S5. of Integrated analysis of miRNA and mRNA expression profiles in tilapia gonads at an early stage of sex differentiation

description: Predicted targets of male upregulated miRNAs validated by mRNA sequencing. (XLS 2205 kb)
DOI: 10.6084/m9.figshare.c.3645137_d3
title: Additional file 7: Table S3. of Integrated analysis of miRNA and mRNA expression profiles in tilapia gonads at an early stage of sex differentiation

description: Sequence and expression profiles of novel miRNAs with in the ovary and testis of tilapia. (XLS 45 kb)
DOI: 10.6084/m9.figshare.c.3645137_d2
title: Additional file 1: Table S1. of Integrated analysis of miRNA and mRNA expression profiles in tilapia gonads at an early stage of sex differentiation

description: Sequence of identified 279 conserved pre-miRNA genes in tilapia genome. (XLS 66 kb)
DOI: 10.6084/m9.figshare.c.3645119_d2
title: Additional file 2: of Surveillance and response systems for elimination of tropical diseases: summary of a thematic series in Infectious Diseases of Poverty

description: List of the 22 articles in the thematic issue of Infectious Diseases of Poverty pertaining to surveillance-response systems that might lead to elimination of tropical diseases. (XLSX 158 kb)
DOI: 10.6084/m9.figshare.c.3645071_d1
title: Additional file 1: of Interocular anatomical and visual functional differences in pediatric patients with unilateral cataracts

description: Raw data. (XLSX 13 kb)
DOI: 10.15468/5x7dwu
title: EMBRAPA FLORESTAS | Soil macrofauna communities in an integrated production system experiment at the Canguiri Farm in Pinhais, Paraná, Brazil

description: Soil macrofauna communities were evaluated in September 2016 in an experiment evaluating integrated agricultural production systems located at the Canguiri Farm of the Federal University of Paraná in Pinhais, Paraná, Brazil. Samples were taken in four land use systems: 1) an agrosilvopastoral system with rows of Eucalyptus benthamii and maize cropping in the summer and black oats in the winter, followed by three years of Panicum maximum pasture grasses in the interrow; 2) an agropastoral system with maize cropping in the summer and black oats in the winter, followed by three years of Panicum maximum pasture grasses in the interrow; 3) a permanent pasture Panicum maximum; and 4) annual cropping of maize in the summer and black oats in the winter. Each of these systems was replicated 3 times, and three samples were taken in each plot. Samples were taken using the standard methodology of the Tropical Soil Biology and Fertility Programme (TSBF), where soil (down to 20 cm depth) and litter fauna were hand-sorted from monoliths of 25x25 cm, and the abundance of a total of 42 taxa was assessed.
DOI: 10.15468/dl.efwdjp
title: Occurrence Download

description: A dataset containing 35 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Myoxocephalus polyacanthocephalus (Pallas, 1814)",
 "Geometry POLYGON((170 20, 170 50, 120 50, 120 20, 170 20))",
 "HasCoordinate is true"
 ]
}

 The dataset includes 35 records from 10 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0032090-241126133413365/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.3644798_d2
title: Additional file 2: of Identification of miRNAs and their targets by high-throughput sequencing and degradome analysis in cytoplasmic male-sterile line NJCMS1A and its maintainer NJCMS1B of soybean

description: Figure S1. Known miRNA distribution in NJCMS1A and NJCMS1B. Figure S2. Family member distribution in conserved miRNA families in NJCMS1A and NJCMS1B. Figure S3. Predicted secondary structures of novel miRNAs on the other arm of known pre-miRNAs. Figure S4. Predicted secondary structures of new miRNA members. Figure S5. Predicted secondary structures of novel miRNAs. Figure S6. Predicted secondary structures of high-confidence miRNAs. Figure S7. GO analysis of miRNA targets. Figure S8. Expression levels of miRNA targets in NJCMS1A and NJCMS1B. (ZIP 4771Â kb)
DOI: 10.6084/m9.figshare.c.3644798_d1
title: Additional file 1: of Identification of miRNAs and their targets by high-throughput sequencing and degradome analysis in cytoplasmic male-sterile line NJCMS1A and its maintainer NJCMS1B of soybean

description: Table S1. Summary of small RNA annotations from NJCMS1A and NJCMS1B. Table S2. Known miRNAs identified in NJCMS1A and NJCMS1B. Table S3. Family member distribution in conserved miRNA families. Table S4. Summary of miRNA families found in NJCMS1A and NJCMS1B. Table S5. Novel miRNAs on the other arm of known pre-miRNAs. Table S6. Novel miRNAs identified in NJCMS1A and NJCMS1B. Table S7-1. High-confidence known miRNAs identified in NJCMS1A and NJCMS1B. Table S7-2. High-confidence novel miRNAs identified in NJCMS1A and NJCMS1B. Table S8-1. The up-regulated miRNAs identified in NJCMS1A and NJCMS1B. Table S8-2. The down-regulated miRNAs identified in NJCMS1A and NJCMS1B. Table S9. The targets of miRNAs identified in NJCMS1A and NJCMS1B. Table S10. Targets of novel miRNAs in NJCMS1A and NJCMS1B. Table S11. Primers used in this study. (ZIP 637Â kb)
DOI: 10.15468/rmfcj7
title: EMBRAPA FLORESTAS | Soil macrofauna communities in an organic agroforestry system and under initial native vegetation regeneration at the Assentamento Contestado in Lapa, Paraná, Brazil

description: Soil macrofauna communities were evaluated in an organic agroforestry production system and in initial native vegetation regeneration at an area managed and owned by the Assentamento Contestado, in Lapa, Paraná, Brazil. Sampling was performed in April 2016 in three areas with agroforestry systems including various vegetables, pasture grasses and orchard trees like figs, peaches, pears, apples, pecans, and persimmons. Samples were taken using the standard methodology of the Tropical Soil Biology and Fertility Programme (TSBF), where soil (down to 20 cm depth) and litter fauna were hand-sorted from monoliths of 25x25 cm, and the abundance of a total of 42 taxa was assessed.
DOI: 10.6084/m9.figshare.c.3644432_d1
title: Additional file 4: Figure S3. of Salinomycin inhibits metastatic colorectal cancer growth and interferes with Wnt/β-catenin signaling in CD133+ human colorectal cancer cells

description: Combined treatment with Salinomycin and 5-FU reduces migration and invasion of murine CRC cells and induces necrotic cell death. To visualize tumor cell migration 0.5 × 106 MC38 (A) and CT26 (B) cells were cultured in 6-well plates until confluence. A scratch was created in the middle of the monolayer and cells were treated with Salinomycin (1 μM, 2 μM, 5 μM and 10 μM) and 1 μM 5-FU. Cell migration was assessed by phase-contrast microscopy and images were captured at the beginning of treatment and after 24 and 48 h at a magnification of 100. The open wound area after 48 h in cultured MC38 (C) and CT26 cells (D) was calculated and displayed as a summary of 3 independent experiments as mean ± SD; ** p
DOI: 10.6084/m9.figshare.c.3644402_d4
title: Additional file 5: Table S4. of Integrated analysis of microRNA regulatory network in nasopharyngeal carcinoma with deep sequencing

description: T-test results of differentially expressed miRNAs. (XLSX 10 kb)
DOI: 10.6084/m9.figshare.c.3644402_d5
title: Additional file 1: Table S1. of Integrated analysis of microRNA regulatory network in nasopharyngeal carcinoma with deep sequencing

description: The genes targeted by downregulated miRNAs. Table S2. The genes targeted by upregulated miRNAs. (XLS 113 kb)
DOI: 10.6084/m9.figshare.c.3644402_d2
title: Additional file 4: Table S3. of Integrated analysis of microRNA regulatory network in nasopharyngeal carcinoma with deep sequencing

description: miRNA expression matrix. (XLSX 119 kb)
DOI: 10.15468/dl.rfwc64
title: Occurrence Download

description: A dataset containing 0 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Cottus polyacanthocephalus Pallas, 1814",
 "Geometry POLYGON((170 20, 170 50, 120 50, 120 20, 170 20))",
 "HasCoordinate is true"
 ]
}

 The dataset includes 0 records from 0 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0032091-241126133413365/datasets/export for details.