cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.9350876.v1
title: Additional file 4 of Discovery of stroke-related blood biomarkers from gene expression network models

description: : This file contains a complete list of Hamming distance dâ =â 1 neighborhoods for the 6 predictive network-central genes, for both the control (non-stroke) and stroke gene expression networks. (TXT 9 kb)
DOI: 10.6084/m9.figshare.9350867
title: Additional file 3 of Discovery of stroke-related blood biomarkers from gene expression network models

description: : The file netcompbiomarkers_1395.txt lists the 47 genes identified as having statistically significant differences in centrality value between stroke and control (TXT 2 kb)
DOI: 10.6084/m9.figshare.9350861
title: Additional file 2 of Discovery of stroke-related blood biomarkers from gene expression network models

description: : The file diff_exp_results_control_vs_stroke.txt provides a complete list of log FC and p-values for genes in stroke vs. control samples (TXT 1263 kb)
DOI: 10.6084/m9.figshare.9350819
title: Additional file 1: of Role of inferior vena cava collapsibility index in the prediction of hypotension associated with general anesthesia: an observational study

description: Dataset of the study. Categorical questions were marked with 1 (yes) or 0 (no). (XLSX 26 kb)
DOI: 10.6084/m9.figshare.9350819.v1
title: Additional file 1: of Role of inferior vena cava collapsibility index in the prediction of hypotension associated with general anesthesia: an observational study

description: Dataset of the study. Categorical questions were marked with 1 (yes) or 0 (no). (XLSX 26 kb)
DOI: 10.6084/m9.figshare.9350798
title: Additional file 1: of Substantial batch effects in TCGA exome sequences undermine pan-cancer analysis of germline variants

description: Figure S1. Number of variants in exomes per sample across ethnic groups and cancer types. Figure S2. Variability in called variants across TCGA sequencing centers for variants that are in consensus (at least two different variant calling tools.). Figure S3. Average number of variants per sample based on an alternative variant calling pipeline (for all 33 cancer types). Figure S4. Germline variant distribution plots for representative genes by cancer types. Table S1. Number of variants in exomes per sample across ethnic groups and cancer types. Table S2. Cancer-type statistics derived from TCGA. Table S3. Kolmogorov-Smirnov P-value per gene across all pairs of the 6 analyzed cancer types. A measure of the batch distinctive variant distribution pattern is shown for the 104 CPG annotated by COSMIC (named “104 CPG”) and the entire genes (named “all genes”). The table lists all genes with at least a single variant among the compared groups. (ZIP 5414 kb)
DOI: 10.6084/m9.figshare.9350798.v1
title: Additional file 1: of Substantial batch effects in TCGA exome sequences undermine pan-cancer analysis of germline variants

description: Figure S1. Number of variants in exomes per sample across ethnic groups and cancer types. Figure S2. Variability in called variants across TCGA sequencing centers for variants that are in consensus (at least two different variant calling tools.). Figure S3. Average number of variants per sample based on an alternative variant calling pipeline (for all 33 cancer types). Figure S4. Germline variant distribution plots for representative genes by cancer types. Table S1. Number of variants in exomes per sample across ethnic groups and cancer types. Table S2. Cancer-type statistics derived from TCGA. Table S3. Kolmogorov-Smirnov P-value per gene across all pairs of the 6 analyzed cancer types. A measure of the batch distinctive variant distribution pattern is shown for the 104 CPG annotated by COSMIC (named “104 CPG”) and the entire genes (named “all genes”). The table lists all genes with at least a single variant among the compared groups. (ZIP 5414 kb)
DOI: 10.6084/m9.figshare.9350789
title: Additional file 2: of Establishment of human trophoblast stem cells from human induced pluripotent stem cell-derived cystic cells under micromesh culture

description: Table S2. Global gene expression profiling data. (XLSX 106 kb)
DOI: 10.6084/m9.figshare.9350789.v1
title: Additional file 2: of Establishment of human trophoblast stem cells from human induced pluripotent stem cell-derived cystic cells under micromesh culture

description: Table S2. Global gene expression profiling data. (XLSX 106 kb)
DOI: 10.6084/m9.figshare.9350753
title: Additional file 1: of Efficient RT-QuIC seeding activity for Îą-synuclein in olfactory mucosa samples of patients with Parkinsonâ s disease and multiple system atrophy

description: Table S1. Detailed clinical information of each patient and related RT-QuIC results of OM analyses. (XLSX 16 kb)
DOI: 10.6084/m9.figshare.9350753.v1
title: Additional file 1: of Efficient RT-QuIC seeding activity for Îą-synuclein in olfactory mucosa samples of patients with Parkinsonâ s disease and multiple system atrophy

description: Table S1. Detailed clinical information of each patient and related RT-QuIC results of OM analyses. (XLSX 16 kb)
DOI: 10.6084/m9.figshare.9350663
title: Additional file 2: of Yinang formulation versus placebo granules as a treatment for chronic kidney disease stages IIIâ IV in patients with autosomal dominant polycystic kidney disease: study protocol for a double-blind placebo-controlled randomized clinical trial

description: Model consent form given to participants and authorized surrogates. (ZIP 39 kb)
DOI: 10.6084/m9.figshare.9350663.v1
title: Additional file 2: of Yinang formulation versus placebo granules as a treatment for chronic kidney disease stages IIIâ IV in patients with autosomal dominant polycystic kidney disease: study protocol for a double-blind placebo-controlled randomized clinical trial

description: Model consent form given to participants and authorized surrogates. (ZIP 39 kb)
DOI: 10.6084/m9.figshare.12783146
title: Fig3D_laser_ablation_Stage3 .zip

description: Laser ablation of serosal cells in the dorsaland the ventral regions of Stage 3 Tribolium castaneum embryos
DOI: 10.6084/m9.figshare.12783146.v1
title: Fig3D_laser_ablation_Stage3 .zip

description: Laser ablation of serosal cells in the dorsaland the ventral regions of Stage 3 Tribolium castaneum embryos
DOI: 10.6084/m9.figshare.9350564
title: MOESM3 of Correction to: A new topological descriptor for water network structure

description: Additional file 3. Python scripts for running analysis.
DOI: 10.6084/m9.figshare.9350564.v1
title: MOESM3 of Correction to: A new topological descriptor for water network structure

description: Additional file 3. Python scripts for running analysis.
DOI: 10.6084/m9.figshare.9350519
title: Additional file 5: of Linker histones are fine-scale chromatin architects modulating developmental decisions in Arabidopsis

description: Table S4. Gene expression in 3h1. Available as an Excel table. (XLSX 4453 kb)
DOI: 10.6084/m9.figshare.9350519.v1
title: Additional file 5: of Linker histones are fine-scale chromatin architects modulating developmental decisions in Arabidopsis

description: Table S4. Gene expression in 3h1. Available as an Excel table. (XLSX 4453 kb)
DOI: 10.6084/m9.figshare.9350504
title: Additional file 3: of Linker histones are fine-scale chromatin architects modulating developmental decisions in Arabidopsis

description: Table S2. Transposable element (TE) expression in 3h1. Available as an Excel table. (XLSX 64 kb)
DOI: 10.6084/m9.figshare.9350504.v1
title: Additional file 3: of Linker histones are fine-scale chromatin architects modulating developmental decisions in Arabidopsis

description: Table S2. Transposable element (TE) expression in 3h1. Available as an Excel table. (XLSX 64 kb)
DOI: 10.6084/m9.figshare.12782525
title: Fig4H.tif

description: Images from a timelapse point scanning confocal recording of an embryo expressing Tc-sqh-eGFP.
DOI: 10.6084/m9.figshare.12782525.v1
title: Fig4H.tif

description: Images from a timelapse point scanning confocal recording of an embryo expressing Tc-sqh-eGFP.
DOI: 10.6084/m9.figshare.9350459
title: MOESM7 of Identification of a pituitary ERα-activated enhancer triggering the expression of Nr5a1, the earliest gonadotrope lineage-specific transcription factor

description: Additional file 7. Primers used in this study.
DOI: 10.6084/m9.figshare.9350459.v1
title: MOESM7 of Identification of a pituitary ERα-activated enhancer triggering the expression of Nr5a1, the earliest gonadotrope lineage-specific transcription factor

description: Additional file 7. Primers used in this study.
DOI: 10.6084/m9.figshare.9350336
title: Additional file 1: of Morphology of the nervous system of monogonont rotifer Epiphanes senta with aÂ focus on sexual dimorphism between feeding females and dwarf males

description: Two sequences of the COX1 gene obtained from the transcriptome of the investigated rotifer. (TXT 3 kb)
DOI: 10.6084/m9.figshare.9350336.v1
title: Additional file 1: of Morphology of the nervous system of monogonont rotifer Epiphanes senta with aÂ focus on sexual dimorphism between feeding females and dwarf males

description: Two sequences of the COX1 gene obtained from the transcriptome of the investigated rotifer. (TXT 3 kb)
DOI: 10.6084/m9.figshare.9350297
title: Additional file 1: of A systematic assessment of current genome-scale metabolic reconstruction tools

description: Supplementary figures, tables and files. (RAR 559 kb)
DOI: 10.6084/m9.figshare.9350297.v1
title: Additional file 1: of A systematic assessment of current genome-scale metabolic reconstruction tools

description: Supplementary figures, tables and files. (RAR 559 kb)
DOI: 10.6084/m9.figshare.9345998
title: Herbaceous Layer Response to Forest Management at Trail of Tears State Forest from 2014-2018

description: The results of analyzing data collected following three years of monitoring (2014, 2017, 2018) 80 permanent plots across four watersheds in the Trail of Tears State Forest, Illinois subject to thinning and burning treatments, and two watersheds are presented. Raw data are provided in the Excel file with metadata in the Metadata tab.<br>
DOI: 10.6084/m9.figshare.9345524
title: Table S1_Data.xlsx

description: All data obtained in the present study. Plant: Lolium multiflorum; fungal endophyte: Epichloë occultans; aphid: Sipha maydis.
DOI: 10.6084/m9.figshare.9345524.v1
title: Table S1_Data.xlsx

description: All data obtained in the present study. Plant: Lolium multiflorum; fungal endophyte: Epichloë occultans; aphid: Sipha maydis.
DOI: 10.6084/m9.figshare.9345413
title: Structural evolution of the active Waimea-Flaxmore Fault System in the Nelson-Richmond urban area, South Island, New Zealand

description: The Waimea-Flaxmore Fault System (W-FFS) comprises NE-striking, SE-dipping reverse faults superposing Eastern Province terranes on Cenozoic sedimentary units of the Moutere Depression. We present a revised geological map and cross sections of the W-FFS in the Nelson-Richmond urban area, aimed at reconstructing the structural evolution during multiple phases of reactivation. Our data and structural interpretations depict the inversion of the W-FFS from an inherited system of Late Cretaceous-Eocene normal faults to multiple reverse fault splays that propagated through the cover sequence over the last 10 Ma. Fault tip propagation with folding of the cover sequence persisted during the Quaternary, with breaching of the Waimea and Flaxmore faults to the surface and propagation of a splay thrust (Tahunanui Fault) still concealed beneath Quaternary deposits. Ongoing crustal shortening associated with the Pacific-Australian plate boundary in the northern South Island creates favourable conditions for reactivation of the long-lived W-FFS in the contemporary stress field.
DOI: 10.6084/m9.figshare.9345998.v1
title: Herbaceous Layer Response to Forest Management at Trail of Tears State Forest from 2014-2018

description: The results of analyzing data collected following four years of monitoring 80 permanent plots across four watersheds in the Trail of Tears State Forest, Illinois subject to thinning and burning treatments, and two watersheds are presented. Raw data are provided in the Excel file with metadata in the Metadata tab.<br>
DOI: 10.6084/m9.figshare.9343469
title: Dataset - Acacia plants rewards according to association type

description: This dataset contains information about the rewards that acacia trees (<i>Vachellia collinsii,</i> formerly <i>Acacia collinsii</i>) produce for the ants, depending on the type of association with the ants (parasitic, mutualistic or trees without ants). The measured rewards included in the dataset are: spine length, spine diameter, spine volume, number of nectaries per leaf, and ant species inhabiting the acacia tree (<i>Crematogaster crinosa, Pseudomymex nigropilosus, P. gracilis, P. spinicola</i>). Units are provided in the column name on the dataset.
DOI: 10.6084/m9.figshare.9345998.v3
title: Herbaceous Layer Response to Forest Management at Trail of Tears State Forest from 2014-2018

description: The results of analyzing data collected following three years of monitoring (2014, 2017, 2018) 80 permanent plots across four watersheds in the Trail of Tears State Forest, Illinois subject to thinning and burning treatments, and two watersheds are presented. Raw data are provided in the Excel file with metadata in the Metadata tab.<br>
DOI: 10.6084/m9.figshare.9343469.v1
title: Dataset - Acacia plants rewards according to association type

description: This dataset contains information about the rewards that acacia trees (<i>Vachellia collinsii,</i> formerly <i>Acacia collinsii</i>) produce for the ants, depending on the type of association with the ants (parasitic, mutualistic or trees without ants). The measured rewards included in the dataset are: spine length, spine diameter, spine volume, number of nectaries per leaf, and ant species inhabiting the acacia tree (<i>Crematogaster crinosa, Pseudomymex nigropilosus, P. gracilis, P. spinicola</i>). Units are provided in the column name on the dataset.
DOI: 10.6084/m9.figshare.9345998.v2
title: Herbaceous Layer Response to Forest Management at Trail of Tears State Forest from 2014-2018

description: The results of analyzing data collected following three years of monitoring (2014, 2017, 2018) 80 permanent plots across four watersheds in the Trail of Tears State Forest, Illinois subject to thinning and burning treatments, and two watersheds are presented. Raw data are provided in the Excel file with metadata in the Metadata tab.<br>
DOI: 10.17608/k6.auckland.9343442
title: Waveform and behavioural datasets

description: ERPs for cue and no-cue conditions by occipital-parietal and occipital-temporal locations<br>Behavioural keypress reaciton times and demographic data
DOI: 10.6084/m9.figshare.9345413.v1
title: Structural evolution of the active Waimea-Flaxmore Fault System in the Nelson-Richmond urban area, South Island, New Zealand

description: The Waimea-Flaxmore Fault System (W-FFS) comprises NE-striking, SE-dipping reverse faults superposing Eastern Province terranes on Cenozoic sedimentary units of the Moutere Depression. We present a revised geological map and cross sections of the W-FFS in the Nelson-Richmond urban area, aimed at reconstructing the structural evolution during multiple phases of reactivation. Our data and structural interpretations depict the inversion of the W-FFS from an inherited system of Late Cretaceous-Eocene normal faults to multiple reverse fault splays that propagated through the cover sequence over the last 10 Ma. Fault tip propagation with folding of the cover sequence persisted during the Quaternary, with breaching of the Waimea and Flaxmore faults to the surface and propagation of a splay thrust (Tahunanui Fault) still concealed beneath Quaternary deposits. Ongoing crustal shortening associated with the Pacific-Australian plate boundary in the northern South Island creates favourable conditions for reactivation of the long-lived W-FFS in the contemporary stress field.
DOI: 10.17608/k6.auckland.9343442.v1
title: Waveform and behavioural datasets

description: ERPs for cue and no-cue conditions by occipital-parietal and occipital-temporal locations<br>Behavioural keypress reaciton times and demographic data
DOI: 10.6084/m9.figshare.9340712
title: Eurasian perch growth information and gravel pit characteristics dataset

description: These are supplementary files for the article "Environmental determinants of perch (<i>Perca fluviatilis</i>) growth and the performance of simple vs. complex ecological predictors" by Leander Höhne et al. <br>"Supporting_Information_S4_Complex_Model_#20" = R script for application of "best complex" model #20 to own age and lake data, referenced as S4 in Supporting Information of Höhne et al."Supporting_Information_S5_Simple_Model_#8" = script for application of "best simple" model #8 to own age and lake data, referenced as S5 in Supporting Information of Höhne et al."Fish.csv" = Raw data files of operculum-radii-at-age measurements of Eurasian perch from 13 gravel pit lakes in Lower Saxony, Germany, sampled by gillnetting and electrofishing."Lakes.csv" = Values for 16 biotic and abiotic variables of the same 13 gravel pit lakes, describing their morphometry, nutrient status, habitat availability, fish community, etc."Hoehne_fish" and Hoehne_lakes" contain the same data, but with more descriptive headers to facilitate interpretation, saved as Excel-files <br>
DOI: 10.6084/m9.figshare.9339302
title: Data for Mosquito diversity and dog heartworm prevalence in suburban areas

description: These data accompany "Mosquito diversity and dog heartworm prevalence in suburban areas" by Spence Beaulieu et al. Full molecular results are presented in "fullmosqdataset." Data on heartworm prevalence within the mosquito are summarized in "bysite" for analysis. Mosquito parity data are included in "parity." Zip code-level data used for comparative analyses, including heartworm prevalence within the canine host, can be found in "byzip." Data details are included in the read me file.
DOI: 10.6084/m9.figshare.9340712.v2
title: Eurasian perch age information and gravel pit characteristics dataset

description: "Hoehne_fish.csv" = Raw data files of operculum-radii and age measurements of Eurasian perch from 13 gravel pit lakes in Lower Saxony, Germany, sampled by gillnetting and electrofishing."Hoehne_lakes.csv" = A range of biotic and abiotic environmental variables of the same 13 gravel pit lakes
DOI: 10.6084/m9.figshare.9340712.v3
title: Eurasian perch age information and gravel pit characteristics dataset

description: "Hoehne_fish.csv" = Raw data files of operculum-radii and age measurements of Eurasian perch from 13 gravel pit lakes in Lower Saxony, Germany, sampled by gillnetting and electrofishing."Hoehne_lakes.csv" = A range of biotic and abiotic environmental variables of the same 13 gravel pit lakes
DOI: 10.6084/m9.figshare.9337610
title: L96 Reference Data

description: Reference data for L96 run
DOI: 10.6084/m9.figshare.9337481
title: Sri Lanka Compost Characteristics (March 2019)

description: Compost samples were collected in March 2019 from 19 composting facilities in Sri Lanka's Western and Southern Provinces. Each sample was a composite of multiple samples collected from finished compost piles in a systematic pattern. Samples were stored in a cooler with ice packs during transport and sampling equipment was disinfected between facilities. All analyses were conducted at the Industrial Technology Institute in Colombo, Sri Lanka, with the exception of % moisture for 9 of the 19 samples (measured at Sabaragamuwa University of Sri Lanka). Dr. Roy led the sampling trip, with coordination assistance from Drs. Esham and Otoo. In adherence to the project plan and information sheet approved by IRB at the University of Vermont, this dataset does not include facility identifying information, and data have been randomized so that they do not reflect the order in which samples were collected. These data will eventually be published as part of a study on compost nutrient supply and crop nutrient demand across urban-to-rural gradients nationwide in Sri Lanka.
DOI: 10.6084/m9.figshare.9337610.v1
title: L96 Reference Data

description: Reference data for L96 run
DOI: 10.6084/m9.figshare.9337469
title: cell differentiation tree(dataset)

description: Every replicates(individual or together) in the 3 datasets H3K4me3, H3K27me3 and H3K36me3 and dataset H3K27ac have a fixed number of cell-types in it. H3K4me3 has two replicates: 1 and 2 . H3K27 holds replicate 1 and replicates 1 and 2 together. Dataset H3K36 has only replicate 1. For combined analysis of H3K4me3 and H3K27me3 we have a folder named H3K4me3-H3K27me3(combined). In each dataset folder there are 4 subfolders named IQA, MLQA ,ML and Overlap representation. Here in the three folders named ML, MLQA and IQA we have included the results from these three cell-type tree generation methods. All the three folders contain cell-type tree in newick format. Estimated quartet files which we generated for MLQA and IQA methods, are given in both MLQA and IQA folders. Finally the overlap representation data for the cell-types are in the folder Overlap representation. In this folder we have a text file named Overlap_datarepresentaion in which the the two numbers in the first row contains the number of cell-types and data length. After that each row identified by t1,t2 etc carries the overlap data. The mapping from t1, t2 etc to original cell-types are provided in file_sequence text file.<br>
DOI: 10.6084/m9.figshare.9340712.v4
title: Eurasian perch age information and gravel pit characteristics dataset

description: "Hoehne_fish.csv" = Raw data files of operculum-radii and age measurements of Eurasian perch from 13 gravel pit lakes in Lower Saxony, Germany, sampled by gillnetting and electrofishing."Hoehne_lakes.csv" = A range of biotic and abiotic environmental variables of the same 13 gravel pit lakes
DOI: 10.6084/m9.figshare.9337481.v1
title: Sri Lanka Compost Characteristics (March 2019)

description: Compost samples were collected in March 2019 from 19 composting facilities in Sri Lanka's Western and Southern Provinces. Each sample was a composite of multiple samples collected from finished compost piles in a systematic pattern. Samples were stored in a cooler with ice packs during transport and sampling equipment was disinfected between facilities. All analyses were conducted at the Industrial Technology Institute in Colombo, Sri Lanka, with the exception of % moisture for 9 of the 19 samples (measured at Sabaragamuwa University of Sri Lanka). Dr. Roy led the sampling trip, with coordination assistance from Drs. Esham and Otoo. In adherence to the project plan and information sheet approved by IRB at the University of Vermont, this dataset does not include facility identifying information, and data have been randomized so that they do not reflect the order in which samples were collected. These data will eventually be published as part of a study on compost nutrient supply and crop nutrient demand across urban-to-rural gradients nationwide in Sri Lanka.
DOI: 10.6084/m9.figshare.9337448
title: Cell differentiation tree

description: peak files, generated quartets, merged trees from these quartets, besttrees from RAxML for H3K4me3, H3K27me3, H3K36me3, H3K27ac.