cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.5951293
title: Additional file 1: of Targeted next generation sequencing identified clinically actionable mutations in patients with esophageal sarcomatoid carcinoma

description: Table S1. The gene list of the gene panel used for the targeted sequencing. It includes 416 cancer-relevant genes and introns of 16 fusions genes (bold text). (XLSX 13Â kb)
DOI: 10.6084/m9.figshare.5951293.v1
title: Additional file 1: of Targeted next generation sequencing identified clinically actionable mutations in patients with esophageal sarcomatoid carcinoma

description: Table S1. The gene list of the gene panel used for the targeted sequencing. It includes 416 cancer-relevant genes and introns of 16 fusions genes (bold text). (XLSX 13Â kb)
DOI: 10.6084/m9.figshare.5951317
title: Additional file 2: of Targeted next generation sequencing identified clinically actionable mutations in patients with esophageal sarcomatoid carcinoma

description: Table S2. Gene alterations in all patients and their functional and clinical significance annotation. All mutations were annotated with SIFT, CLINVAR and COSMIC in ANNOVAR software. (XLSX 21Â kb)
DOI: 10.6084/m9.figshare.5951317.v1
title: Additional file 2: of Targeted next generation sequencing identified clinically actionable mutations in patients with esophageal sarcomatoid carcinoma

description: Table S2. Gene alterations in all patients and their functional and clinical significance annotation. All mutations were annotated with SIFT, CLINVAR and COSMIC in ANNOVAR software. (XLSX 21Â kb)
DOI: 10.5281/zenodo.3608345
title: TephraDB_Prototype_ver1.4

description: This is the updated tephra fall distribution map dataset for assessing tephra fall hazards (thickness in mm) in Japan. This database was created using the database of Suto et al. (2007) (https://www.jstage.jst.go.jp/article/bullgsj/58/9-10/58_261/_article/-char/ja/) with ArcGIS.

This version is a revised version of 1.3. An error in thickness data was found in Unzen_1991_6_8 in ver 1.2 and 1.3. Please use this version instead of older versions. We have confirmed that this error does not affect the discussion in Uesawa et al. (2022).

The exact method is available in Uesawa et al. (2022) appliedvolc.biomedcentral.com/articles/10.1186/s13617-022-00126-x. Please find the scripts to create the hazard curve at https://github.com/s-uesawa/Prototype-TephraDB-Japan.

The coordinate ranges handled in this database are as follows:125E/150E/25N/47N (JGD2000)

Acknowledgments: Comments from Dr. K. Komura@CRIEPI were helpful.
description: Scripts for processing to make a hazard curve are available at https://github.com/s-uesawa/Prototype-TephraDB-Japan
DOI: 10.5281/zenodo.5109160
title: TephraDB_Prototype_ver1.1

description: This is the updated tephra fall distribution map dataset for evaluating probabilistic evaluation of tephra fall hazards in Japan. This database was created using the database of Suto et al. (2007) (https://www.jstage.jst.go.jp/article/bullgsj/58/9-10/58_261/_article/-char/ja/) with ArcGIS. The exact method will be published in the Journal of Applied Volcanology (Uesawa et al., 2022; appliedvolc.biomedcentral.com/articles/10.1186/s13617-022-00126-x). To create hazard curves, use the scripts at https://github.com/s-uesawa/Prototype-TephraDB-Japan. <strong>Caution!</strong> Errors were found in this version. Please use ver1.2.
description: Scripts for processing to make a hazard curve are available at https://github.com/s-uesawa/Prototype-TephraDB-Japan
DOI: 10.5281/zenodo.7672678
title: TephraDB_Prototype_ver1.2

description: This is the updated tephra fall distribution map dataset for assessing tephra fall hazards (thickness in mm) in Japan. This database was created using the database of Suto et al. (2007) (https://www.jstage.jst.go.jp/article/bullgsj/58/9-10/58_261/_article/-char/ja/) with ArcGIS. This version is a revised version of ver1.1. Some errors were found in Hokkai_Koma_Ko_h, Hokkai_Koma_1998, NGO, Fuji_SWR, S_16_3, and ACP4 in ver1.1. Please use this version instead of ver1.1. The exact method is available in Uesawa et al. (2022) appliedvolc.biomedcentral.com/articles/10.1186/s13617-022-00126-x. Please find the scripts to create the hazard curve at https://github.com/s-uesawa/Prototype-TephraDB-Japan.<br> <br> Special thanks to Dr. K. Komura @CRIEPI for this revision. <strong>Caution!</strong> Some more errors were found in this version. Please use ver1.3.
description: Scripts for processing to make a hazard curve are available at https://github.com/s-uesawa/Prototype-TephraDB-Japan
DOI: 10.5281/zenodo.7857457
title: TephraDB_Prototype_ver1.3

description: This is the updated tephra fall distribution map dataset for assessing tephra fall hazards (thickness in mm) in Japan. This database was created using the database of Suto et al. (2007) (https://www.jstage.jst.go.jp/article/bullgsj/58/9-10/58_261/_article/-char/ja/) with ArcGIS. This version is a revised version of 1.2. Some more errors in calculations of thicknesses were found in Hokkai_Koma_1996, Usu_2000_3_31, Usu_2000_4_1_2, Usu_2000_4_2, Usu_2000_4_4 in ver1.1 and ver1.2. Please use this version instead of ver1.1 and 1.2. We have confirmed that this error does not affect the discussion in Uesawa et al. (2022). The exact method is available in Uesawa et al. (2022) appliedvolc.biomedcentral.com/articles/10.1186/s13617-022-00126-x. Please find the scripts to create the hazard curve at https://github.com/s-uesawa/Prototype-TephraDB-Japan. The coordinate ranges handled in this database are as follows:<br> 125E/150E/25N/47N (JGD2000) Acknowledgments: Comments from Dr. K. Komura@CRIEPI were helpful.
description: Scripts for processing to make a hazard curve are available at https://github.com/s-uesawa/Prototype-TephraDB-Japan
DOI: 10.6084/m9.figshare.5951449
title: Additional file 1: of Three endoplasmic reticulum-associated fatty acyl-coenzyme a reductases were involved in the production of primary alcohols in hexaploid wheat (Triticum aestivum L.)

description: Table S1. Primers for vector construction and expression analysis. (XLSX 11Â kb)
DOI: 10.6084/m9.figshare.5951449.v1
title: Additional file 1: of Three endoplasmic reticulum-associated fatty acyl-coenzyme a reductases were involved in the production of primary alcohols in hexaploid wheat (Triticum aestivum L.)

description: Table S1. Primers for vector construction and expression analysis. (XLSX 11Â kb)
DOI: 10.6084/m9.figshare.5951830
title: Latitudinal variation in body size in Fejervarya limnocharis supports the inverse of Bergmann’s rule: Supplementary Material

description: Bergmann’s
rule states that within a species of endotherms smaller individuals are found in warmer conditions, which is consistent for nearly all endotherms,
while in ectotherms body size patterns are less consistent. As ectothermic vertebrates, the morphology of amphibians is likely impacted by climatic
conditions.
Here, we examined latitudinal variation in body size in the ranid frog, <i>Fejervarya limnocharis</i>, based on literature and our own data on mean body size of 3637
individuals from 50 populations and average age of 2873
individuals from 40 populations in China. The
results showed that body size was positively correlated with environmental
temperature, but not with precipitation. Body
size was negatively correlated with latitude among populations in this
species, which supported the inverse of Bergmann’s rule. Our findings suggest
that a larger body size in low-latitude populations is associated
with a longer growing season related to the higher
environmental temperature
DOI: 10.6084/m9.figshare.5951830.v1
title: Latitudinal variation in body size in Fejervarya limnocharis supports the inverse of Bergmann’s rule: Supplementary Material

description: Bergmann’s
rule states that within a species of endotherms smaller individuals are found in warmer conditions, which is consistent for nearly all endotherms,
while in ectotherms body size patterns are less consistent. As ectothermic vertebrates, the morphology of amphibians is likely impacted by climatic
conditions.
Here, we examined latitudinal variation in body size in the ranid frog, <i>Fejervarya limnocharis</i>, based on literature and our own data on mean body size of 3637
individuals from 50 populations and average age of 2873
individuals from 40 populations in China. The
results showed that body size was positively correlated with environmental
temperature, but not with precipitation. Body
size was negatively correlated with latitude among populations in this
species, which supported the inverse of Bergmann’s rule. Our findings suggest
that a larger body size in low-latitude populations is associated
with a longer growing season related to the higher
environmental temperature
DOI: 10.6084/m9.figshare.5954905
title: Additional file 2: of JAK/STAT3 regulated global gene expression dynamics during late-stage reprogramming process

description: Cuffdiff Analysis Results Table of DEGs Between Ctl S2 vs. S1 (DMSO_S2 vs. S1), Jaki S2 vs. S1 (Jaki_S2 vs. S1), Jaki vs. DMSO at S1 (S2_Jaki vs. DMSO), and Jaki vs. DMSO at S1 (S1_Jaki vs. DMSO). (XLSX 829 kb)
DOI: 10.6084/m9.figshare.5954905.v1
title: Additional file 2: of JAK/STAT3 regulated global gene expression dynamics during late-stage reprogramming process

description: Cuffdiff Analysis Results Table of DEGs Between Ctl S2 vs. S1 (DMSO_S2 vs. S1), Jaki S2 vs. S1 (Jaki_S2 vs. S1), Jaki vs. DMSO at S1 (S2_Jaki vs. DMSO), and Jaki vs. DMSO at S1 (S1_Jaki vs. DMSO). (XLSX 829 kb)
DOI: 10.6084/m9.figshare.5954917
title: Additional file 3: of JAK/STAT3 regulated global gene expression dynamics during late-stage reprogramming process

description: DAVID Analysis Table of Biological Processes (FDRâ &lt;â 0.05) for Common or Specific Up- or Down-regulated DEGs Between Ctl reprogramming (DMSO_S2 vs. S1) and Jaki-reprogramming (Jaki_S2 vs. S1). (XLSX 60 kb)
DOI: 10.6084/m9.figshare.5954917.v1
title: Additional file 3: of JAK/STAT3 regulated global gene expression dynamics during late-stage reprogramming process

description: DAVID Analysis Table of Biological Processes (FDRâ &lt;â 0.05) for Common or Specific Up- or Down-regulated DEGs Between Ctl reprogramming (DMSO_S2 vs. S1) and Jaki-reprogramming (Jaki_S2 vs. S1). (XLSX 60 kb)
DOI: 10.6084/m9.figshare.5954950
title: Additional file 5: of JAK/STAT3 regulated global gene expression dynamics during late-stage reprogramming process

description: Table for DEGs listed in Spermatogenesis/Meiotic, Mitotic, and DNA Repair GO-terms That Are Upregulated between Ctl S2 vs. S1 comparison but Downregulated at S2 in Jaki vs. Ctl comparison. (XLSX 60 kb)
DOI: 10.6084/m9.figshare.5954950.v1
title: Additional file 5: of JAK/STAT3 regulated global gene expression dynamics during late-stage reprogramming process

description: Table for DEGs listed in Spermatogenesis/Meiotic, Mitotic, and DNA Repair GO-terms That Are Upregulated between Ctl S2 vs. S1 comparison but Downregulated at S2 in Jaki vs. Ctl comparison. (XLSX 60 kb)
DOI: 10.6084/m9.figshare.5954971
title: Additional file 6: of JAK/STAT3 regulated global gene expression dynamics during late-stage reprogramming process

description: Table for S1- or S2-specifically Expressed Genes under DMSO Ctl or Jaki-Treatment at S1 or S2. (XLSX 102 kb)
DOI: 10.6084/m9.figshare.5954971.v1
title: Additional file 6: of JAK/STAT3 regulated global gene expression dynamics during late-stage reprogramming process

description: Table for S1- or S2-specifically Expressed Genes under DMSO Ctl or Jaki-Treatment at S1 or S2. (XLSX 102 kb)
DOI: 10.6084/m9.figshare.5955121
title: Additional file 2: of QTL mapping and candidate gene analysis of peduncle vascular bundle related traits in rice by genome-wide association study

description: Table S1. List of the 423 accessions including country of origin, subpopulation (indica, temperate japonica, tropical japonica, admixed japonica, admixed type, aus/boro, and basmati/sadri), population structure (Q), PC score, vascular bundle related traits measured in 2015 and 2016, and heading date measured in 2016. (XLSX 115 kb)
DOI: 10.6084/m9.figshare.5955121.v1
title: Additional file 2: of QTL mapping and candidate gene analysis of peduncle vascular bundle related traits in rice by genome-wide association study

description: Table S1. List of the 423 accessions including country of origin, subpopulation (indica, temperate japonica, tropical japonica, admixed japonica, admixed type, aus/boro, and basmati/sadri), population structure (Q), PC score, vascular bundle related traits measured in 2015 and 2016, and heading date measured in 2016. (XLSX 115 kb)
DOI: 10.6084/m9.figshare.5955169
title: Additional file 5: of QTL mapping and candidate gene analysis of peduncle vascular bundle related traits in rice by genome-wide association study

description: Table S2. Haplotype analysis of the targeted genes related to qSVA8.1 and qSVXA8 in the whole population, indica and japonica subpopulations, respectively. The letters (a, and b) indicate multiple comparison results at the significant level 0.05. (XLSX 10 kb)
DOI: 10.6084/m9.figshare.5955169.v1
title: Additional file 5: of QTL mapping and candidate gene analysis of peduncle vascular bundle related traits in rice by genome-wide association study

description: Table S2. Haplotype analysis of the targeted genes related to qSVA8.1 and qSVXA8 in the whole population, indica and japonica subpopulations, respectively. The letters (a, and b) indicate multiple comparison results at the significant level 0.05. (XLSX 10 kb)
DOI: 10.5281/zenodo.10846798
title: TephraDB_Prototype_ver1.4

description: This is the updated tephra fall distribution map dataset for assessing tephra fall hazards (thickness in mm) in Japan. This database was created using the database of Suto et al. (2007) (https://www.jstage.jst.go.jp/article/bullgsj/58/9-10/58_261/_article/-char/ja/) with ArcGIS.

This version is a revised version of 1.3. An error in thickness data was found in Unzen_1991_6_8 in ver 1.2 and 1.3. Please use this version instead of older versions. We have confirmed that this error does not affect the discussion in Uesawa et al. (2022).

The exact method is available in Uesawa et al. (2022) appliedvolc.biomedcentral.com/articles/10.1186/s13617-022-00126-x. Please find the scripts to create the hazard curve at https://github.com/s-uesawa/Prototype-TephraDB-Japan.

The coordinate ranges handled in this database are as follows:125E/150E/25N/47N (JGD2000)

Acknowledgments: Comments from Dr. K. Komura@CRIEPI were helpful.
description: Scripts for processing to make a hazard curve are available at https://github.com/s-uesawa/Prototype-TephraDB-Japan
DOI: 10.6084/m9.figshare.5955337
title: Additional file 3: of The lncRNA MACC1-AS1 promotes gastric cancer cell metabolic plasticity via AMPK/Lin28 mediated mRNA stability of MACC1

description: Table S1. Analysis of upreguated differential genes in STAD from TCGA. (XLSX 447Â kb)
DOI: 10.6084/m9.figshare.5955337.v1
title: Additional file 3: of The lncRNA MACC1-AS1 promotes gastric cancer cell metabolic plasticity via AMPK/Lin28 mediated mRNA stability of MACC1

description: Table S1. Analysis of upreguated differential genes in STAD from TCGA. (XLSX 447Â kb)
DOI: 10.6084/m9.figshare.5955352
title: Additional file 4: of The lncRNA MACC1-AS1 promotes gastric cancer cell metabolic plasticity via AMPK/Lin28 mediated mRNA stability of MACC1

description: Table S2. Analysis of genes correlated with MACC1 in STAD from TCGA. (XLSX 14019Â kb)
DOI: 10.6084/m9.figshare.5955352.v1
title: Additional file 4: of The lncRNA MACC1-AS1 promotes gastric cancer cell metabolic plasticity via AMPK/Lin28 mediated mRNA stability of MACC1

description: Table S2. Analysis of genes correlated with MACC1 in STAD from TCGA. (XLSX 14019Â kb)
DOI: 10.48668/cievro
title: test file upload

description: test
DOI: 10.6084/m9.figshare.5955403
title: Additional file 8: of The lncRNA MACC1-AS1 promotes gastric cancer cell metabolic plasticity via AMPK/Lin28 mediated mRNA stability of MACC1

description: Table S5. Mass spectrometry analysis of potential proteins binding with MACC1-AS1 followed by RNA pull down assays. (XLSX 58Â kb)
DOI: 10.6084/m9.figshare.5955403.v1
title: Additional file 8: of The lncRNA MACC1-AS1 promotes gastric cancer cell metabolic plasticity via AMPK/Lin28 mediated mRNA stability of MACC1

description: Table S5. Mass spectrometry analysis of potential proteins binding with MACC1-AS1 followed by RNA pull down assays. (XLSX 58Â kb)
DOI: 10.6084/m9.figshare.5955445
title: RNA sequencing analysis shows that titanium dioxide nanoparticles induce endoplasmic reticulum stress, which has a central role in mediating plasma glucose in mice

description: Titanium dioxide nanoparticles (TiO<sub>2</sub> NPs) constitute the top five NPs in use today. In this study, oral administration of 50, 100, and 200 mg/kg body weight (b.w.) TiO<sub>2</sub> NPs increases plasma glucose in mice, whereas 10 and 20 mg/kg b.w. TiO<sub>2</sub> NPs did not. RNA sequencing (RNA-seq) technology was used to investigate genome-wide effects of TiO<sub>2</sub> NPs. Clustering analysis of the RNA-seq data showed the most significantly enriched gene ontology terms and KEGG pathways related to the endoplasmic reticulum (ER) and ER stress. Molecular biology verification showed that 50 mg/kg b.w. and higher doses TiO<sub>2</sub> NPs activated a xenobiotic biodegradation response and increased expression of cytochrome <i>P450</i> family genes in mouse livers, thus inducing ER stress in mice. ER stress-activated MAPK and NF-κB pathways and induced an inflammation response, resulting in phosphorylation of the insulin receptor substrate 1 and, consequently, insulin resistance. This was the main mechanism by which TiO<sub>2</sub> NPs increased plasma glucose in mice. Meanwhile, ER stress disturbed the monooxygenase system, and thus generated reactive oxygen species (ROS). Relief of ER stress with 4-phenylbutyric acid inhibited all the above effects of TiO<sub>2</sub> NPs, including the generation of ROS. Therefore, TiO<sub>2</sub> NP-induced ER stress was a decisive factor with a central role in plasma glucose disturbance in mice.
DOI: 10.6084/m9.figshare.5955445.v1
title: RNA sequencing analysis shows that titanium dioxide nanoparticles induce endoplasmic reticulum stress, which has a central role in mediating plasma glucose in mice

description: Titanium dioxide nanoparticles (TiO<sub>2</sub> NPs) constitute the top five NPs in use today. In this study, oral administration of 50, 100, and 200 mg/kg body weight (b.w.) TiO<sub>2</sub> NPs increases plasma glucose in mice, whereas 10 and 20 mg/kg b.w. TiO<sub>2</sub> NPs did not. RNA sequencing (RNA-seq) technology was used to investigate genome-wide effects of TiO<sub>2</sub> NPs. Clustering analysis of the RNA-seq data showed the most significantly enriched gene ontology terms and KEGG pathways related to the endoplasmic reticulum (ER) and ER stress. Molecular biology verification showed that 50 mg/kg b.w. and higher doses TiO<sub>2</sub> NPs activated a xenobiotic biodegradation response and increased expression of cytochrome <i>P450</i> family genes in mouse livers, thus inducing ER stress in mice. ER stress-activated MAPK and NF-κB pathways and induced an inflammation response, resulting in phosphorylation of the insulin receptor substrate 1 and, consequently, insulin resistance. This was the main mechanism by which TiO<sub>2</sub> NPs increased plasma glucose in mice. Meanwhile, ER stress disturbed the monooxygenase system, and thus generated reactive oxygen species (ROS). Relief of ER stress with 4-phenylbutyric acid inhibited all the above effects of TiO<sub>2</sub> NPs, including the generation of ROS. Therefore, TiO<sub>2</sub> NP-induced ER stress was a decisive factor with a central role in plasma glucose disturbance in mice.
DOI: 10.6084/m9.figshare.5955787
title: Supplementary Data 2 (model inputs) from Migratory behaviour predicts greater parasite diversity in ungulates

description: CSV file of all model inputs, including movement data, parasite species richness, and additional life-history traits for ungulate species
DOI: 10.6084/m9.figshare.5955787.v1
title: Supplementary Data 2 (model inputs) from Migratory behaviour predicts greater parasite diversity in ungulates

description: CSV file of all model inputs, including movement data, parasite species richness, and additional life-history traits for ungulate species
DOI: 10.6084/m9.figshare.5960326
title: Additional file 1 of Meta-analysis of association between TCF7L2 polymorphism rs7903146 and type 2 diabetes mellitus

description: Table S1. The detailed information about the search strategy. Table S2. The collected data in the meta-analysis. (XLSX 13 kb)
DOI: 10.6084/m9.figshare.5960326.v1
title: Additional file 1 of Meta-analysis of association between TCF7L2 polymorphism rs7903146 and type 2 diabetes mellitus

description: Table S1. The detailed information about the search strategy. Table S2. The collected data in the meta-analysis. (XLSX 13 kb)
DOI: 10.6084/m9.figshare.5960335
title: Additional file 1: of Novel hemostatic biomolecules based on elastin-like polypeptides and the self-assembling peptide RADA-16

description: The sequencing result of the coding region of RADA-16 in the C-terminus of 36R. This result indicated the coding sequence of RADA-16 in cloning vector pMD19-T-hELP36-RADA-16. (AB1 291 kb)
DOI: 10.6084/m9.figshare.5960335.v1
title: Additional file 1: of Novel hemostatic biomolecules based on elastin-like polypeptides and the self-assembling peptide RADA-16

description: The sequencing result of the coding region of RADA-16 in the C-terminus of 36R. This result indicated the coding sequence of RADA-16 in cloning vector pMD19-T-hELP36-RADA-16. (AB1 291 kb)
DOI: 10.6084/m9.figshare.5960350
title: Additional file 2: of Novel hemostatic biomolecules based on elastin-like polypeptides and the self-assembling peptide RADA-16

description: The sequencing result of the coding region of RADA-16 in the C-terminus of 60R. This result indicated the coding sequence of RADA-16 in cloning vector pMD19-T-hELP60-RADA-16. (AB1 292 kb)
DOI: 10.6084/m9.figshare.5960350.v1
title: Additional file 2: of Novel hemostatic biomolecules based on elastin-like polypeptides and the self-assembling peptide RADA-16

description: The sequencing result of the coding region of RADA-16 in the C-terminus of 60R. This result indicated the coding sequence of RADA-16 in cloning vector pMD19-T-hELP60-RADA-16. (AB1 292 kb)
DOI: 10.6084/m9.figshare.5960374
title: Additional file 3: of Novel hemostatic biomolecules based on elastin-like polypeptides and the self-assembling peptide RADA-16

description: The sequencing result of the coding region of RADA-16 in the C-terminus of 96R. This result indicated the coding sequence of RADA-16 in cloning vector pMD19-T-hELP96-RADA-16. (AB1 292 kb)
DOI: 10.6084/m9.figshare.5960374.v1
title: Additional file 3: of Novel hemostatic biomolecules based on elastin-like polypeptides and the self-assembling peptide RADA-16

description: The sequencing result of the coding region of RADA-16 in the C-terminus of 96R. This result indicated the coding sequence of RADA-16 in cloning vector pMD19-T-hELP96-RADA-16. (AB1 292 kb)
DOI: 10.6084/m9.figshare.5960446
title: Additional file 2: of Prediction of sensitivity to gefitinib/erlotinib for EGFR mutations in NSCLC based on structural interaction fingerprints and multilinear principal component analysis

description: The list of extracted 20 features for EGFR mutant-gefitinib and -erlotinib complexes. The first column is the mutation name. The last column is the response level to gefitinib or erlotinib. The first row is the index of features. (XLSX 27Â kb)
DOI: 10.6084/m9.figshare.5960446.v1
title: Additional file 2: of Prediction of sensitivity to gefitinib/erlotinib for EGFR mutations in NSCLC based on structural interaction fingerprints and multilinear principal component analysis

description: The list of extracted 20 features for EGFR mutant-gefitinib and -erlotinib complexes. The first column is the mutation name. The last column is the response level to gefitinib or erlotinib. The first row is the index of features. (XLSX 27Â kb)