cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.5965846
title: leaf image

description: Rice leaf images under nitrogen deficiency
DOI: 10.6084/m9.figshare.5965846.v1
title: 1.tif

description: leaf images under nutrition deficiency
DOI: 10.6084/m9.figshare.5966878
title: Modelling data: Acquired resistance to IDH inhibition through trans or cis dimer-interface mutations

description: Modelling structures, settings, and scripts for figure generation accompanying the manuscript:<br><br>Acquired resistance to IDH inhibition through trans or cis dimer-interface mutations<br><br>Andrew M. Intlekofer, Alan H. Shih, Bo Wang, Abbas Nazir, Ariën S. Rustenburg, Steven K. Albanese, Minal Patel, Christopher Famulare, Fabian M. Correa, Naofumi Takemoto, Vidushi Durani, Hui Liu, Justin Taylor, Noushin R. Farnoud, Elli Papaemmannuil, Justin R. Cross, Martin S. Tallman, Maria E. Arcila, Mikhail Roshal, Gregory A. Petsko, Bin Wu, Sung Choe, Zenon D. Konteatis, Scott A. Biller, John D. Chodera, Craig B. Thompson*, Ross L. Levine, Eytan M. Stein<br><br>(Reference to published manuscript to be added)<br>
DOI: 10.6084/m9.figshare.5966878.v1
title: Modelling data: Acquired clinical resistance to IDH inhibition through in trans IDH2 mutations

description: Modelling structures, settings, and scripts for figure generation accompanying the manuscript:<br><br>Acquired clinical resistance to IDH inhibition through in trans IDH mutations<br><br>Andrew M. Intlekofer, Alan H. Shih, Bo Wang, Abbas Nazir, Ariën S. Rustenburg, Steven K. Albanese, Minal Patel, Christopher Famulare, Fabian M. Correa, Naofumi Takemoto, Vidushi Durani, Hui Liu, Justin Taylor, Noushin R. Farnoud, Elli Papaemmannuil, Justin R. Cross, Martin S. Tallman, Maria E. Arcila, Mikhail Roshal, Gregory A. Petsko, John D. Chodera, Craig B. Thompson*, Ross L. Levine, Eytan M. Stein<br><br>(Reference to published manuscript to be added)<br>
DOI: 10.6084/m9.figshare.5966878.v2
title: Modelling data: Acquired resistance to IDH inhibition through trans or cis dimer-interface mutations

description: Modelling structures, settings, and scripts for figure generation accompanying the manuscript:<br><br>Acquired resistance to IDH inhibition through trans or cis dimer-interface mutations<br><br>Andrew M. Intlekofer, Alan H. Shih, Bo Wang, Abbas Nazir, Ariën S. Rustenburg, Steven K. Albanese, Minal Patel, Christopher Famulare, Fabian M. Correa, Naofumi Takemoto, Vidushi Durani, Hui Liu, Justin Taylor, Noushin R. Farnoud, Elli Papaemmannuil, Justin R. Cross, Martin S. Tallman, Maria E. Arcila, Mikhail Roshal, Gregory A. Petsko, Bin Wu, Sung Choe, Zenon D. Konteatis, Scott A. Biller, John D. Chodera, Craig B. Thompson*, Ross L. Levine, Eytan M. Stein<br><br>(Reference to published manuscript to be added)<br>
DOI: 10.6084/m9.figshare.5969605
title: MOESM2 of Change of ranibizumab-induced human vitreous protein profile in patients with proliferative diabetic retinopathy based on proteomics analysis

description: Additional file 2. Protein list detected by LC-MS/MS.
DOI: 10.6084/m9.figshare.5969605.v1
title: MOESM2 of Change of ranibizumab-induced human vitreous protein profile in patients with proliferative diabetic retinopathy based on proteomics analysis

description: Additional file 2. Protein list detected by LC-MS/MS.
DOI: 10.6084/m9.figshare.5976097
title: Additional file 1: Table S1. of Microarray analysis of long non-coding RNA expression profiles uncovers a Toxoplasma-induced negative regulation of host immune signaling

description: A list of primer sequences used for the real-time qPCR detection. (XLSX 11 kb)
DOI: 10.6084/m9.figshare.5976097.v1
title: Additional file 1: Table S1. of Microarray analysis of long non-coding RNA expression profiles uncovers a Toxoplasma-induced negative regulation of host immune signaling

description: A list of primer sequences used for the real-time qPCR detection. (XLSX 11 kb)
DOI: 10.6084/m9.figshare.5976109
title: Additional file 2: Table S2. of Microarray analysis of long non-coding RNA expression profiles uncovers a Toxoplasma-induced negative regulation of host immune signaling

description: A list of significantly differentially expressed lncRNAs between the T. gondii infected and uninfected groups. (XLSX 63 kb)
DOI: 10.6084/m9.figshare.5976109.v1
title: Additional file 2: Table S2. of Microarray analysis of long non-coding RNA expression profiles uncovers a Toxoplasma-induced negative regulation of host immune signaling

description: A list of significantly differentially expressed lncRNAs between the T. gondii infected and uninfected groups. (XLSX 63 kb)
DOI: 10.6084/m9.figshare.5976121.v1
title: Additional file 1 of Inferring RNA sequence preferences for poorly studied RNA-binding proteins based on co-evolution

description: Supplementary Data. The excel document contains the Supplementary Data about the performances of different methods on InVitro, InVivoRay and InVivoAURA datasets, as well as the composition of each datasets (including species and RNA-binding domain information). (XLSX 32 kb)
DOI: 10.6084/m9.figshare.5976121
title: Additional file 1 of Inferring RNA sequence preferences for poorly studied RNA-binding proteins based on co-evolution

description: Supplementary Data. The excel document contains the Supplementary Data about the performances of different methods on InVitro, InVivoRay and InVivoAURA datasets, as well as the composition of each datasets (including species and RNA-binding domain information). (XLSX 32 kb)
DOI: 10.6084/m9.figshare.5976124
title: Additional file 3: Table S3. of Microarray analysis of long non-coding RNA expression profiles uncovers a Toxoplasma-induced negative regulation of host immune signaling

description: A list of significantly differentially expressed lncRNAs between the T. gondii infected and inactivated groups. (XLSX 68 kb)
DOI: 10.6084/m9.figshare.5976124.v1
title: Additional file 3: Table S3. of Microarray analysis of long non-coding RNA expression profiles uncovers a Toxoplasma-induced negative regulation of host immune signaling

description: A list of significantly differentially expressed lncRNAs between the T. gondii infected and inactivated groups. (XLSX 68 kb)
DOI: 10.6084/m9.figshare.5976142
title: Additional file 4: Table S4. of Microarray analysis of long non-coding RNA expression profiles uncovers a Toxoplasma-induced negative regulation of host immune signaling

description: A list of significantly differentially expressed mRNAs between the T. gondii infected and uninfected groups. (XLSX 15 kb)
DOI: 10.6084/m9.figshare.5976142.v1
title: Additional file 4: Table S4. of Microarray analysis of long non-coding RNA expression profiles uncovers a Toxoplasma-induced negative regulation of host immune signaling

description: A list of significantly differentially expressed mRNAs between the T. gondii infected and uninfected groups. (XLSX 15 kb)
DOI: 10.6084/m9.figshare.5976163
title: Additional file 5: Table S5. of Microarray analysis of long non-coding RNA expression profiles uncovers a Toxoplasma-induced negative regulation of host immune signaling

description: A list of significantly differentially expressed mRNAs between the T. gondii infected and uninfected groups. (XLSX 17 kb)
DOI: 10.6084/m9.figshare.5976163.v1
title: Additional file 5: Table S5. of Microarray analysis of long non-coding RNA expression profiles uncovers a Toxoplasma-induced negative regulation of host immune signaling

description: A list of significantly differentially expressed mRNAs between the T. gondii infected and uninfected groups. (XLSX 17 kb)
DOI: 10.6084/m9.figshare.5976205
title: Additional file 1: of Effects of dietary Bacillus amyloliquefaciens supplementation on growth performance, intestinal morphology, inflammatory response, and microbiota of intra-uterine growth retarded weanling piglets

description: Availability of data and materials. (XLSX 32 kb)
DOI: 10.6084/m9.figshare.5976205.v1
title: Additional file 1: of Effects of dietary Bacillus amyloliquefaciens supplementation on growth performance, intestinal morphology, inflammatory response, and microbiota of intra-uterine growth retarded weanling piglets

description: Availability of data and materials. (XLSX 32 kb)
DOI: 10.6084/m9.figshare.5976241
title: Additional file 1: of Prospective associations between pulse pressure and cognitive performance in Chinese middle-aged and older population across a 5-year study period

description: Final dataset. (XLSX 2360 kb)
DOI: 10.6084/m9.figshare.5976241.v1
title: Additional file 1: of Prospective associations between pulse pressure and cognitive performance in Chinese middle-aged and older population across a 5-year study period

description: Final dataset. (XLSX 2360 kb)
DOI: 10.6084/m9.figshare.5976289
title: Additional file 1: of Analysis of microRNA profile of Anopheles sinensis by deep sequencing and bioinformatic approaches

description: Table S1. miRNA-specific primers used in qRT-PCR validation. (XLSX 10 kb)
DOI: 10.6084/m9.figshare.5976289.v1
title: Additional file 1: of Analysis of microRNA profile of Anopheles sinensis by deep sequencing and bioinformatic approaches

description: Table S1. miRNA-specific primers used in qRT-PCR validation. (XLSX 10 kb)
DOI: 10.6084/m9.figshare.5976307
title: Additional file 2: of Analysis of microRNA profile of Anopheles sinensis by deep sequencing and bioinformatic approaches

description: Table S2. miRNAs predicted from small RNA sequencing data of An. sinensis. (XLSX 33 kb)
DOI: 10.6084/m9.figshare.5976307.v1
title: Additional file 2: of Analysis of microRNA profile of Anopheles sinensis by deep sequencing and bioinformatic approaches

description: Table S2. miRNAs predicted from small RNA sequencing data of An. sinensis. (XLSX 33 kb)
DOI: 10.6084/m9.figshare.5976322
title: Additional file 3: of Molecular mechanisms of an antimicrobial peptide piscidin (Lc-pis) in a parasitic protozoan, Cryptocaryon irritans

description: BLAST analysis of non-redundant unigenes against public databases. (XLSX 10 kb)
DOI: 10.6084/m9.figshare.5976322.v1
title: Additional file 3: of Molecular mechanisms of an antimicrobial peptide piscidin (Lc-pis) in a parasitic protozoan, Cryptocaryon irritans

description: BLAST analysis of non-redundant unigenes against public databases. (XLSX 10 kb)
DOI: 10.6084/m9.figshare.5976325
title: Additional file 3: of Analysis of microRNA profile of Anopheles sinensis by deep sequencing and bioinformatic approaches

description: Table S3. miRNAs predicted by the bioinformatic approach. (XLSX 141 kb)
DOI: 10.6084/m9.figshare.5976325.v1
title: Additional file 3: of Analysis of microRNA profile of Anopheles sinensis by deep sequencing and bioinformatic approaches

description: Table S3. miRNAs predicted by the bioinformatic approach. (XLSX 141 kb)
DOI: 10.6084/m9.figshare.5976340
title: Additional file 4: of Molecular mechanisms of an antimicrobial peptide piscidin (Lc-pis) in a parasitic protozoan, Cryptocaryon irritans

description: Summary of the GO classifications of assembled unigenes. (XLSX 12 kb)
DOI: 10.6084/m9.figshare.5976340.v1
title: Additional file 4: of Molecular mechanisms of an antimicrobial peptide piscidin (Lc-pis) in a parasitic protozoan, Cryptocaryon irritans

description: Summary of the GO classifications of assembled unigenes. (XLSX 12 kb)
DOI: 10.6084/m9.figshare.5976343
title: Additional file 4: of Analysis of microRNA profile of Anopheles sinensis by deep sequencing and bioinformatic approaches

description: Table S4. miRNA genes predicted from the genome of An. sinensis. (XLSX 17 kb)
DOI: 10.6084/m9.figshare.5976343.v1
title: Additional file 4: of Analysis of microRNA profile of Anopheles sinensis by deep sequencing and bioinformatic approaches

description: Table S4. miRNA genes predicted from the genome of An. sinensis. (XLSX 17 kb)
DOI: 10.6084/m9.figshare.5976364
title: Additional file 5: of Analysis of microRNA profile of Anopheles sinensis by deep sequencing and bioinformatic approaches

description: Table S5. List of miRNA targets identified by RNAhybrid on An. sinensis genes. (XLSX 35 kb)
DOI: 10.6084/m9.figshare.5976364.v1
title: Additional file 5: of Analysis of microRNA profile of Anopheles sinensis by deep sequencing and bioinformatic approaches

description: Table S5. List of miRNA targets identified by RNAhybrid on An. sinensis genes. (XLSX 35 kb)
DOI: 10.6084/m9.figshare.5977939
title: Remote senic interpretation from Landslides and dam damage resulting from the Jiuzhaigou earthquake (8 August 2017), Sichuan, China

description: Supplement is the result of geohazards distribution (landslides, dam damage) based on remote senic interpretation and field survey. This supplement can be handled with softwares such as Googleearth or Arcgis. many information (such as back slope effect, hanging wall effect, distribution law) can be obtained by this supplement
DOI: 10.6084/m9.figshare.5977939.v1
title: Remote senic interpretation from Landslides and dam damage resulting from the Jiuzhaigou earthquake (8 August 2017), Sichuan, China

description: Supplement is the result of geohazards distribution (landslides, dam damage) based on remote senic interpretation and field survey. This supplement can be handled with softwares such as Googleearth or Arcgis. many information (such as back slope effect, hanging wall effect, distribution law) can be obtained by this supplement
DOI: 10.6084/m9.figshare.5980306
title: Association of Monocyte Count on Admission with the Angiographic Thrombus Burden in Patients with ST-Segment Elevation Myocardial Infarction Undergoing Primary Percutaneous Coronary Intervention

description: Abstract Background: The intracoronary high-thrombus burden during the primary percutaneous coronary intervention in patients with ST-elevation myocardial infarction (STEMI) can lead to poor outcomes. Monocytes have been described to play an important role in thrombotic disorders. Objectives: This study aimed to investigate the relationship between admission monocyte count and angiographic intracoronary thrombus burden in patients receiving primary percutaneous coronary intervention (PPCI). Methods: A total of 273 patients with acute STEMI who underwent PPCI were enrolled. The patients were divided into two groups according to the thrombolysis in myocardial infarction (TIMI) thrombus grade: low-thrombus burden group with a grade of 0-2 and high-thrombus burden group with a grade of 3-4. The monocyte count and other laboratory parameters were measured on admission before PPCI. P-value &lt; 0.05 was considered significant. Results: There were 95 patients (34.8%) in the high-thrombus burden group, and 178 patients (65.2%) in the low-thrombus burden group. Patients with high-thrombus burden had significantly higher admission monocyte count (0.61 ± 0.29×109/L vs. 0.53 ± 0.24×109/L, p = 0.021). In multivariate analysis, monocyte count was the independent predictor of angiographic high-thrombus burden (odds ratio 3.107, 95% confidence interval [CI] 1.199-7.052, p = 0.020). For the prediction of angiographic high-thrombus burden, admission monocyte count at a cut-off value of 0.48×109/L yielded 0.59 ROC-AUC (71.9% sensitivity, 46.9% specificity). Conclusions: Monocyte count on admission was an independent clinical predictor of high-thrombus burden in patients with STEMI undergoing PPCI. Our findings suggest that admission monocyte count may be available for early risk stratification of high-thrombus burden in acute STEMI patients and might allow the optimization of antithrombotic therapy to improve the outcomes of PPCI.
DOI: 10.6084/m9.figshare.5980360
title: Melatonin-Induced Protective Effects on Cardiomyocytes Against Reperfusion Injury Partly Through Modulation of IP3R and SERCA2a Via Activation of ERK1

description: Resumo Background: Melatonin is a neuroendocrine hormone synthesized primarily by the pineal gland that is indicated to effectively prevent myocardial reperfusion injury. It is unclear whether melatonin protects cardiac function from reperfusion injury by modulating intracellular calcium homeostasis. Objective: Demonstrate that melatonin protect against myocardial reperfusion injury through modulating IP3R and SERCA2a to maintain calcium homeostasis via activation of ERK1 in cardiomyocytes. Methods: In vitro experiments were performed using H9C2 cells undergoing simulative hypoxia/reoxygenation (H/R) induction. Expression level of ERK1, IP3R and SERCA2a were assessed by Western Blots. Cardiomyocytes apoptosis was detected by TUNEL. Phalloidin-staining was used to assess alteration of actin filament organization of cardiomyocytes. Fura-2 /AM was used to measure intracellular Ca2+ concentration. Performing in vivo experiments, myocardial expression of IP3R and SERCA2a were detected by immunofluorescence staining using myocardial ischemia/ reperfusion (I/R) model in rats. Results: In vitro results showed that melatonin induces ERK1 activation in cardiomyocytes against H/R which was inhibited by PD98059 (ERK1 inhibitor). The results showed melatonin inhibit apoptosis of cardiomyocytes and improve actin filament organization in cardiomyocytes against H/R, because both could be reversed by PD98059. Melatonin was showed to reduce calcium overload, further to inhibit IP3R expression and promote SERCA2a expression via ERK1 pathway in cardiomyocytes against H/R. Melatonin induced lower IP3R and higher SERCA2a expression in myocardium that were reversed by PD98059. Conclusion: melatonin-induced cardioprotection against reperfusion injury is at least partly through modulation of IP3R and SERCA2a to maintain intracellular calcium homeostasis via activation of ERK1.
DOI: 10.6084/m9.figshare.5980360.v1
title: Melatonin-Induced Protective Effects on Cardiomyocytes Against Reperfusion Injury Partly Through Modulation of IP3R and SERCA2a Via Activation of ERK1

description: Resumo Background: Melatonin is a neuroendocrine hormone synthesized primarily by the pineal gland that is indicated to effectively prevent myocardial reperfusion injury. It is unclear whether melatonin protects cardiac function from reperfusion injury by modulating intracellular calcium homeostasis. Objective: Demonstrate that melatonin protect against myocardial reperfusion injury through modulating IP3R and SERCA2a to maintain calcium homeostasis via activation of ERK1 in cardiomyocytes. Methods: In vitro experiments were performed using H9C2 cells undergoing simulative hypoxia/reoxygenation (H/R) induction. Expression level of ERK1, IP3R and SERCA2a were assessed by Western Blots. Cardiomyocytes apoptosis was detected by TUNEL. Phalloidin-staining was used to assess alteration of actin filament organization of cardiomyocytes. Fura-2 /AM was used to measure intracellular Ca2+ concentration. Performing in vivo experiments, myocardial expression of IP3R and SERCA2a were detected by immunofluorescence staining using myocardial ischemia/ reperfusion (I/R) model in rats. Results: In vitro results showed that melatonin induces ERK1 activation in cardiomyocytes against H/R which was inhibited by PD98059 (ERK1 inhibitor). The results showed melatonin inhibit apoptosis of cardiomyocytes and improve actin filament organization in cardiomyocytes against H/R, because both could be reversed by PD98059. Melatonin was showed to reduce calcium overload, further to inhibit IP3R expression and promote SERCA2a expression via ERK1 pathway in cardiomyocytes against H/R. Melatonin induced lower IP3R and higher SERCA2a expression in myocardium that were reversed by PD98059. Conclusion: melatonin-induced cardioprotection against reperfusion injury is at least partly through modulation of IP3R and SERCA2a to maintain intracellular calcium homeostasis via activation of ERK1.
DOI: 10.6084/m9.figshare.24218970
title: Data to support: Molecular-level carbon traits undelie the multi-dimensional fine root economics space

description: This data includes three files.#66group.csv is 66 species and their clades.#66species.cellulose.lignin.csv is the rawdata of the content of cellulose and hemicellulose, and lignin of fine roots from 66 tropical tree species.#66species.splist.csv is 66 species and their genera and families.#66species.traits.csv is the rawdata of all 13 traits of fine roots from 66 tropical tree species. In brief, the 13 root traits comprise four “classic” economic traits (root diameter, specific root length, root tissue density, and root nitrogen content) and 9 carbon traits, including total root carbon content and 8 molecular-level structural C traits. The molecular-level structural C traits are analyzed via solid-state <sup>13</sup>C NMR and include alkyl C, <i>N-</i>alkyl/methoxy C, <i>O</i>-alkyl C, di-<i>O</i>-alkyl C, aromatic C, <i>O</i>-aromatic C, and carbonyl and carboxyl C, which are restricted within chemical shifts of 0-45, 45-60, 60-95, 95-110, 110-145, 145-165, and 165-210 ppm, respectively, in the <sup>13</sup>C NMR spectra. The relative biochemical molecules are shown in the bottom table. Root structural C trait diversity (H’<sub><em>RSC</em></sub>) is calculated for each species using the Shannon diversity index.#Bergmann.TabS1.csv is the loadings in the global root economics space of Bergmann et al., 2020 (reported in Table S1 of their work).#litrature.data.Series1.csv is the collected data from Fine-Root Ecology Database 3.0. It includes 113 data records (75 species and 5 unknown species): root diameter (mm), cellulose content (%), and hemicellulose content (%).#litrature.data.Series2.csv is the collected data from Fine-Root Ecology Database 3.0. It includes 315 data records (128 species and 62 unknown species): root tissue density (g cm<sup>-</sup><sup>3</sup>; also including the root dry matter content (RDMC) data) and lignin content (%).#Rcode.R is the R code used in this study.
DOI: 10.6084/m9.figshare.5981143
title: Additional file 2: of Integrated genomic analysis identifies clinically relevant subtypes of renal clear cell carcinoma

description: Table S1. Enriched genes in Actin Cytoskeleton pathway. (XLSX 11Â kb)
DOI: 10.6084/m9.figshare.5981143.v1
title: Additional file 2: of Integrated genomic analysis identifies clinically relevant subtypes of renal clear cell carcinoma

description: Table S1. Enriched genes in Actin Cytoskeleton pathway. (XLSX 11Â kb)
DOI: 10.6084/m9.figshare.5981152
title: Additional file 3: of Integrated genomic analysis identifies clinically relevant subtypes of renal clear cell carcinoma

description: Table S2. Enriched genes in MAPK Signal pathway. (XLSX 11Â kb)
DOI: 10.6084/m9.figshare.5981152.v1
title: Additional file 3: of Integrated genomic analysis identifies clinically relevant subtypes of renal clear cell carcinoma

description: Table S2. Enriched genes in MAPK Signal pathway. (XLSX 11Â kb)
DOI: 10.6084/m9.figshare.5981164
title: Additional file 4: of Integrated genomic analysis identifies clinically relevant subtypes of renal clear cell carcinoma

description: Table S3. Enriched genes in Focal Adhesion pathway. (XLSX 11Â kb)
DOI: 10.6084/m9.figshare.5981164.v1
title: Additional file 4: of Integrated genomic analysis identifies clinically relevant subtypes of renal clear cell carcinoma

description: Table S3. Enriched genes in Focal Adhesion pathway. (XLSX 11Â kb)
DOI: 10.6084/m9.figshare.5981179
title: Additional file 5: of Integrated genomic analysis identifies clinically relevant subtypes of renal clear cell carcinoma

description: Table S4. Enriched genes in Pathways in Cancer. (XLSX 11Â kb)
DOI: 10.6084/m9.figshare.5981179.v1
title: Additional file 5: of Integrated genomic analysis identifies clinically relevant subtypes of renal clear cell carcinoma

description: Table S4. Enriched genes in Pathways in Cancer. (XLSX 11Â kb)
DOI: 10.6084/m9.figshare.5981188
title: Additional file 6: of Integrated genomic analysis identifies clinically relevant subtypes of renal clear cell carcinoma

description: Table S5. Enriched genes in Chemokine Signaling pathway. (XLSX 11Â kb)
DOI: 10.6084/m9.figshare.5981188.v1
title: Additional file 6: of Integrated genomic analysis identifies clinically relevant subtypes of renal clear cell carcinoma

description: Table S5. Enriched genes in Chemokine Signaling pathway. (XLSX 11Â kb)