cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.6008096
title: Heterozygous HTRA1 missense mutation in CADASIL-like family disease

description: The aim of this study was to find related pathogenic genes in cerebral autosomal dominant arteriopathy with subcortical infarcts and leukoencephalopathy in (CADASIL)-like patients. The direct sequencing and high-throughput multiplex polymerase chain reaction (PCR) was performed to screen for related genes. The clinical and imaging data of a CADASIL-like patient (the pro-band) and his family members were collected. At first, the known hereditary cerebral vascular genes of the pro-band were screened with direct sequencing to find candidate gene mutations. High-throughput multiplex PCR was then used to analyze the single nucleotide polymorphism of the candidate gene in the family members. The results showed that there was missense mutation of the high temperature requirement protease A1 (HTRA1) gene in the pro-band, which may be a pathogenic factor according to the biological software analysis. The following SNP results revealed that the other family members also had the HTRA1 gene mutation. Thus, the CADASIL-like family disease may be caused by heterozygous HTRA1 gene mutation, which leads to autosomal dominant hereditary cerebral small vessel disease.
DOI: 10.6084/m9.figshare.6008096.v1
title: Heterozygous HTRA1 missense mutation in CADASIL-like family disease

description: The aim of this study was to find related pathogenic genes in cerebral autosomal dominant arteriopathy with subcortical infarcts and leukoencephalopathy in (CADASIL)-like patients. The direct sequencing and high-throughput multiplex polymerase chain reaction (PCR) was performed to screen for related genes. The clinical and imaging data of a CADASIL-like patient (the pro-band) and his family members were collected. At first, the known hereditary cerebral vascular genes of the pro-band were screened with direct sequencing to find candidate gene mutations. High-throughput multiplex PCR was then used to analyze the single nucleotide polymorphism of the candidate gene in the family members. The results showed that there was missense mutation of the high temperature requirement protease A1 (HTRA1) gene in the pro-band, which may be a pathogenic factor according to the biological software analysis. The following SNP results revealed that the other family members also had the HTRA1 gene mutation. Thus, the CADASIL-like family disease may be caused by heterozygous HTRA1 gene mutation, which leads to autosomal dominant hereditary cerebral small vessel disease.
DOI: 10.6084/m9.figshare.6008123
title: Single-cell qPCR facilitates the optimization of hematopoietic differentiation in hPSCs/OP9 coculture system

description: Human pluripotent stem cells (hPSCs)/OP9 coculture system is a widely used hematopoietic differentiation approach. The limited understanding of this process leads to its low efficiency. Thus, we used single-cell qPCR to reveal the gene expression profiles of individual CD34+ cells from different stages of differentiation. According to the dynamic gene expression of hematopoietic transcription factors, we overexpressed specific hematopoietic transcription factors (Gata2, Lmo2, Etv2, ERG, and SCL) at an early stage of hematopoietic differentiation. After overexpression, we generated more CD34+ cells with normal expression level of CD43 and CD31, which are used to define various hematopoietic progenitors. Furthermore, these CD34+ cells possessed normal differentiation potency in colony-forming unit assays and normal gene expression profiles. In this study, we demonstrated that single-cell qPCR can provide guidance for optimization of hematopoietic differentiation and transient overexpression of selected hematopoietic transcription factors can enhance hematopoietic differentiation.
DOI: 10.6084/m9.figshare.6008123.v1
title: Single-cell qPCR facilitates the optimization of hematopoietic differentiation in hPSCs/OP9 coculture system

description: Human pluripotent stem cells (hPSCs)/OP9 coculture system is a widely used hematopoietic differentiation approach. The limited understanding of this process leads to its low efficiency. Thus, we used single-cell qPCR to reveal the gene expression profiles of individual CD34+ cells from different stages of differentiation. According to the dynamic gene expression of hematopoietic transcription factors, we overexpressed specific hematopoietic transcription factors (Gata2, Lmo2, Etv2, ERG, and SCL) at an early stage of hematopoietic differentiation. After overexpression, we generated more CD34+ cells with normal expression level of CD43 and CD31, which are used to define various hematopoietic progenitors. Furthermore, these CD34+ cells possessed normal differentiation potency in colony-forming unit assays and normal gene expression profiles. In this study, we demonstrated that single-cell qPCR can provide guidance for optimization of hematopoietic differentiation and transient overexpression of selected hematopoietic transcription factors can enhance hematopoietic differentiation.
DOI: 10.6084/m9.figshare.6008219
title: QTLs for seedling traits under salinity stress in hexaploid wheat

description: ABSTRACT: Soil salinity limits agricultural production and is a major obstacle for increasing crop yield. Common wheat is one of the most important crops with allohexaploid characteristic and a highly complex genome. QTL mapping is a useful way to identify genes for quantitative traits such as salinity tolerance in hexaploid wheat. In the present study, a hydroponic trial was carried out to identify quantitative trait loci (QTLs) associated with salinity tolerance of wheat under 150mM NaCl concentration using a recombinant inbred line population (Xiaoyan 54×Jing 411). Values of wheat seedling traits including maximum root length (MRL), root dry weight (RDW), shoot dry weight (SDW), total dry weight (TDW) and the ratio of TDW of wheat plants between salt stress and control (TDWR) were evaluated or calculated. A total of 19QTLs for five traits were detected through composite interval mapping method by using QTL Cartographer version 2.5 under normal and salt stress conditions. These QTLs distributed on 12 chromosomes explained the percentage of phenotypic variation by individual QTL varying from 7.9% to 19.0%. Among them, 11 and six QTLs were detected under normal and salt stress conditions, respectively and two QTLs were detected for TDWR. Some salt tolerance related loci may be pleiotropic. Chromosome 1A, 3A and 7A may harbor crucial candidate genes associated with wheat salt tolerance. Our results would be helpful for the marker assisted selection to breed wheat varieties with improved salt tolerance.
DOI: 10.6084/m9.figshare.6008219.v1
title: QTLs for seedling traits under salinity stress in hexaploid wheat

description: ABSTRACT: Soil salinity limits agricultural production and is a major obstacle for increasing crop yield. Common wheat is one of the most important crops with allohexaploid characteristic and a highly complex genome. QTL mapping is a useful way to identify genes for quantitative traits such as salinity tolerance in hexaploid wheat. In the present study, a hydroponic trial was carried out to identify quantitative trait loci (QTLs) associated with salinity tolerance of wheat under 150mM NaCl concentration using a recombinant inbred line population (Xiaoyan 54×Jing 411). Values of wheat seedling traits including maximum root length (MRL), root dry weight (RDW), shoot dry weight (SDW), total dry weight (TDW) and the ratio of TDW of wheat plants between salt stress and control (TDWR) were evaluated or calculated. A total of 19QTLs for five traits were detected through composite interval mapping method by using QTL Cartographer version 2.5 under normal and salt stress conditions. These QTLs distributed on 12 chromosomes explained the percentage of phenotypic variation by individual QTL varying from 7.9% to 19.0%. Among them, 11 and six QTLs were detected under normal and salt stress conditions, respectively and two QTLs were detected for TDWR. Some salt tolerance related loci may be pleiotropic. Chromosome 1A, 3A and 7A may harbor crucial candidate genes associated with wheat salt tolerance. Our results would be helpful for the marker assisted selection to breed wheat varieties with improved salt tolerance.
DOI: 10.6084/m9.figshare.6008630
title: MOESM2 of Effect of grazing on methane uptake from Eurasian steppe of China

description: Additional file 2: Table S1. Summary of all experiments included in the meta-analysis in grassland of China.
DOI: 10.6084/m9.figshare.6008630.v1
title: MOESM2 of Effect of grazing on methane uptake from Eurasian steppe of China

description: Additional file 2: Table S1. Summary of all experiments included in the meta-analysis in grassland of China.
DOI: 10.6084/m9.figshare.6008645
title: Additional file 2: of Systematic analysis of the lysine malonylome in common wheat

description: Table S1. The identified lysine malonylation sites in wheat. Table S2 Conservation of lysine malonylated proteins. Table S3 The distribution of proteins in GO terms. Table S4 Protein GO enrichment based on cellular component, molecular function and biological process. Table S5 Protein pathway enrichment analysis. Table S6 Protein domain enrichment analysis. Table S7 Protein interaction network of identified proteins. (XLSX 141 kb)
DOI: 10.6084/m9.figshare.6008645.v1
title: Additional file 2: of Systematic analysis of the lysine malonylome in common wheat

description: Table S1. The identified lysine malonylation sites in wheat. Table S2 Conservation of lysine malonylated proteins. Table S3 The distribution of proteins in GO terms. Table S4 Protein GO enrichment based on cellular component, molecular function and biological process. Table S5 Protein pathway enrichment analysis. Table S6 Protein domain enrichment analysis. Table S7 Protein interaction network of identified proteins. (XLSX 141 kb)
DOI: 10.6084/m9.figshare.6008654
title: Additional file 1: of First identification and multilocus genotyping of Giardia duodenalis in pet chipmunks (Eutamias asiaticus) in Sichuan Province, southwestern China

description: Table S1. Detailed information about each chipmunk. (XLSX 20 kb)
DOI: 10.6084/m9.figshare.6008654.v1
title: Additional file 1: of First identification and multilocus genotyping of Giardia duodenalis in pet chipmunks (Eutamias asiaticus) in Sichuan Province, southwestern China

description: Table S1. Detailed information about each chipmunk. (XLSX 20 kb)
DOI: 10.6084/m9.figshare.6008690
title: Additional file 1: of The mining and evolutionary investigation of AP2/ERF genes in pear (Pyrus)

description: The seven pairs of primer sequences for amplifying functional genes in group III for qRT-PCR analysis (XLS 36Â kb)
DOI: 10.6084/m9.figshare.6008690.v1
title: Additional file 1: of The mining and evolutionary investigation of AP2/ERF genes in pear (Pyrus)

description: The seven pairs of primer sequences for amplifying functional genes in group III for qRT-PCR analysis (XLS 36Â kb)
DOI: 10.6084/m9.figshare.6008693
title: Additional file 1: of Imputation from SNP chip to sequence: a case study in a Chinese indigenous chicken population

description: Table S1. A pedigree-based genetic relationship matrix among the 24 key individuals. Table S2 A summary of the sequencing and assembly of 24 key individuals. Table S3 Number of identified variants in the chicken genome with GATK. Table S4 The results of the SNP calling for chromosomes (chr1, chr3, chr6, and chr28) with different sequencing depth under the different total cost of genotyping, respectively. (XLSX 25 kb)
DOI: 10.6084/m9.figshare.6008693.v1
title: Additional file 1: of Imputation from SNP chip to sequence: a case study in a Chinese indigenous chicken population

description: Table S1. A pedigree-based genetic relationship matrix among the 24 key individuals. Table S2 A summary of the sequencing and assembly of 24 key individuals. Table S3 Number of identified variants in the chicken genome with GATK. Table S4 The results of the SNP calling for chromosomes (chr1, chr3, chr6, and chr28) with different sequencing depth under the different total cost of genotyping, respectively. (XLSX 25 kb)
DOI: 10.6084/m9.figshare.6008720
title: Additional file 2: of The mining and evolutionary investigation of AP2/ERF genes in pear (Pyrus)

description: The gene name, gene ID, domain description, start position, end position, chromosome, and gene length of 191 pear AP2/ERF genes. (XLS 60Â kb)
DOI: 10.6084/m9.figshare.6008720.v1
title: Additional file 2: of The mining and evolutionary investigation of AP2/ERF genes in pear (Pyrus)

description: The gene name, gene ID, domain description, start position, end position, chromosome, and gene length of 191 pear AP2/ERF genes. (XLS 60Â kb)
DOI: 10.6084/m9.figshare.6008723
title: Additional file 1: of Evaluation of candidate genes associated with hepatitis A and E virus infection in Chinese Han population

description: Table S1. Information about primers and probes of selected SNPs. (XLSX 10 kb)
DOI: 10.6084/m9.figshare.6008723.v1
title: Additional file 1: of Evaluation of candidate genes associated with hepatitis A and E virus infection in Chinese Han population

description: Table S1. Information about primers and probes of selected SNPs. (XLSX 10 kb)
DOI: 10.6084/m9.figshare.6008732
title: Additional file 3: of The mining and evolutionary investigation of AP2/ERF genes in pear (Pyrus)

description: The duplication event types of 155 pear ERF genes. (XLS 54Â kb)
DOI: 10.6084/m9.figshare.6008732.v1
title: Additional file 3: of The mining and evolutionary investigation of AP2/ERF genes in pear (Pyrus)

description: The duplication event types of 155 pear ERF genes. (XLS 54Â kb)
DOI: 10.6084/m9.figshare.6008747
title: Additional file 4: of The mining and evolutionary investigation of AP2/ERF genes in pear (Pyrus)

description: The Ka, Ks, and Ka/Ks values of 75 pear ERF gene pairs. (XLS 42Â kb)
DOI: 10.6084/m9.figshare.6008747.v1
title: Additional file 4: of The mining and evolutionary investigation of AP2/ERF genes in pear (Pyrus)

description: The Ka, Ks, and Ka/Ks values of 75 pear ERF gene pairs. (XLS 42Â kb)
DOI: 10.6084/m9.figshare.6008762
title: Additional file 5: of The mining and evolutionary investigation of AP2/ERF genes in pear (Pyrus)

description: The orthologous relationships between pear and Arabidopsis ERF genes. (XLS 49Â kb)
DOI: 10.6084/m9.figshare.6008762.v1
title: Additional file 5: of The mining and evolutionary investigation of AP2/ERF genes in pear (Pyrus)

description: The orthologous relationships between pear and Arabidopsis ERF genes. (XLS 49Â kb)
DOI: 10.6084/m9.figshare.6008771
title: Additional file 3: of Evaluation of candidate genes associated with hepatitis A and E virus infection in Chinese Han population

description: Table S3. Allele frequencies of selected SNPs in Chinese and US populations. (XLSX 13 kb)
DOI: 10.6084/m9.figshare.6008771.v1
title: Additional file 3: of Evaluation of candidate genes associated with hepatitis A and E virus infection in Chinese Han population

description: Table S3. Allele frequencies of selected SNPs in Chinese and US populations. (XLSX 13 kb)
DOI: 10.6084/m9.figshare.6008783
title: Additional file 6: of The mining and evolutionary investigation of AP2/ERF genes in pear (Pyrus)

description: The RPKM (reads per kilobase per million) values for PbrAP2/ERF gene expression. (XLS 98Â kb)
DOI: 10.6084/m9.figshare.6008783.v1
title: Additional file 6: of The mining and evolutionary investigation of AP2/ERF genes in pear (Pyrus)

description: The RPKM (reads per kilobase per million) values for PbrAP2/ERF gene expression. (XLS 98Â kb)
DOI: 10.6084/m9.figshare.6008807
title: MOESM1 of Hemodynamics of cerebral bridging veins connecting the superior sagittal sinus based on numerical simulation

description: Additional file 1. The detail data about the difference between the anterior and posterior segments of bridging vein models.
DOI: 10.6084/m9.figshare.6008807.v1
title: MOESM1 of Hemodynamics of cerebral bridging veins connecting the superior sagittal sinus based on numerical simulation

description: Additional file 1. The detail data about the difference between the anterior and posterior segments of bridging vein models.
DOI: 10.6084/m9.figshare.6008888
title: Additional file 1: of Divergent transcriptomic responses underlying the ranaviruses-amphibian interaction processes on interspecies infection of Chinese giant salamander

description: Table S1. The paired reads covering each gene of ADRV in ADRV-1d and ADRV-7d. Table S2. The paired reads covering each gene of RGV in RGV-1d and RGV-7d. GenBank accession number of the virus genome, start and end position of ORF (gene), gene length, counts of each sample were shown. (ZIP 24Â kb)
DOI: 10.6084/m9.figshare.6008888.v1
title: Additional file 1: of Divergent transcriptomic responses underlying the ranaviruses-amphibian interaction processes on interspecies infection of Chinese giant salamander

description: Table S1. The paired reads covering each gene of ADRV in ADRV-1d and ADRV-7d. Table S2. The paired reads covering each gene of RGV in RGV-1d and RGV-7d. GenBank accession number of the virus genome, start and end position of ORF (gene), gene length, counts of each sample were shown. (ZIP 24Â kb)
DOI: 10.6084/m9.figshare.6008933
title: Additional file 3: of Divergent transcriptomic responses underlying the ranaviruses-amphibian interaction processes on interspecies infection of Chinese giant salamander

description: Table S3. Top 10 DEGs in comparison of RGV-1d/control and ADRV-1d/control. Table S4. Top 10 DEGs in comparisons of RGV-7d/control and ADRV-7d/control. Unigene IDs of DEGs possessed by two groups (RGV-1d/control and ADRV-1d/control, RGV-7d/control and ADRV-7d/control) were indicated in bold font. â -â means no homolog found. (ZIP 19Â kb)
DOI: 10.6084/m9.figshare.6008933.v1
title: Additional file 3: of Divergent transcriptomic responses underlying the ranaviruses-amphibian interaction processes on interspecies infection of Chinese giant salamander

description: Table S3. Top 10 DEGs in comparison of RGV-1d/control and ADRV-1d/control. Table S4. Top 10 DEGs in comparisons of RGV-7d/control and ADRV-7d/control. Unigene IDs of DEGs possessed by two groups (RGV-1d/control and ADRV-1d/control, RGV-7d/control and ADRV-7d/control) were indicated in bold font. â -â means no homolog found. (ZIP 19Â kb)
DOI: 10.6084/m9.figshare.6008960
title: Additional file 4: of Divergent transcriptomic responses underlying the ranaviruses-amphibian interaction processes on interspecies infection of Chinese giant salamander

description: Table S5. Detailed information of all the enriched Go terms in RGV-1d/control. Table S6. Detailed information of all the enriched Go terms in ADRV-1d/control. Table S7. Detailed information of all the enriched Go terms in RGV-7d/control. Table S8. Detailed information of all the enriched Go terms in ADRV-7d/control. List of Go terms include the ID and description of Go terms, enrichment ratio, corrected p-value, main categories, and enriched DEGsn. (ZIP 339Â kb)
DOI: 10.6084/m9.figshare.6008960.v1
title: Additional file 4: of Divergent transcriptomic responses underlying the ranaviruses-amphibian interaction processes on interspecies infection of Chinese giant salamander

description: Table S5. Detailed information of all the enriched Go terms in RGV-1d/control. Table S6. Detailed information of all the enriched Go terms in ADRV-1d/control. Table S7. Detailed information of all the enriched Go terms in RGV-7d/control. Table S8. Detailed information of all the enriched Go terms in ADRV-7d/control. List of Go terms include the ID and description of Go terms, enrichment ratio, corrected p-value, main categories, and enriched DEGsn. (ZIP 339Â kb)
DOI: 10.6084/m9.figshare.6008966
title: Additional file 4: of BRD7 expression and c-Myc activation forms a double-negative feedback loop that controls the cell proliferation and tumor growth of nasopharyngeal carcinoma by targeting oncogenic miR-141

description: Table S3. Protein-Protein Interaction predictions for BRD7. (XLS 49 kb)
DOI: 10.6084/m9.figshare.6008966.v1
title: Additional file 4: of BRD7 expression and c-Myc activation forms a double-negative feedback loop that controls the cell proliferation and tumor growth of nasopharyngeal carcinoma by targeting oncogenic miR-141

description: Table S3. Protein-Protein Interaction predictions for BRD7. (XLS 49 kb)
DOI: 10.6084/m9.figshare.6008978
title: Additional file 5: of Divergent transcriptomic responses underlying the ranaviruses-amphibian interaction processes on interspecies infection of Chinese giant salamander

description: Table S9. Detailed information of all the enriched KEGG pathways in RGV-1d/control. Table S10. Detailed information of all the enriched KEGG pathways in ADRV-1d/control. Table S11. Detailed information of all the enriched KEGG pathways in RGV-7d/control. Table S12. Detailed information of all the enriched KEGG pathways in ADRV-7d/control. List of KEGG pathways include pathway name, number of DEGs and unigene IDs enriched in corresponding pathway, corrected p-value, and hyperlink of the pathway. (ZIP 124Â kb)
DOI: 10.6084/m9.figshare.6008978.v1
title: Additional file 5: of Divergent transcriptomic responses underlying the ranaviruses-amphibian interaction processes on interspecies infection of Chinese giant salamander

description: Table S9. Detailed information of all the enriched KEGG pathways in RGV-1d/control. Table S10. Detailed information of all the enriched KEGG pathways in ADRV-1d/control. Table S11. Detailed information of all the enriched KEGG pathways in RGV-7d/control. Table S12. Detailed information of all the enriched KEGG pathways in ADRV-7d/control. List of KEGG pathways include pathway name, number of DEGs and unigene IDs enriched in corresponding pathway, corrected p-value, and hyperlink of the pathway. (ZIP 124Â kb)
DOI: 10.6084/m9.figshare.6008993
title: Additional file 6: of Divergent transcriptomic responses underlying the ranaviruses-amphibian interaction processes on interspecies infection of Chinese giant salamander

description: Table S13. Detailed information of DEGs related to immune pathways in RGV-1d/control. Table S14. Detailed information of DEGs related to immune pathways in ADRV-1d/control. Table S15. Detailed information of DEGs related to immune pathways in RGV-7d/control. Table S16. Detailed information of DEGs related to immune pathways in ADRV-7d/control. List of DEGs include the sequence ID, counts and fpkm value, log2fold change, p-value, FDR, and annotations in NR, Swissprot, String, KEGG, and Pfam. (ZIP 99Â kb)
DOI: 10.6084/m9.figshare.6008993.v1
title: Additional file 6: of Divergent transcriptomic responses underlying the ranaviruses-amphibian interaction processes on interspecies infection of Chinese giant salamander

description: Table S13. Detailed information of DEGs related to immune pathways in RGV-1d/control. Table S14. Detailed information of DEGs related to immune pathways in ADRV-1d/control. Table S15. Detailed information of DEGs related to immune pathways in RGV-7d/control. Table S16. Detailed information of DEGs related to immune pathways in ADRV-7d/control. List of DEGs include the sequence ID, counts and fpkm value, log2fold change, p-value, FDR, and annotations in NR, Swissprot, String, KEGG, and Pfam. (ZIP 99Â kb)
DOI: 10.6084/m9.figshare.6009008
title: Additional file 7: of Divergent transcriptomic responses underlying the ranaviruses-amphibian interaction processes on interspecies infection of Chinese giant salamander

description: Gene expression in representative immune pathways. Table S17. Gene expression level in the pathway “Hematopoietic cell lineage”. Table S18. Gene expression level in the pathway “Toll-like receptor signaling pathway”. Table S19. Gene expression level in the pathway “Complement and coagulation cascades”. Table S20. Gene expression level in the pathway “Antigen processing and presentation”. Table S21. Gene expression level in the pathway “Natural killer cell mediated cytotoxicity”. The log2(fold change) of each DEG assigned to corresponding pathway was shown. (ZIP 45 kb)