cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.c.3616667_d6.v1
title: Additional file 3: Table S2. of 
                     De novo comparative transcriptome analysis provides new insights into sucrose induced somatic embryogenesis in camphor tree (Cinnamomum camphora L.)

description: Length and number distribution of the unigenes. (XLSX 10 kb)
DOI: 10.6084/m9.figshare.c.3615902_d4.v1
title: Additional file 3: Table S2. of Comparative proteomic analyses of Asian cotton ovules with attached fibers in the early stages of fiber elongation process

description: Information of the identified 55 DDP spots. (XLSX 16 kb)
DOI: 10.6084/m9.figshare.c.3615902_d1.v1
title: Additional file 2: Table S1. of Comparative proteomic analyses of Asian cotton ovules with attached fibers in the early stages of fiber elongation process

description: Relative abundance of the 55 DDP spots. (XLSX 19 kb)
DOI: 10.6084/m9.figshare.c.3615011_d8.v1
title: Additional file 3: Table S2. of Synteny analysis in Rosids with a walnut physical map reveals slow genome evolution in long-lived woody perennials

description: Excel spreadsheet listing all 1,031 BAC contigs including the nested BAC contigs that were removed from the physical map to generate a non-redundant physical map. (XLSX 57.6 kb)
DOI: 10.6084/m9.figshare.c.3615011_d7.v1
title: Additional file 4: Table S3. of Synteny analysis in Rosids with a walnut physical map reveals slow genome evolution in long-lived woody perennials

description: Excel file listing the locations of 15,203 cdBES on the physical map, their annotation, and synteny of the 16 Jr physical maps with the Vv, Pt, Md, Mt, Cs, and Fv pseudomolecules. The table shows the coordinates on the respective pseudomolecules for Vv, Pt, Md, Mt, Cs, and Fv genes with the lowest (in the columns designated .1) and second-lowest if obtained (in the columns designated .2) E-value. We colored cells with collinear genes with any color except for white or green. We used different colors to distinguish neighboring SBs from each other. We used white cell color to indicate non-collinear genes and green cell color to indicate collinear genes with the second-lowest E-value. (XLSX 7.26 mb)
DOI: 10.6084/m9.figshare.c.3615032_d2.v1
title: Additional file 5: of High-throughput sequencing of RNAs isolated by cross-linking immunoprecipitation (HITS-CLIP) reveals Argonaute-associated microRNAs and targets in Schistosoma japonicum

description: Sequences of SjAgo-associated known miRNAs and targets detected by the HITS-CLIP assay. (XLS 137 kb)
DOI: 10.6084/m9.figshare.c.3615011_d1.v1
title: Additional file 1: Table S1. of Synteny analysis in Rosids with a walnut physical map reveals slow genome evolution in long-lived woody perennials

description: Excel spreadsheet listing 1,525 SNP markers and their locations on the genetic maps of the 16 walnut chromosomes. (XLSX 106 kb)
DOI: 10.6084/m9.figshare.c.3614921_d6.v1
title: Additional file 2: of Genome-wide identification, phylogeny and expressional profiles of mitogen activated protein kinase kinase kinase (MAPKKK) gene family in bread wheat (Triticum aestivum L.)

description: The primer sequences used for qRT-PCR analysis. (XLSX 8 kb)
DOI: 10.6084/m9.figshare.c.3614921_d7.v1
title: Additional file 5: of Genome-wide identification, phylogeny and expressional profiles of mitogen activated protein kinase kinase kinase (MAPKKK) gene family in bread wheat (Triticum aestivum L.)

description: The detail of 18 TaMAPKKK orthologous genes in Arabidopsis thaliana. (XLSX 10 kb)
DOI: 10.6084/m9.figshare.c.3614921_d5.v1
title: Additional file 3: of Genome-wide identification, phylogeny and expressional profiles of mitogen activated protein kinase kinase kinase (MAPKKK) gene family in bread wheat (Triticum aestivum L.)

description: Cis-regulatory elements found in the promoters of 155 wheat MAPKKK genes. (XLSX 24 kb)
DOI: 10.6084/m9.figshare.c.3614939_d3.v1
title: Additional file 1: Table S1. of 19p13.2 Microdeletion including NFIX associated with overgrowth and intellectual disability suggestive of Malan syndrome

description: SNP-array data of Patient 1. (XLSX 13 kb)
DOI: 10.6084/m9.figshare.c.3614939_d4.v1
title: Additional file 3: Table S3. of 19p13.2 Microdeletion including NFIX associated with overgrowth and intellectual disability suggestive of Malan syndrome

description: SNP-array data of Patient 3. (XLSX 30 kb)
DOI: 10.6084/m9.figshare.c.3614921_d4.v1
title: Additional file 1: of Genome-wide identification, phylogeny and expressional profiles of mitogen activated protein kinase kinase kinase (MAPKKK) gene family in bread wheat (Triticum aestivum L.)

description: Accession number and samples information of RNA-seq data using in this study. (XLSX 10 kb)
DOI: 10.6084/m9.figshare.c.3614939_d2.v1
title: Additional file 4: Table S4. of 19p13.2 Microdeletion including NFIX associated with overgrowth and intellectual disability suggestive of Malan syndrome

description: SNP-array data of Patient 4. (XLSX 29 kb)
DOI: 10.6084/m9.figshare.c.3614939_d1.v1
title: Additional file 2: Table S2. of 19p13.2 Microdeletion including NFIX associated with overgrowth and intellectual disability suggestive of Malan syndrome

description: SNP-array data of Patient 2. (XLSX 26 kb)
DOI: 10.6084/m9.figshare.c.3614921_d3.v1
title: Additional file 7: of Genome-wide identification, phylogeny and expressional profiles of mitogen activated protein kinase kinase kinase (MAPKKK) gene family in bread wheat (Triticum aestivum L.)

description: FPKM values of the wheat MAPKKK gene in 5 tissues (grain, root, stem, leaf and spike) and under 4 abiotic stresses (drought, salt, heat and cold). (XLSX 34 kb)
DOI: 10.6084/m9.figshare.c.3614921_d2.v1
title: Additional file 6: of Genome-wide identification, phylogeny and expressional profiles of mitogen activated protein kinase kinase kinase (MAPKKK) gene family in bread wheat (Triticum aestivum L.)

description: Detail information of the network of TaMAPKKK with other wheat genes. (XLSX 42 kb)
DOI: 10.6084/m9.figshare.c.3613985_d3.v1
title: Additional file 14: Table S6. of Analysis of transcriptional response to heat stress in Rhazya stricta

description: Selected differentially expressed genes in selected clusters of apical (a, A1-L4) and mature (b, A5-L8) leaves indicating the TFs co-expressed with Hsp and chaperone genes during the day (A, morning; F-H, midday & L, dusk) in R. stricta. (XLSX 42Â kb)
DOI: 10.6084/m9.figshare.c.3613985_d2.v1
title: Additional file 1: Table S1. of Analysis of transcriptional response to heat stress in Rhazya stricta

description: Fold change values of assembled transcripts of R. stricta SRA database in different clusters in the apical leaves (A1-L4) at different time points of the day (A, morning; F-H, midday & L, dusk). (XLSX 775Â kb)
DOI: 10.6084/m9.figshare.c.3613970_d8.v1
title: Additional file 4: of Reconstruction and analysis of the genome-scale metabolic model of schizochytrium limacinum SR21 for docosahexaenoic acid production

description: The annotation results about PKS proteins. (XLSX 9 kb)
DOI: 10.6084/m9.figshare.c.3613970_d7.v1
title: Additional file 1: of Reconstruction and analysis of the genome-scale metabolic model of schizochytrium limacinum SR21 for docosahexaenoic acid production

description: Detailed information about model i CY1170_DHA. (XML 3178 kb)
DOI: 10.6084/m9.figshare.c.3613970_d6.v1
title: Additional file 5: of Reconstruction and analysis of the genome-scale metabolic model of schizochytrium limacinum SR21 for docosahexaenoic acid production

description: Reactions involving NADPH which have fluxes in YE medium. (XLSX 12 kb)
DOI: 10.6084/m9.figshare.c.3613970_d5.v1
title: Additional file 8: of Reconstruction and analysis of the genome-scale metabolic model of schizochytrium limacinum SR21 for docosahexaenoic acid production

description: Detailed information about the biomass composition of S. limacinum. (XLSX 173 kb)
DOI: 10.6084/m9.figshare.c.3613970_d3.v1
title: Additional file 3: of Reconstruction and analysis of the genome-scale metabolic model of schizochytrium limacinum SR21 for docosahexaenoic acid production

description: Comparison among three existing models of S. limacinum, M. alpina, and Y. lipolytica.(XLSX 89 kb)
DOI: 10.6084/m9.figshare.c.3613955_d6.v1
title: Additional file 4: of Microvascular endothelial cells-derived microvesicles imply in ischemic stroke by modulating astrocyte and blood brain barrier function and cerebral blood flow

description: Availability of data for FITC-Dextran Flux, claudin-5 and ZO-1 protein level in vehicle, OGD-EMVs and n-EMVs treated astrocytes. (XLS 19 kb)
DOI: 10.6084/m9.figshare.c.3613970_d2.v1
title: Additional file 2: of Reconstruction and analysis of the genome-scale metabolic model of schizochytrium limacinum SR21 for docosahexaenoic acid production

description: Essential genes identified by different in silico media. (XLSX 38 kb)
DOI: 10.6084/m9.figshare.c.3613955_d5.v1
title: Additional file 3: of Microvascular endothelial cells-derived microvesicles imply in ischemic stroke by modulating astrocyte and blood brain barrier function and cerebral blood flow

description: Availability of data for apoptotic rate, cleaved caspase-9 and Bcl-2 protein level in vehicle, OGD-EMVs and n-EMVs treated astrocytes. (XLS 19 kb)
DOI: 10.6084/m9.figshare.c.3613970_d1.v1
title: Additional file 7: of Reconstruction and analysis of the genome-scale metabolic model of schizochytrium limacinum SR21 for docosahexaenoic acid production

description: Potential targets identified by MOMA which could enhance DHA production. (XLSX 10 kb)
DOI: 10.6084/m9.figshare.c.3613955_d4.v1
title: Additional file 2: of Microvascular endothelial cells-derived microvesicles imply in ischemic stroke by modulating astrocyte and blood brain barrier function and cerebral blood flow

description: Availability of data for proliferation, GFAP, PI3K and Akt protein expression in vehicle, OGD-EMVs and n-EMVs treated astrocytes. (XLS 20 kb)
DOI: 10.6084/m9.figshare.c.3613955_d3.v1
title: Additional file 6: of Microvascular endothelial cells-derived microvesicles imply in ischemic stroke by modulating astrocyte and blood brain barrier function and cerebral blood flow

description: Availability of data for CBF, infarct volume and neurological deficits of tMCAO mice after treated with OGD-EMVs and n-EMVs. (XLS 12 kb)
DOI: 10.6084/m9.figshare.c.3613955_d2.v1
title: Additional file 1: of Microvascular endothelial cells-derived microvesicles imply in ischemic stroke by modulating astrocyte and blood brain barrier function and cerebral blood flow

description: Availability of data for EMVs identification. (XLS 17 kb)
DOI: 10.6084/m9.figshare.c.3613253_d12.v1
title: Additional file 12: Table S8. of Genome-wide identification of long noncoding RNA genes and their potential association with fecundity and virulence in rice brown planthopper, Nilaparvata lugens

description: Specifically expressed lncRNAs in the adult of HFP population. (XLSX 15Â kb)
DOI: 10.6084/m9.figshare.c.3613253_d11.v1
title: Additional file 1: of Genome-wide identification of long noncoding RNA genes and their potential association with fecundity and virulence in rice brown planthopper, Nilaparvata lugens

description: The sequences of identified lncRNAs in FASTA format. (FASTA 2166Â kb)
DOI: 10.6084/m9.figshare.c.3613253_d10.v1
title: Additional file 9: Table S5. of Genome-wide identification of long noncoding RNA genes and their potential association with fecundity and virulence in rice brown planthopper, Nilaparvata lugens

description: Specifically expressed lncRNAs in the salivary gland of TN1 strain of N. lugens. (XLSX 10Â kb)
DOI: 10.6084/m9.figshare.c.3613253_d9.v1
title: Additional file 8: Table S4. of Genome-wide identification of long noncoding RNA genes and their potential association with fecundity and virulence in rice brown planthopper, Nilaparvata lugens

description: Specifically expressed lncRNAs in the salivary gland of Mudgo strain of N. lugens. (XLSX 10Â kb)
DOI: 10.6084/m9.figshare.c.3613253_d8.v1
title: Additional file 13: Table S9. of Genome-wide identification of long noncoding RNA genes and their potential association with fecundity and virulence in rice brown planthopper, Nilaparvata lugens

description: Specifically expressed lncRNAs in LFP the 5th instar nymph of LFP population (XLSX 13Â kb)
DOI: 10.6084/m9.figshare.c.3613253_d5.v1
title: Additional file 6: Table S2. of Genome-wide identification of long noncoding RNA genes and their potential association with fecundity and virulence in rice brown planthopper, Nilaparvata lugens

description: Specifically expressed lncRNAs in the fat body of Mudgo strain of N. lugens. (XLSX 9Â kb)
DOI: 10.6084/m9.figshare.c.3613253_d4.v1
title: Additional file 11: Table S7. of Genome-wide identification of long noncoding RNA genes and their potential association with fecundity and virulence in rice brown planthopper, Nilaparvata lugens

description: Specifically expressed lncRNAs in the adult of LFP population. (XLSX 12Â kb)
DOI: 10.6084/m9.figshare.c.3613151_d7.v1
title: Additional file 9: Table S5. of Genome-wide analysis of excretory/secretory proteins in Echinococcus multilocularis: insights into functional characteristics of the tapeworm secretome

description: Positively selected genes of ES protein coding genes in E. multilocularis. (XLS 14 kb)
DOI: 10.6084/m9.figshare.c.3613151_d4.v1
title: Additional file 7: Table S4. of Genome-wide analysis of excretory/secretory proteins in Echinococcus multilocularis: insights into functional characteristics of the tapeworm secretome

description: Transcription analysis of all predicted ES proteins in E. multilocularis. (XLS 94 kb)
DOI: 10.6084/m9.figshare.c.3613151_d2.v1
title: Additional file 2: Table S2. of Genome-wide analysis of excretory/secretory proteins in Echinococcus multilocularis: insights into functional characteristics of the tapeworm secretome

description: The complete domain annotations of all predicted ES proteins in E. multilocularis using InterProScan. (XLS 67 kb)
DOI: 10.6084/m9.figshare.c.3613151_d3.v1
title: Additional file 1: Table S1. of Genome-wide analysis of excretory/secretory proteins in Echinococcus multilocularis: insights into functional characteristics of the tapeworm secretome

description: Comprehensive annotation information for all the predicted ES proteins in E. multilocularis. (XLS 116 kb)
DOI: 10.6084/m9.figshare.c.3612467_d7.v1
title: Additional file 8. of Global analysis of uncapped mRNA changes under drought stress and microRNA-dependent endonucleolytic cleavages in foxtail millet

description: PARE signatures mapping to foxtail millet miRNA hairpins. (XLSX 34Â kb)
DOI: 10.6084/m9.figshare.c.3612467_d6.v1
title: Additional file 2. of Global analysis of uncapped mRNA changes under drought stress and microRNA-dependent endonucleolytic cleavages in foxtail millet

description: Summary of PARE analysis. (XLSX 9Â kb)
DOI: 10.6084/m9.figshare.c.3612488_d2.v1
title: Additional file 5: Table S2. of Multi-omics analysis reveals molecular mechanisms of shoot adaption to salt stress in Tibetan wild barley

description: Properties of differentially expressed proteins in the shoots of XZ26 and XZ169. (XLSX 81 kb)
DOI: 10.6084/m9.figshare.c.3612467_d5.v1
title: Additional file 5. of Global analysis of uncapped mRNA changes under drought stress and microRNA-dependent endonucleolytic cleavages in foxtail millet

description: Fold change and function annotations of four types of genes with different decay. Annotations were retrieved from phytozome. Note: Columns are blank if no corresponding data is available. (XLSX 252Â kb)
DOI: 10.6084/m9.figshare.c.3612488_d1.v1
title: Additional file 3: Table S1. of Multi-omics analysis reveals molecular mechanisms of shoot adaption to salt stress in Tibetan wild barley

description: The fold changes of metabolites in the shoots of XZ26 and XZ169 under control (CK), 200 (S200) and 400 (S400) mM salinity conditions. (XLSX 45 kb)
DOI: 10.6084/m9.figshare.c.3612467_d4.v1
title: Additional file 7. of Global analysis of uncapped mRNA changes under drought stress and microRNA-dependent endonucleolytic cleavages in foxtail millet

description: miRNA/target interactions identified in the degradome library by PAREsnip and function annotations of targets. Annotations were retrieved from phytozome. Note: Columns are blank if no corresponding data is available. (XLSX 40Â kb)
DOI: 10.6084/m9.figshare.c.3612473_d2.v1
title: Additional file 1: Table S1. of Evolutionary fate and implications of retrocopies in the African coelacanth genome

description: Informations of the retrocopies and their parent genes in the genome of Africa coelacanth. Table S2. Mapping informations about the mapping of retrocopies to Ensembl genes. Table S3. FPKMs of the retrocopies in each tissue. Table S4. Mean and median values of log(FPKM + 1), dS and dN/dS for the retrocopies expressed in different tissues. Table S5. Mean and median values of log(FPKM + 1), dS and dN/dS for the retrocopies uniquely expressed in different tissues. Table S6. The comparison of structure and expression informations between Coelacanth lineage-special retrocopy-overlapped genes and the rest of the retrocopy-overlapped genes. Table S7. Summary of over-represented GO terms for the retrocopy-overlapped genes that are lineage special to coelacanth. Table S8. List of the retrocopy-overlapped genes that specially lost in tetrapod. Table S9. Comparison of structure and expression informations between the retrocopy-overlapped genes that specially lost in tetrapod and those still exist. Table S10. Comparison of over-represented GO terms between the retrocopy-overlapped genes that specially lost in tetrapod and those that still exist in tetrapod. (XLS 485 kb)
DOI: 10.6084/m9.figshare.c.3612467_d3.v1
title: Additional file 11. of Global analysis of uncapped mRNA changes under drought stress and microRNA-dependent endonucleolytic cleavages in foxtail millet

description: The detail information about miRNAs which have discussed in this work. (XLSX 14Â kb)
DOI: 10.6084/m9.figshare.c.3612434_d10.v1
title: Additional file 12: of Genome-wide analysis of the basic leucine zipper (bZIP) transcription factor gene family in six legume genomes

description: Expression values of legume bZIPs in multiple tissues. (XLS 76Â kb)
DOI: 10.6084/m9.figshare.c.3612467_d1.v1
title: Additional file 10. of Global analysis of uncapped mRNA changes under drought stress and microRNA-dependent endonucleolytic cleavages in foxtail millet

description: Fold change and function annotations of miRNA targets which are response to drought. Annotations were retrieved from phytozome. Note: Columns are blank if no corresponding data is available. (XLSX 14Â kb)
DOI: 10.6084/m9.figshare.c.3611765_d7.v1
title: Additional file 10: of Genome-wide transcriptome analysis of soybean primary root under varying water-deficit conditions

description: The gene list and expression patterns for all transcription factors involved in all tissues and stress treatments. (XLSX 12 kb)
DOI: 10.6084/m9.figshare.c.3611765_d8.v1
title: Additional file 13: of Genome-wide transcriptome analysis of soybean primary root under varying water-deficit conditions

description: Gene information used for qRT-PCR verification of RNA-Seq data and corresponding expression patterns extracted by RNA-Seq. (XLSX 10 kb)
DOI: 10.6084/m9.figshare.c.3611765_d6.v1
title: Additional file 11: of Genome-wide transcriptome analysis of soybean primary root under varying water-deficit conditions

description: Enriched motif analysis in each group involved in roots and different stress levels. The DREAM tool was used to reveal over-represented elements in the promoter regions of certain groups of genes that were differentially regulated in roots and different stress levels. (XLSX 16 kb)
DOI: 10.6084/m9.figshare.c.3611765_d4.v1
title: Additional file 1: of Genome-wide transcriptome analysis of soybean primary root under varying water-deficit conditions

description: Gene annotation and expression analysis for primary metabolism. (XLSX 26 kb)
DOI: 10.6084/m9.figshare.c.3611765_d5.v1
title: Additional file 7: of Genome-wide transcriptome analysis of soybean primary root under varying water-deficit conditions

description: Gene annotation and expression analysis of JA, GA, and SA synthesis and the response pathway. (XLSX 13 kb)
DOI: 10.6084/m9.figshare.c.3611765_d2.v1
title: Additional file 5: of Genome-wide transcriptome analysis of soybean primary root under varying water-deficit conditions

description: Gene annotation and expression analysis of ethylene synthesis and the response pathway. (XLSX 15 kb)
DOI: 10.6084/m9.figshare.c.3611765_d3.v1
title: Additional file 3: of Genome-wide transcriptome analysis of soybean primary root under varying water-deficit conditions

description: Gene annotation and expression analysis for carbohydrate metabolism. (XLSX 12 kb)
DOI: 10.6084/m9.figshare.c.3611765_d1.v1
title: Additional file 2: of Genome-wide transcriptome analysis of soybean primary root under varying water-deficit conditions

description: Gene annotation and expression analysis for secondary metabolism. (XLSX 19 kb)
DOI: 10.6084/m9.figshare.c.3611741_d1.v1
title: Additional file 3: of Nosocomial outbreak of KPC-2- and NDM-1-producing Klebsiella pneumoniae in a neonatal ward: a retrospective study

description: Raw data of minimal inhibitory concentration. (XLSX 13Â kb)
DOI: 10.6084/m9.figshare.c.3611717_d6.v1
title: Additional file 3: of Nonlinear transcriptomic response to dietary fat intake in the small intestine of C57BL/6J mice

description: Differentially expressed genes (normalized and processed data) in the three sections of small intestine. There are 1,976 genes in the proximal section, 2,489 genes in the middle part and 313 genes in the distal section. For each gene we indicated Affymetrix ID, gene symbol, response type (lm = linear, log = logarithmic, exp = exponential, quad = quadratic and cub = cubic), and response direction (either up- or down-regulated). Last 40 columns refer to log2 transformed expression values in the small intestine of mice fed with 10, 20, 30 and 45 E% from fat. (XLSX 2795 kb)
DOI: 10.6084/m9.figshare.c.3611039_d13.v1
title: Additional file 3: of Genome-wide DNA methylome variation in two genetically distinct chicken lines using MethylC-seq

description: Bisulfite sequencing validation results on CG sites. (XLS 72 kb)
DOI: 10.6084/m9.figshare.c.3611039_d11.v1
title: Additional file 7: of Genome-wide DNA methylome variation in two genetically distinct chicken lines using MethylC-seq

description: DAVID functional enrichment of promoter and gene body hypo- and hyper-methylated genes. (XLSX 80 kb)
DOI: 10.6084/m9.figshare.c.3611039_d10.v1
title: Additional file 11: of Genome-wide DNA methylome variation in two genetically distinct chicken lines using MethylC-seq

description: DMR-associated genes that show more than two-fold expression differences between Fayoumi and Leghorn. (XLSX 33 kb)
DOI: 10.6084/m9.figshare.c.3611039_d7.v1
title: Additional file 5: of Genome-wide DNA methylome variation in two genetically distinct chicken lines using MethylC-seq

description: List of promoter and gene body hypo- and hyper-methylated genes. (XLSX 63 kb)
DOI: 10.6084/m9.figshare.c.3611039_d3.v1
title: Additional file 10: of Genome-wide DNA methylome variation in two genetically distinct chicken lines using MethylC-seq

description: Expression levels of DMR-associated genes from RNA-seq data. (XLSX 161 kb)
DOI: 10.6084/m9.figshare.c.3611039_d2.v1
title: Additional file 9: of Genome-wide DNA methylome variation in two genetically distinct chicken lines using MethylC-seq

description: DMR-associated genes between Fayoumi and Leghorn lines. (XLSX 205 kb)
DOI: 10.6084/m9.figshare.c.3611039_d1.v1
title: Additional file 15: of Genome-wide DNA methylome variation in two genetically distinct chicken lines using MethylC-seq

description: PCR primers used for Bisulfite sequencing validation. (XLSX 12 kb)
DOI: 10.6084/m9.figshare.c.3610958_d12.v1
title: Additional file 8: Table S4. of Mapping the landscape of metabolic goals of a cell

description: shows all reactions in small E. coli model. (XLSX 9 kb)