cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.c.3613916_d3
title: Additional file 3: Figure S1. of Association between time of discharge from ICU and hospital mortality: a systematic review and meta-analysis

description: Forest plots of the association between nighttime discharge from the ICU and hospital mortality stratified by geographic region. The size of each square is proportional to the study weight. Open diamonds represent the pooled OR. D + L refers to random effects and I-V to fixed effects. Figure S2. Forest plots of the association between nighttime discharge from the ICU and hospital mortality stratified by study design. The size of each square is proportional to the study weight. Open diamonds represent the pooled OR. D + L refers to random effects and I-V to fixed effects. Figure S3. Forest plots of the association between nighttime discharge from the ICU and hospital mortality stratified by the total discharge number. The size of each square is proportional to the study weight. Open diamonds represent the pooled OR. D + L refers to random effects and I-V to fixed effects. Figure S4. Funnel plots showing the association of nighttime discharge from the ICU with hospital mortality. s.e. refers to standard error, or refers to odds ratio. Figure S5. Funnel plots showing the association of weekend discharge from the ICU with hospital mortality. s.e. refers to standard error, or refers to odds ratio. (ZIP 395 kb)
DOI: 10.6084/m9.figshare.c.3613865_d18
title: Additional file 10: Table S7. of Differential expression profiling of the early response to Ustilaginoidea virens between false smut resistant and susceptible rice varieties

description: Differential expression of phytoalexin synthesis genes in the susceptible variety LYP9 and the resistant variety IR28 at the early infection stages of U. virens (24 hpi and 48 hpi). (XLSX 21 kb)
DOI: 10.6084/m9.figshare.c.3613865_d17
title: Additional file 9: Table S6. of Differential expression profiling of the early response to Ustilaginoidea virens between false smut resistant and susceptible rice varieties

description: Differentially expressed PR genes between IR28 and LYP9 at 24 h and 48 h after U. virens infection. (XLSX 21 kb)
DOI: 10.6084/m9.figshare.c.3613865_d16
title: Additional file 18: Table S12. of Differential expression profiling of the early response to Ustilaginoidea virens between false smut resistant and susceptible rice varieties

description: The primers designed for quantitative real-time RT-PCR. For each gene, the forward (F) and reverse (R) primer sequences were listed. (XLSX 21 kb)
DOI: 10.6084/m9.figshare.c.3613889_d8
title: Additional file 4: Table S2. of Outlier analysis of functional genomic profiles enriches for oncology targets and enables precision medicine

description: The complete list of genes with outlier patterns along with tumor type indication and related predictive biomarker results (sorted by decreasing statistical significance of association), if any. The table indicates for each gene which of the three analysis methods determined it to be associated with an outlier responder pattern. (XLSX 16 kb)
DOI: 10.6084/m9.figshare.c.3613865_d15
title: Additional file 13: Table S9. of Differential expression profiling of the early response to Ustilaginoidea virens between false smut resistant and susceptible rice varieties

description: The conserved motifs that were more abundant in the 5â  -regulatory regions of up-regulated genes compared with down-regulated genes in IR28. (XLSX 21 kb)
DOI: 10.6084/m9.figshare.c.3613889_d6
title: Additional file 3: Table S1. of Outlier analysis of functional genomic profiles enriches for oncology targets and enables precision medicine

description: Tumor type and common subtype classification of Achilles cell lines. (XLSX 16 kb)
DOI: 10.15468/dl.c8hnux
title: Occurrence Download

description: A dataset containing 1697 species occurrences available in GBIF matching the query:
{
 "and" : [
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present",
 "TaxonKey is Clinopodium brownei (Sw.) Kuntze"
 ]
}

 The dataset includes 1697 records from 91 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0032628-241126133413365/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.64uwtw
title: Occurrence Download

description: A dataset containing 352 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Geometry POLYGON((136.50287 -35.69151,136.36224 -36.15337,138.292 -36.22903,138.27638 -35.81198,137.56541 -35.42456,136.50287 -35.69151))",
 "HasGeospatialIssue is false",
 "TaxonKey is Phascolarctos cinereus (Goldfuss, 1817)",
 "Year 2015-2024"
 ]
}

 The dataset includes 352 records from 5 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0032629-241126133413365/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.3613625_d3
title: MOESM3 of UV crosslinked mRNA-binding proteins captured from leaf mesophyll protoplasts

description: Additional file 3: Table S2. GO enrichment analysis for mesophyll protoplast mRNA-bound proteome.
DOI: 10.6084/m9.figshare.c.3613625_d1
title: MOESM2 of UV crosslinked mRNA-binding proteins captured from leaf mesophyll protoplasts

description: Additional file 2: Table S1. Details of mRNA-bound proteome of Arabidopis leaf mesophyll protoplasts.
DOI: 10.6084/m9.figshare.c.3613613_d4
title: Additional file 2: Table S3. of Cell cycle control, DNA damage repair, and apoptosis-related pathways control pre-ameloblasts differentiation during tooth development

description: Expression of selected genes in PABs compared to SABs. (XLS 40Â kb)
DOI: 10.6084/m9.figshare.c.3613613_d3
title: Additional file 3: Table S4 and Table S5. of Cell cycle control, DNA damage repair, and apoptosis-related pathways control pre-ameloblasts differentiation during tooth development

description: Selected connections, including gene symbols of nodes and adjacency, in the brown and blue modules. Table S6 and Table S7: Selected connections with membership measure and gene significance in the brown and blue modules. (XLS 933Â kb)
DOI: 10.6084/m9.figshare.c.3613613_d2
title: Additional file 1: of Cell cycle control, DNA damage repair, and apoptosis-related pathways control pre-ameloblasts differentiation during tooth development

description: Differentially expressed genes between PABs and SABs. Table S1. Genes significantly up-regulated in PABs. Table S2. Genes significantly up-regulated in SABs. (XLS 194Â kb)
DOI: 10.6084/m9.figshare.c.3613130_d2
title: Additional file 1: of Refractive shift of silicone oil tamponade in pseudophakic eye

description: Original data of this study. (XLS 74 kb)
DOI: 10.6084/m9.figshare.c.3613151_d1
title: Additional file 6: Table S3. of Genome-wide analysis of excretory/secretory proteins in Echinococcus multilocularis: insights into functional characteristics of the tapeworm secretome

description: The KEGG pathways found in E. multilocularis predicted ES proteins by KAAS. (XLS 24 kb)
DOI: 10.6084/m9.figshare.c.3613037_d13
title: Additional file 5: Table S5. of Construction of a high-density genetic map by specific locus amplified fragment sequencing (SLAF-seq) and its application to Quantitative Trait Loci (QTL) analysis for boll weight in upland cotton (Gossypium hirsutum.)

description: The genetic position of all the recombination hotspots in the genetic map. (XLSX 34Â kb)
DOI: 10.6084/m9.figshare.c.3613037_d12
title: Additional file 12: Table S10. of Construction of a high-density genetic map by specific locus amplified fragment sequencing (SLAF-seq) and its application to Quantitative Trait Loci (QTL) analysis for boll weight in upland cotton (Gossypium hirsutum.)

description: The KOG annotation result all the candidate genes of the stable QTLs of cotton boll weight. (XLSX 15Â kb)
DOI: 10.6084/m9.figshare.c.3613037_d11
title: Additional file 11: Table S9. of Construction of a high-density genetic map by specific locus amplified fragment sequencing (SLAF-seq) and its application to Quantitative Trait Loci (QTL) analysis for boll weight in upland cotton (Gossypium hirsutum.)

description: The number of the candidate genes and the genes ID in each pathway in the KEGG annotation (XLSX 13Â kb)
DOI: 10.6084/m9.figshare.c.3613037_d10
title: Additional file 13: Table S11. of Construction of a high-density genetic map by specific locus amplified fragment sequencing (SLAF-seq) and its application to Quantitative Trait Loci (QTL) analysis for boll weight in upland cotton (Gossypium hirsutum.)

description: The number of the candidate genes in each function categories of the KOG annotation. (XLSX 11Â kb)
DOI: 10.6084/m9.figshare.c.3613037_d9
title: Additional file 1: Table S1. of Construction of a high-density genetic map by specific locus amplified fragment sequencing (SLAF-seq) and its application to Quantitative Trait Loci (QTL) analysis for boll weight in upland cotton (Gossypium hirsutum.)

description: Distribution of the SNP markersâ   type on the genetic map. (XLSX 9Â kb)
DOI: 10.6084/m9.figshare.c.3613037_d8
title: Additional file 2: Table S2. of Construction of a high-density genetic map by specific locus amplified fragment sequencing (SLAF-seq) and its application to Quantitative Trait Loci (QTL) analysis for boll weight in upland cotton (Gossypium hirsutum.)

description: The markers and their genetic distance in the genetic map. (XLSX 149Â kb)
DOI: 10.6084/m9.figshare.c.3613037_d7
title: Additional file 6: Table S6. of Construction of a high-density genetic map by specific locus amplified fragment sequencing (SLAF-seq) and its application to Quantitative Trait Loci (QTL) analysis for boll weight in upland cotton (Gossypium hirsutum.)

description: All the QTLs identified including the ones that can be detected only in one environment. (XLSX 29Â kb)
DOI: 10.6084/m9.figshare.c.3613037_d6
title: Additional file 10: Table S8. of Construction of a high-density genetic map by specific locus amplified fragment sequencing (SLAF-seq) and its application to Quantitative Trait Loci (QTL) analysis for boll weight in upland cotton (Gossypium hirsutum.)

description: The KEGG annotation result of all the candidate genes of the stable QTLs of cotton boll weight. (XLSX 15Â kb)
DOI: 10.6084/m9.figshare.c.3613037_d5
title: Additional file 3: Table S3. of Construction of a high-density genetic map by specific locus amplified fragment sequencing (SLAF-seq) and its application to Quantitative Trait Loci (QTL) analysis for boll weight in upland cotton (Gossypium hirsutum.)

description: The X2_value and P_value of all the markers in the genetic map. (XLSX 233Â kb)
DOI: 10.6084/m9.figshare.c.3612638_d14
title: Additional file 2: of The similar and different evolutionary trends of MATE family occurred between rice and Arabidopsis thaliana

description: Coding sequence data of the MATE gene family. (TXT 154 kb)
DOI: 10.6084/m9.figshare.c.3612695_d1
title: Additional file 4: File S3. of Mendelian inheritance of trimodal CpG methylation sites suggests distal cis-acting genetic effects

description: Table of eQTL SNPs for trimodal sites with known SNP associations. (TXT 53Â kb)
DOI: 10.6084/m9.figshare.c.3612638_d10
title: Additional file 1: of The similar and different evolutionary trends of MATE family occurred between rice and Arabidopsis thaliana

description: Protein sequence data of the MATE gene family. (TXT 52 kb)
DOI: 10.17632/n5nthvrf3p.1
title: ASGR1 Is a Promising Target for Lipid Reduction in Pigs with PON2 As Its Inhibitor. Yin et al.

description: The western blotting data required for the reversion of ISCIENCE-D-24-02255R2.
DOI: 10.17632/rfb2rt3w47.1
title: Human promoter directionality is determined by transcriptional initiation and the opposing activities of INTS11 and CDK9

description: Uncropped blots for the publication "Human promoter directionality is determined by transcriptional initiation and the opposing activities of INTS11 and CDK9"
DOI: 10.6084/m9.figshare.c.3612434_d9
title: Additional file 6: of Genome-wide analysis of the basic leucine zipper (bZIP) transcription factor gene family in six legume genomes

description: The detailed information of additional conserved motifs in bZIP proteins as predicted by MEME. (XLS 176Â kb)
DOI: 10.6084/m9.figshare.c.3612434_d3
title: Additional file 11: of Genome-wide analysis of the basic leucine zipper (bZIP) transcription factor gene family in six legume genomes

description: bZIP genes present on duplicated chromosomal segments. (XLS 68Â kb)
DOI: 10.6084/m9.figshare.c.3612434_d1
title: Additional file 1: of Genome-wide analysis of the basic leucine zipper (bZIP) transcription factor gene family in six legume genomes

description: The identified legume bZIP proteins and their related information. (XLS 173Â kb)
DOI: 10.6084/m9.figshare.c.3612377_d7
title: Additional file 5: Table S5. of A quantitative transcriptomic analysis of the physiological significance of mTOR signaling in goat fetal fibroblasts

description: KEGG pathway enrichment analysis of DEGs. (XLS 38 kb)
DOI: 10.6084/m9.figshare.c.3612377_d6
title: Additional file 4: Table S4. of A quantitative transcriptomic analysis of the physiological significance of mTOR signaling in goat fetal fibroblasts

description: Gene Ontology functional classification of DEGs. (XLS 98 kb)
DOI: 10.6084/m9.figshare.c.3612377_d5
title: Additional file 3: Table S3. of A quantitative transcriptomic analysis of the physiological significance of mTOR signaling in goat fetal fibroblasts

description: Gene Ontology enrichment analysis of DEGs. (XLS 611 kb)
DOI: 10.6084/m9.figshare.c.3612377_d4
title: Additional file 1: Table S1. of A quantitative transcriptomic analysis of the physiological significance of mTOR signaling in goat fetal fibroblasts

description: Primers used in validation of DEGs. (XLSX 12 kb)
DOI: 10.6084/m9.figshare.c.3612119_d3
title: Additional file 1: Table S1. of Transcriptomic analysis of mouse liver reveals a potential hepato-enteric pathogenic mechanism in acute Toxoplasma gondii infection

description: Differentially expressed transcripts. (XLSX 688Â kb)
DOI: 10.6084/m9.figshare.c.3612119_d2
title: Additional file 5: Table S5. of Transcriptomic analysis of mouse liver reveals a potential hepato-enteric pathogenic mechanism in acute Toxoplasma gondii infection

description: Interaction between chemicals and differentially expressed genes involved in xenobiotics or drugs metabolism. (XLSX 188Â kb)
DOI: 10.6084/m9.figshare.c.3612119_d1
title: Additional file 2: Table S2. of Transcriptomic analysis of mouse liver reveals a potential hepato-enteric pathogenic mechanism in acute Toxoplasma gondii infection

description: Differentially expressed biological processes. (XLSX 188Â kb)
DOI: 10.21227/y1ya-vt15
title: MTOF: A Novel FPGA-Based EMT Toolbox in MATLAB

description: Field programmable gate array (FPGA) is becoming an attractive solution for real-time electromagnetic transient (EMT) simulations. FPGA-based EMT simulation uses thousands of lines of code and sophisticated architecture to satisfy executable requirements ranging from the low-level analog signal to the advanced EMT mathematics. The coding would place a tremendous burden on beginners to take at least 6 months. To provide more straightforward solutions, this paper develops the MATLAB-to-FPGA EMT toolbox (MTOF) in the computational engine frame of MATLAB. Based on Input Data, MTOF under a user-friendly MATLAB environment can generate transparent FPGA-based code while complex programming under FPGA can be avoided. This brings a dramatic coding simplification and results in significant savings of programming time. MTOF includes automatic calculation sequence, resource utilization, and initialization.  For high accuracy, MTOF performs the Floating-Point arithmetic of EMT models with more readable data formats (e.g. memory unit) on FPGA. To improve computational efficiency, ready-to-run architecture is presented to automate code generation quickly. MTOF can generate FPGA code files within 50 s and 300 s for the 4-machine 11-bus and 10-machine 39-bus systems, respectively. To verify the effectiveness of the generated FPGA code generated by MTOF, simulations are demonstrated on the two systems using a single FPGA board with high accuracy.
DOI: 10.6084/m9.figshare.c.3612017_d2
title: Additional file 1: of DIVAN: accurate identification of non-coding disease-specific risk variants using multi-omics profiles

description: Supplementary Tables S1â  S23. Supplementary tables with legends in the first sheet called â  Supplementary Tables Legends.â   (XLSX 93 kb)
DOI: 10.6084/m9.figshare.c.3611990_d1
title: Additional file 2: of Extreme genomic erosion after recurrent demographic bottlenecks in the highly endangered Iberian lynx

description: Supplemental datasheets. Datasheet S1: Summary of the annotation of the human and felid degradomes. Datasheet S2: List of orphan genes with expression levels in different organs. Datasheet S3: List of potential chromosomal rearrangements with respect to domestic cat. Datasheet S4: Gene Ontology terms enriched in proteins that duplicated at specific points in the lynx, cat, and tiger phylogeny. Datasheet S5: List of putative pseudogenes. Datasheet S6: Partitions identified by Saguaro as yielding alternative topologies from a whole genome alignment of Felidae. Datasheet S7: List of genes with signatures of positive selection. Datasheet S8: List of Gene Ontology terms significantly enriched in windows of high and low diversity in Iberian lynx populations or of high of low difference with respect to Eurasian. (XLSX 340 kb)
DOI: 10.6084/m9.figshare.c.3611879_d26
title: Additional file 17 of The Local Edge Machine: inference of dynamic models of gene regulation

description: Table: Ranking of candidate circadian regulators. We used LEM to discover new potential regulators of circadian core nodes (see Additional file 16) by first selecting the top periodic gene sets from 12 mouse organs (see Additional file 1: Section 12) and then using LEM to identify genes that appear likely to regulate core elements in multiple organs. We obtained a final list of 354 candidate genes (333 top potential regulators plus the 21 core nodes that do appear in the set of 333), of which 205 were either in the set of 31 known core genes or passed the JTK_CYCLE periodicity cutoff of 0.1 for the mouse liver dataset. This table lists the 205 gene common names (column 1), mouse genome database IDs (column 6), and microarray probe IDs (column 5). Additionally, the table marks core nodes with an â  xâ   (column 7) and provides the JTK_CYCLE periodicity p value (column 11). Next, we ran full LEM with 205 nodes using mouse liver data. For each of the 205 candidates, we extracted the maximum LEM probability score for any core element targeting each candidate (column 2) and the maximum score for each candidate regulating any core node (column 3). The candidate list is ranked by the product of these two probabilities (column 4). Finally, we compared our candidate list to a compilation of genes with known circadian function (column 7), reviewed by Zhang et al. [12]. (TXT 20 kb)
DOI: 10.6084/m9.figshare.c.3611879_d22
title: Additional file 8 of The Local Edge Machine: inference of dynamic models of gene regulation

description: Table: Compilation of literature that supports regulatory interactions in yeast cell-cycle networks 1â  5. Numbers in the first column match literature citations from Additional files 2 and 3. Each number corresponds to a different study that provides experimental evidence for a regulatory interaction. ChIP studies provide binding evidence for a TF to a target gene promoter. Genetic studies provide directional evidence for how a TF influences the expression of a target gene. Phosphorylation and other proteinâ  protein interaction studies provide evidence for how kinases regulate TF activity, localization, and/or binding affinity. (XLSX 40 kb)
DOI: 10.6084/m9.figshare.c.3611705_d1
title: Additional file 1: of Simulating cryo electron tomograms of crowded cell cytoplasm for assessment of automated particle picking

description: The benchmark set of macromolecular complexes. The PDB ID, PDB name, molecular weights, minimum bounding sphere radius, occurrence frequencies and copy numbers for each crowding level of the macromolecular complexes used in this study. (XLSX 10Â kb)
DOI: 10.6084/m9.figshare.c.3611657_d4
title: MOESM2 of Identification of novel HIV-1 dependency factors in primary CCR4+CCR6+Th17 cells via a genome-wide transcriptional approach

description: Additional file 2: Table S2. The complete list of genes down regulated in Th17 versus Th1 subsets are included and classified based on p-values
DOI: 10.6084/m9.figshare.c.3611657_d5
title: MOESM4 of Identification of novel HIV-1 dependency factors in primary CCR4+CCR6+Th17 cells via a genome-wide transcriptional approach

description: Additional file 4: Table S3. The complete list of canonical pathways differentially expressed in Th17 versus Th1 subsets were identified using GSVA and classified based on adj. p-values
DOI: 10.6084/m9.figshare.c.3611657_d3
title: MOESM1 of Identification of novel HIV-1 dependency factors in primary CCR4+CCR6+Th17 cells via a genome-wide transcriptional approach

description: Additional file 1: Table S1. The complete list of genes up regulated in Th17 versus Th1 subsets are included and classified based on p-values
DOI: 10.6084/m9.figshare.c.3611162_d12
title: Additional file 3: Table S3. of Transcriptomic analysis of differentially expressed genes in the floral transition of the summer flowering chrysanthemum

description: Homologs of genes from other species known to be involved in the regulation of flowering time. (XLSX 12Â kb)
DOI: 10.6084/m9.figshare.c.3611162_d11
title: Additional file 12: Table S2. of Transcriptomic analysis of differentially expressed genes in the floral transition of the summer flowering chrysanthemum

description: Transcription behavior of unigenes encoding C3H, Dof, GATA, GRAS, bHLH, BBX, bZIP, WRKY, MYB and MADS transcription factors. (XLSX 39Â kb)
DOI: 10.6084/m9.figshare.c.3611162_d10
title: Additional file 2: Table S2. of Transcriptomic analysis of differentially expressed genes in the floral transition of the summer flowering chrysanthemum

description: The representation of transcription factors in the set of Unigenes. (XLSX 10Â kb)
DOI: 10.6084/m9.figshare.c.3611162_d9
title: Additional file 6: Table S6. of Transcriptomic analysis of differentially expressed genes in the floral transition of the summer flowering chrysanthemum

description: Genes differentially transcribed in the comparison in the comparison CK vs L1. Criteria as given in Additional file 4: Table S4. (XLS 1282Â kb)
DOI: 10.6084/m9.figshare.c.3611162_d8
title: Additional file 9: Table S9. of Transcriptomic analysis of differentially expressed genes in the floral transition of the summer flowering chrysanthemum

description: Genes differentially transcribed in the comparison in the comparison L1 vs S1. Criteria as given in Additional file 4: Table S4. (XLS 333Â kb)
DOI: 10.6084/m9.figshare.c.3611162_d7
title: Additional file 8: Table S8. of Transcriptomic analysis of differentially expressed genes in the floral transition of the summer flowering chrysanthemum

description: Genes differentially transcribed in the comparison in the comparison CK vs L3. Criteria as given in Additional file 4: Table S4. (XLS 1026Â kb)
DOI: 10.6084/m9.figshare.c.3611162_d6
title: Additional file 7: Table S7. of Transcriptomic analysis of differentially expressed genes in the floral transition of the summer flowering chrysanthemum

description: Genes differentially transcribed in the comparison in the comparison CK vs L2. Criteria as given in Additional file 4: Table S4. (XLS 3076Â kb)