cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.12502832.v1
title: Additional file 2 of Implementing electronic decision-support tools to strengthen healthcare network data-driven decision-making

description: Additional file 2. Data Collection Tool and Database.
DOI: 10.6084/m9.figshare.12502799
title: Additional file 2 of Interference chromatography: a novel approach to optimizing chromatographic selectivity and separation performance for virus purification

description: Additional file 2.
DOI: 10.6084/m9.figshare.12502793
title: Additional file 2 of Identification of a novel IL-5 signaling pathway in chronic pancreatitis and crosstalk with pancreatic tumor cells

description: Additional file 1: Figure S1. Oncogenic Akt1myr alone does not induce stromal changes and increased immune cell infiltration with cerulein injections. Table S1. Akt1Myr/KRasG12D mice with chronic inflammation progresses to more severe pancreatic cancer and metastasis compared to KRasG12D mice. Figure S2. Immune cell infiltration in pancreatic cancer. Figure S3. Gating strategy for identification of M1 and M2 macrophage populations. Figure S4. Gating strategy for identification of cytotoxic and non-cytotoxic eosinophil populations. Table S2. Patient information and pathology for tissue samples evaluated for IL-5Rα.
DOI: 10.6084/m9.figshare.12502799.v1
title: Additional file 2 of Interference chromatography: a novel approach to optimizing chromatographic selectivity and separation performance for virus purification

description: Additional file 2.
DOI: 10.6084/m9.figshare.12502793.v1
title: Additional file 2 of Identification of a novel IL-5 signaling pathway in chronic pancreatitis and crosstalk with pancreatic tumor cells

description: Additional file 1: Figure S1. Oncogenic Akt1myr alone does not induce stromal changes and increased immune cell infiltration with cerulein injections. Table S1. Akt1Myr/KRasG12D mice with chronic inflammation progresses to more severe pancreatic cancer and metastasis compared to KRasG12D mice. Figure S2. Immune cell infiltration in pancreatic cancer. Figure S3. Gating strategy for identification of M1 and M2 macrophage populations. Figure S4. Gating strategy for identification of cytotoxic and non-cytotoxic eosinophil populations. Table S2. Patient information and pathology for tissue samples evaluated for IL-5Rα.
DOI: 10.6084/m9.figshare.12502577
title: Additional file 8 of A novel hotspot and rare somatic mutation p.A138V, at TP53 is associated with poor survival of pancreatic ductal and periampullary adenocarcinoma patients

description: Additional file 8.
DOI: 10.6084/m9.figshare.12502562
title: Additional file 6 of A novel hotspot and rare somatic mutation p.A138V, at TP53 is associated with poor survival of pancreatic ductal and periampullary adenocarcinoma patients

description: Additional file 6.
DOI: 10.6084/m9.figshare.12502577.v1
title: Additional file 8 of A novel hotspot and rare somatic mutation p.A138V, at TP53 is associated with poor survival of pancreatic ductal and periampullary adenocarcinoma patients

description: Additional file 8.
DOI: 10.6084/m9.figshare.12502562.v1
title: Additional file 6 of A novel hotspot and rare somatic mutation p.A138V, at TP53 is associated with poor survival of pancreatic ductal and periampullary adenocarcinoma patients

description: Additional file 6.
DOI: 10.6084/m9.figshare.12502553
title: Additional file 5 of A novel hotspot and rare somatic mutation p.A138V, at TP53 is associated with poor survival of pancreatic ductal and periampullary adenocarcinoma patients

description: Additional file 5.
DOI: 10.6084/m9.figshare.12502544
title: Additional file 4 of A novel hotspot and rare somatic mutation p.A138V, at TP53 is associated with poor survival of pancreatic ductal and periampullary adenocarcinoma patients

description: Additional file 4.
DOI: 10.6084/m9.figshare.12502553.v1
title: Additional file 5 of A novel hotspot and rare somatic mutation p.A138V, at TP53 is associated with poor survival of pancreatic ductal and periampullary adenocarcinoma patients

description: Additional file 5.
DOI: 10.6084/m9.figshare.12502535
title: Additional file 3 of A novel hotspot and rare somatic mutation p.A138V, at TP53 is associated with poor survival of pancreatic ductal and periampullary adenocarcinoma patients

description: Additional file 3.
DOI: 10.6084/m9.figshare.12502544.v1
title: Additional file 4 of A novel hotspot and rare somatic mutation p.A138V, at TP53 is associated with poor survival of pancreatic ductal and periampullary adenocarcinoma patients

description: Additional file 4.
DOI: 10.6084/m9.figshare.12502535.v1
title: Additional file 3 of A novel hotspot and rare somatic mutation p.A138V, at TP53 is associated with poor survival of pancreatic ductal and periampullary adenocarcinoma patients

description: Additional file 3.
DOI: 10.6084/m9.figshare.12502508
title: Additional file 13 of A novel hotspot and rare somatic mutation p.A138V, at TP53 is associated with poor survival of pancreatic ductal and periampullary adenocarcinoma patients

description: Additional file 13.
DOI: 10.6084/m9.figshare.12502502
title: Additional file 12 of A novel hotspot and rare somatic mutation p.A138V, at TP53 is associated with poor survival of pancreatic ductal and periampullary adenocarcinoma patients

description: Additional file 12.
DOI: 10.6084/m9.figshare.12502508.v1
title: Additional file 13 of A novel hotspot and rare somatic mutation p.A138V, at TP53 is associated with poor survival of pancreatic ductal and periampullary adenocarcinoma patients

description: Additional file 13.
DOI: 10.6084/m9.figshare.12502502.v1
title: Additional file 12 of A novel hotspot and rare somatic mutation p.A138V, at TP53 is associated with poor survival of pancreatic ductal and periampullary adenocarcinoma patients

description: Additional file 12.
DOI: 10.6084/m9.figshare.12502484
title: Additional file 10 of A novel hotspot and rare somatic mutation p.A138V, at TP53 is associated with poor survival of pancreatic ductal and periampullary adenocarcinoma patients

description: Additional file 10.
DOI: 10.6084/m9.figshare.12502484.v1
title: Additional file 10 of A novel hotspot and rare somatic mutation p.A138V, at TP53 is associated with poor survival of pancreatic ductal and periampullary adenocarcinoma patients

description: Additional file 10.
DOI: 10.25405/data.ncl.12855221
title: Carbon and kilocalories evaluation of food products

description: Full dataset used in the analyses. Data on the estimation of carbon footprint and kilocalories of 43 food products sold in a retailer. Psychometric information of the respondents are also included. <br>
DOI: 10.25405/data.ncl.12855221.v1
title: Carbon and kilocalories evaluation of food products

description: Full dataset used in the analyses. Data on the estimation of carbon footprint and kilocalories of 43 food products sold in a retailer. Psychometric information of the respondents are also included. <br>
DOI: 10.6084/m9.figshare.12502313
title: Supplementary Data 1

description: LC-MS/MS data analyses of MaSp1 proteins (1-mer, 2-mer, 3-mer or 6-mer) expressed in recombinant <i>Rhodovulum sulfidophilum</i>.
DOI: 10.6084/m9.figshare.12502313.v1
title: Supplementary Data 1

description: LC-MS/MS data analyses of MaSp1 proteins (1-mer, 2-mer, 3-mer or 6-mer) expressed in recombinant <i>Rhodovulum sulfidophilum</i>.
DOI: 10.6084/m9.figshare.12502169
title: Carnivore Coexistence--Lamb et al. 2020 PNAS

description: data
DOI: 10.6084/m9.figshare.12502274
title: JVASP-14089 to JVASP-14839

description: JARVIS-DFT input/output files
DOI: 10.6084/m9.figshare.12502163
title: Molecular Design Principles of Lysine-DOPA Wet Adhesion-Source Data

description: To maximize the reproducibility of our research data in "Molecular Design Principles of Lysine-DOPA Wet Adhesion" manuscript accepted for Nature Communications we would like to provide a file containing the raw data underlying the display items. The data is provided in a single Excel file with data for each figure in a separate sheet.
DOI: 10.6084/m9.figshare.12502145
title: Microbial imprints on sulfide minerals in submarine hydrothermal deposits

description: Diverse numbers of iron- and sulfur-oxidizing microbes have been found in submarine hydrothermal deposits. They have played a prominent role in weathering of seafloor sulfide deposits. However, evidence for microbe-mineral interactions in sediments is rare. Mineralogic analysis and scanning electron microscopy and energy-dispersive X-ray spectroscopy (SEM-EDX) examination of sulfide deposits from the East Pacific Rise demonstrated that (1) sulfide minerals were extensively leached, with characteristic microbial dissolution pits on mineral surfaces; (2) the possible <i>Acidithiobacillus</i>-like bacteria and metabolites were found closely associated with the dissolution pits <i>in situ</i>. The results provide direct evidence for microbial leaching on the solid mineral crystals, most likely by the contact mechanisms, in the seafloor sulfide deposits.
DOI: 10.6084/m9.figshare.12502145.v1
title: Microbial imprints on sulfide minerals in submarine hydrothermal deposits

description: Diverse numbers of iron- and sulfur-oxidizing microbes have been found in submarine hydrothermal deposits. They have played a prominent role in weathering of seafloor sulfide deposits. However, evidence for microbe-mineral interactions in sediments is rare. Mineralogic analysis and scanning electron microscopy and energy-dispersive X-ray spectroscopy (SEM-EDX) examination of sulfide deposits from the East Pacific Rise demonstrated that (1) sulfide minerals were extensively leached, with characteristic microbial dissolution pits on mineral surfaces; (2) the possible <i>Acidithiobacillus</i>-like bacteria and metabolites were found closely associated with the dissolution pits <i>in situ</i>. The results provide direct evidence for microbial leaching on the solid mineral crystals, most likely by the contact mechanisms, in the seafloor sulfide deposits.
DOI: 10.6084/m9.figshare.12502169.v1
title: Carnivore Coexistence--Lamb et al. 2020 PNAS

description: data
DOI: 10.6084/m9.figshare.12502169.v2
title: Carnivore Coexistence--Lamb et al. 2020 PNAS

description: data
DOI: 10.6084/m9.figshare.12502097
title: Gene database of Staphylococcus epidermidis ATCC 12228

description: A part of the normal skin microbiota, <i>Staphylococcus epidermidis</i> has raised increasing concern amongst the medical community as opportunistic pathogens particularly in those with compromised immune system. Facultative anaerobic and Gram-positive in nature, the bacterium forms biofilm that is hard to eradicate, especially from surfaces of catheter. This work provides a gene database of <i>S. epidermidis</i> ATCC 12228 by parsing the Genbank genome file of the species. Comprising gene name, gene function descriptor, and gene sequence of every gene in the annotated genome file of the bacterium, this resource should find use in studies seeking to understand the pathogenetic mechanism of the species through loss-of-function analysis or mutagenesis.
DOI: 10.6084/m9.figshare.12502097.v1
title: Gene database of Staphylococcus epidermidis ATCC 12228

description: A part of the normal skin microbiota, <i>Staphylococcus epidermidis</i> has raised increasing concern amongst the medical community as opportunistic pathogens particularly in those with compromised immune system. Facultative anaerobic and Gram-positive in nature, the bacterium forms biofilm that is hard to eradicate, especially from surfaces of catheter. This work provides a gene database of <i>S. epidermidis</i> ATCC 12228 by parsing the Genbank genome file of the species. Comprising gene name, gene function descriptor, and gene sequence of every gene in the annotated genome file of the bacterium, this resource should find use in studies seeking to understand the pathogenetic mechanism of the species through loss-of-function analysis or mutagenesis.
DOI: 10.6084/m9.figshare.12502055
title: hgcAB-concatenated-alignment

description: Concatenated alignment of 597 methylators that contain both hgcA and hgcB and have more than 12 ribosomal proteins to use for comparing to the concatenated ribosomal protein tree. Four fused hgcAB sequences were added to root the tree with, and a consensus alignment between the hgcAB tree and the fused hgcAB sequence alignment was created with muscle.
DOI: 10.6084/m9.figshare.12502085
title: Supplemental Figures and Tables

description: Supplemental Figures and Tables for manuscript, "Metabolomics analysis of annual killifish (<i>Austrofundulus limnaeus</i>) embryos during aerial dehydration stress"Daniel E. Zajic and Jason E. PodrabskyPhysiological Genomics (2020)<br>
DOI: 10.6084/m9.figshare.12502028
title: Rawdata from Assessing Students’ Acquisition Levels of Learning Strategies Using IRT: Toward the Promotions of Self-regulated Learners

description: Raw data
DOI: 10.6084/m9.figshare.12502052
title: hgcB-proteins

description: Protein sequences for 844 genomes hgcB was identified in using the hgcB.hmm profile and confirmed conserved domains.
DOI: 10.6084/m9.figshare.12502022
title: Data from "Reversals of reforestation across Latin America limit climate mitigation potential of tropical forests"

description: Included here is a shapefile containing the dataset for Schwartz et al. 2020 "Reversals of reforestation across Latin America limit climate mitigation potential of tropical forests". Columns labeled wV_YEAR are woody vegetation values for each year of the study, in hectares. There is also a column for UNQ (a unique identifier for each hexagon) and country.
DOI: 10.6084/m9.figshare.12502052.v1
title: hgcB-proteins

description: Protein sequences for 844 genomes hgcB was identified in using the hgcB.hmm profile and confirmed conserved domains.
DOI: 10.6084/m9.figshare.12502055.v1
title: hgcAB-concatenated-alignment

description: Concatenated alignment of 597 methylators that contain both hgcA and hgcB and have more than 12 ribosomal proteins to use for comparing to the concatenated ribosomal protein tree. Four fused hgcAB sequences were added to root the tree with, and a consensus alignment between the hgcAB tree and the fused hgcAB sequence alignment was created with muscle.
DOI: 10.6084/m9.figshare.12502028.v1
title: Rawdata from Assessing Students’ Acquisition Levels of Learning Strategies Using IRT: Toward the Promotions of Self-regulated Learners

description: Raw data
DOI: 10.6084/m9.figshare.12501674
title: DataFilter_Script for experiment 2

description: To determine how DEX treatment in WT and MKO mice leads to muscle atrophy, we measured muscle protein fractional synthesis rates using shot-gun LC-MS/MS analysis after <i>in vivo</i> <sup>2</sup>H<sub>2</sub>O labeling . Mice were treated with PBS or DEX for 10 days. During the final 7 days, mice were also labeled with <sup>2</sup>H<sub>2</sub>O. The sample size for wild type controls treated with PBS (WT-PBS, n=6), wild type treated with DEX (WT-DEX, n=6), MKO treated with PBS (MKO-PBS, n=5) and MKO treated with DEX (MKO-DEX, n=5). The rational for biological replicates of n=5 -6 were used to ensure accurate comparison among each group. Biological replicates were chosen to asses biological variability rather than sole reliance on technical replicates. Controls included WT-PBS treated mice (n=6). Two separate dynamic proteomic experiments were completed and combined for final data analysis. This consisted of experiment 1 that included WT-PBS (n=4) and WT-DEX (n=4). Experiment 2 included the final biological replicates of WT-PBS (n=2), WT-DEX (n=2), MKO-PBS (n=5) and MKO-DEX (n=5). The data sets were combined and annotated as described by the following.<br>The data filter script contains the mass isotopomer distribution processed data that includes the peptide output, protein output, parameters, and project details for experiment 2.
DOI: 10.6084/m9.figshare.12501701
title: Combined Analysis DataFilter_Script for experiment 1 & 2

description: To determine how DEX treatment in WT and MKO mice leads to muscle atrophy, we measured muscle protein fractional synthesis rates using shot-gun LC-MS/MS analysis after <i>in vivo</i> <sup>2</sup>H<sub>2</sub>O labeling. Mice were treated with PBS or DEX for 10 days. During the final 7 days, mice were also labeled with <sup>2</sup>H<sub>2</sub>O. The sample size for wild type controls treated with PBS (WT-PBS, n=6), wild type treated with DEX (WT-DEX, n=6), MKO treated with PBS (MKO-PBS, n=5) and MKO treated with DEX (MKO-DEX, n=5). The rational for biological replicates of n=5-6 were used to ensure accurate comparison among each group. Biological replicates were chosen to asses biological variability rather than sole reliance on technical replicates. Controls included WT-PBS treated mice (n=6). Two separate dynamic proteomic experiments were completed and combined for final data analysis. This consisted of experiment 1 that included WT-PBS (n=4) and WT-DEX (n=4). Experiment 2 included the final biological replicates of WT-PBS (n=2), WT-DEX (n=2), MKO-PBS (n=5) and MKO-DEX (n=5). The data sets were combined and annotated as described by the following. We used several filtering criteria for inclusion of protein kinetic data that were included in the comparisons: more than one peptide had to be present for any protein; each peptide had to meet analytic accuracy criteria for fractional mass isotopomer abundances and for reproducibility; a protein had to be present in at least 3 animals per group; and these criteria had to be met for the protein in all 4 groups. The number of proteins meeting these criteria was 81 in WT-PBS, 88 in WT-DEX, 124 in MKO-PBS and 134 in MKO-DEX and 57 proteins met these criteria in gastrocnemius muscle in all 4 groups. To determine the difference in protein fractional synthesis rates (f), four groups were categorized as the following: WT-PBS, WT-DEX, MKO-PBS and MKO-DEX. The mean, medium, and standard deviation for each protein (n≥3 for each group) were calculated, and a 2X2 ANOVA analysis (InfernoRDN) was performed to compare the treatment, genotype, and interaction effects. Protein fractional synthesis were averaged within groups and the percent changes were compared across each group. An increase or decrease in fractional synthesis was assessed as ± 0.0 %. A binomial distribution statistical analysis was used to calculate the significance of the relative percent increase or decrease in GA protein fractional synthesis. Average protein fractional synthesis was also assessed by ANOVA followed by the Benjamini and Hochberg test for multiple comparisons (FDR=0.05, p ≤0.05) using GraphPad Prism version 8.0 for Mac, GraphPad Software, La Jolla California USA.<br>This is the combined data filter for protein kinetics data for experiment 1 and 2.
DOI: 10.6084/m9.figshare.12501659
title: DataFilter_Script for experiment 1

description: To determine how DEX treatment in WT and MKO mice leads to muscle atrophy, we measured muscle protein fractional synthesis rates using shot-gun LC-MS/MS analysis after <i>in vivo</i> <sup>2</sup>H<sub>2</sub>O labeling . Mice were treated with PBS or DEX for 10 days. During the final 7 days, mice were also labeled with <sup>2</sup>H<sub>2</sub>O. The sample size for wild type controls treated with PBS (WT-PBS, n=6), wild type treated with DEX (WT-DEX, n=6), MKO treated with PBS (MKO-PBS, n=5) and MKO treated with DEX (MKO-DEX, n=5). The rational for biological replicates of n=5 -6 were used to ensure accurate comparison among each group. Biological replicates were chosen to asses biological variability rather than sole reliance on technical replicates. Controls included WT-PBS treated mice (n=6). Two separate dynamic proteomic experiments were completed and combined for final data analysis. This consisted of experiment 1 that included WT-PBS (n=4) and WT-DEX (n=4). Experiment 2 included the final biological replicates of WT-PBS (n=2), WT-DEX (n=2), MKO-PBS (n=5) and MKO-DEX (n=5). The data sets were combined and annotated as described by the following.<br>The data filter script contains the mass isotopomer distribution processed data that includes the peptide output, protein output, parameters, and project details for experiment 1.
DOI: 10.6084/m9.figshare.12501674.v1
title: DataFilter_Script for experiment 2

description: To determine how DEX treatment in WT and MKO mice leads to muscle atrophy, we measured muscle protein fractional synthesis rates using shot-gun LC-MS/MS analysis after <i>in vivo</i> <sup>2</sup>H<sub>2</sub>O labeling . Mice were treated with PBS or DEX for 10 days. During the final 7 days, mice were also labeled with <sup>2</sup>H<sub>2</sub>O. The sample size for wild type controls treated with PBS (WT-PBS, n=6), wild type treated with DEX (WT-DEX, n=6), MKO treated with PBS (MKO-PBS, n=5) and MKO treated with DEX (MKO-DEX, n=5). The rational for biological replicates of n=5 -6 were used to ensure accurate comparison among each group. Biological replicates were chosen to asses biological variability rather than sole reliance on technical replicates. Controls included WT-PBS treated mice (n=6). Two separate dynamic proteomic experiments were completed and combined for final data analysis. This consisted of experiment 1 that included WT-PBS (n=4) and WT-DEX (n=4). Experiment 2 included the final biological replicates of WT-PBS (n=2), WT-DEX (n=2), MKO-PBS (n=5) and MKO-DEX (n=5). The data sets were combined and annotated as described by the following.<br>The data filter script contains the mass isotopomer distribution processed data that includes the peptide output, protein output, parameters, and project details for experiment 2.