cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.20364045.v1
title: Additional file 3 of Genome-wide characterization of Salmonella Typhimurium genes required for the fitness under iron restriction

description: Additional file 3. The summary of the Tn-seq data analysis for all genes in the genome of S. Typhimurium 14028S for each iron restriction condition. Sheet 1 (Dip100), Sheet 2 (Dip150), Sheet 3 (Dip250-I), Sheet 4 (Dip250-II), Sheet 5 (Dip400).
DOI: 10.6084/m9.figshare.20364050
title: Additional file 2 of Alternative transcription start sites contribute to acute-stress-induced transcriptome response in human skeletal muscle

description: Additional file 2. Table S1. All and firstly annotated CAGE TSS clusters in the human vastus lateralis muscle. To eliminate low expressed CAGE TSS clusters 10 percent cutoff was applied to CAGE TSS clusters annotated to TSS, 5’UTR, CDS, 3’UTR, Non coding exon, or Verified by RNA sequencing and belonging to a gene. These CAGE TSS clusters were marked as Major or Minor; no cutoff was applied to CAGE TSS clusters belonging to Intron and Intergenic.
DOI: 10.6084/m9.figshare.20364050.v1
title: Additional file 2 of Alternative transcription start sites contribute to acute-stress-induced transcriptome response in human skeletal muscle

description: Additional file 2. Table S1. All and firstly annotated CAGE TSS clusters in the human vastus lateralis muscle. To eliminate low expressed CAGE TSS clusters 10 percent cutoff was applied to CAGE TSS clusters annotated to TSS, 5’UTR, CDS, 3’UTR, Non coding exon, or Verified by RNA sequencing and belonging to a gene. These CAGE TSS clusters were marked as Major or Minor; no cutoff was applied to CAGE TSS clusters belonging to Intron and Intergenic.
DOI: 10.6084/m9.figshare.20364053
title: Additional file 3 of Alternative transcription start sites contribute to acute-stress-induced transcriptome response in human skeletal muscle

description: Additional file 3. Table S2. DEGs induced in the vastus lateralis muscle by acute exercise and GO enrichment analysis for biological processes.
DOI: 10.6084/m9.figshare.20364053.v1
title: Additional file 3 of Alternative transcription start sites contribute to acute-stress-induced transcriptome response in human skeletal muscle

description: Additional file 3. Table S2. DEGs induced in the vastus lateralis muscle by acute exercise and GO enrichment analysis for biological processes.
DOI: 10.6084/m9.figshare.20364059
title: Additional file 5 of Alternative transcription start sites contribute to acute-stress-induced transcriptome response in human skeletal muscle

description: Additional file 5. Table S4. Clusters of co-expressed individual muscle promoters and TFs associated with the clusters. Clusters shows 21 clusters (C) of coexpressed individual promoters induced by exercise and identified by unsupervised analysis. Enriched transcription factors (TFs) show TFs with FDR &lt;0.05 (both the binomial test and exact Fisher’s test) and adjusted fold enrichment &gt;1.5 for both transcription factor binding site (Adj.site FE) or promoter’s sequence number (Adj.seq.FE).
DOI: 10.6084/m9.figshare.20364056
title: Additional file 4 of Alternative transcription start sites contribute to acute-stress-induced transcriptome response in human skeletal muscle

description: Additional file 4. Table S3. Individual muscle promoters and pseudo promoters. Individual promoter was defined as regions in which open chromatin is located 200 bp or less from the CAGE TSS cluster Open – open chromatin near the CAGE TSS cluster. Other CAGE TSS clusters separated by 200 bp or less were grouped and defined as pseudo promoters and divided on promoters with removed (Closed200) and without (Closed2000) open chromatin. Closed200 – closed chromatin –200 bp to +200 bp and open chromatin –2,000 bp to –200 bp and/or +200 bp to +2,000 bp; Closed2000 – closed chromatin –2,000 bp to +2,000 bp). DEP and DEG – differentially expressed promoter and gene, respectively. Protein isoforms shows genes having at least 2 alternative start-codons.
DOI: 10.6084/m9.figshare.20364056.v1
title: Additional file 4 of Alternative transcription start sites contribute to acute-stress-induced transcriptome response in human skeletal muscle

description: Additional file 4. Table S3. Individual muscle promoters and pseudo promoters. Individual promoter was defined as regions in which open chromatin is located 200 bp or less from the CAGE TSS cluster Open – open chromatin near the CAGE TSS cluster. Other CAGE TSS clusters separated by 200 bp or less were grouped and defined as pseudo promoters and divided on promoters with removed (Closed200) and without (Closed2000) open chromatin. Closed200 – closed chromatin –200 bp to +200 bp and open chromatin –2,000 bp to –200 bp and/or +200 bp to +2,000 bp; Closed2000 – closed chromatin –2,000 bp to +2,000 bp). DEP and DEG – differentially expressed promoter and gene, respectively. Protein isoforms shows genes having at least 2 alternative start-codons.
DOI: 10.6084/m9.figshare.20364059.v1
title: Additional file 5 of Alternative transcription start sites contribute to acute-stress-induced transcriptome response in human skeletal muscle

description: Additional file 5. Table S4. Clusters of co-expressed individual muscle promoters and TFs associated with the clusters. Clusters shows 21 clusters (C) of coexpressed individual promoters induced by exercise and identified by unsupervised analysis. Enriched transcription factors (TFs) show TFs with FDR &lt;0.05 (both the binomial test and exact Fisher’s test) and adjusted fold enrichment &gt;1.5 for both transcription factor binding site (Adj.site FE) or promoter’s sequence number (Adj.seq.FE).
DOI: 10.34740/kaggle/dsv/3978907
title: Russian Invasion of Ukraine
DOI: 10.6084/m9.figshare.20364072
title: Count of all genes

description: Expresson counts of all genes before and after AR expression, and beforr and after DHT ligand stimulation.
DOI: 10.6084/m9.figshare.20364078.v1
title: STAMPS 2022 gtotree setup

description: additional setup for STAMPS 2022
DOI: 10.6084/m9.figshare.20364078.v2
title: STAMPS 2022 gtotree setup

description: additional setup for STAMPS 2022
DOI: 10.6084/m9.figshare.20364078.v3
title: STAMPS 2022 gtotree setup

description: additional setup for STAMPS 2022
DOI: 10.5066/f7df6ppb
title: Land-Cover Map for the Island of Maui, Hawaii, 2017

description: This dataset describes land cover and vegetation for the island of Maui, Hawaii, circa 2017, hereinafter the 2017 land-cover map. The 2017 land-cover map is a modified version of the dataset titled &amp;quot;Mean annual water-budget components for the Island of Maui, Hawaii, for recent conditions, 1978-2007 rainfall and 2010 land-cover map&amp;quot; by Johnson (2015), hereinafter the 2010 land-cover map. Modifications to the 2010 land-cover map included updating the land cover and vegetation designations, and the polygon boundaries in the 2010 land-cover map to reflect (1) the cessation of sugarcane cultivation by Hawaiian Commercial &amp;amp; Sugar Company in December 2016, and (2) the agricultural land-use information described in the Statewide Agricultural Land Use Baseline 2015 map by Melrose and others (2016). These modifications affected about 10 percent of the total area in the 2010 land-cover map. The 2017 land-cover map also distinguishes between (1) forested areas that are within the fog-interception zone, assumed to be at elevations of 2,000 feet and higher on Maui, and (2) forested areas that are below the fog-interception zone. The same distinction was included in the analysis of Johnson and others (2014) and in the spatial structure of the 2010 land-cover map, but was omitted from the land-cover names in the attribute table of the 2010 land-cover map.
DOI: 10.5066/p95co8lr
title: GIS for focus areas of potential domestic resources of 11 critical minerals - aluminum, cobalt, graphite, lithium, niobium, platinum group elements, rare earth elements, tantalum, tin, titanium, and tungsten

description: In response to Executive Order 13817 of December 20, 2017, the U.S. Geological Survey (USGS) coordinated with the Bureau of Land Management (BLM) to identify 35 nonfuel minerals or mineral materials considered critical to the economic and national security of the United States (U.S.) (https://pubs.usgs.gov/of/2018/1021/ofr20181021.pdf). Acquiring information on possible domestic sources of these critical minerals is the rationale for the USGS Earth Mapping Resources Initiative (Earth MRI). The program, which partners the USGS with State Geological Surveys, federal agencies, and the private sector, aims to collect new geological, geophysical, and topographic (lidar) data in key areas of the U.S. to stimulate mineral exploration and production of critical minerals. The first phase of Earth MRI focused on the study of rare-earth elements (REE) (https://pubs.er.usgs.gov/publication/ofr20191023A). Phase 2 (this report) focuses on the following minerals: aluminum, cobalt, graphite, lithium, niobium, platinum group elements (PGE), rare earth elements, tantalum, tin, titanium, and tungsten. The USGS has identified broad areas within the U.S. to target acquisition of geologic mapping, geophysical data, and (or) detailed topographic information to aid research, mineral exploration, and evaluation of mineral potential in these areas. Focus areas were defined using existing geologic data including data on known deposits in the U.S. The focus areas are provided as geospatial data supported by tables that summarize what is known about the mineral potential and brief descriptions of data gaps that could be addressed by the Earth MRI program. A full discussion of Earth MRI and the rationale and methods used to develop the geospatial data are provided in the following report: Hammarstrom, J.M., and others (in review)
DOI: 10.5066/f70p0z03
title: Gas and heat emission measurements in Norris Geyser Basin, Yellowstone National Park (May-October 2016)

description: From 14 May to 6 October 2016 measurements of gas and heat emissions were made at Bison Flat, an acid-sulfate, vapor-dominated area (0.04-km2) of Norris Geyser Basin, Yellowstone National Park, WY. An eddy covariance system measured half-hourly CO2, H2O and sensible and latent heat fluxes, air temperature and pressure, wind speed and direction, soil moisture and rainfall. A Multi-GAS instrument measured (1 Hz frequency) atmospheric H2O, CO2 and H2S volumetric mixing ratios, air pressure, temperature and relative humidity and wind speed and direction. Soil CO2 fluxes and temperature profiles were also measured on a grid using the accumulation chamber method and thermocouple probes, respectively. These data were used to derive hydrothermal CO2 and heat emission rates and characterize the chemical compositions of fumarole and soil-gas emissions. The eddy covariance, Multi-GAS and soil CO2 flux and temperature data sets are saved in spreadsheets in the *.csv format.
DOI: 10.5066/f7jm27t6
title: Digital 3-D Geologic Framework data for the Rio Grande Transboundary region of New Mexico, Texas, USA and Northern Chihuahua, Mexico

description: This digital dataset of a three-dimensional hydrogeologic framework for the Rio Grande Transboundary region of New Mexico, Texas, USA and Northern Chihuahua, Mexico defines the geometry, extent, and character of aquifers of the region and is intended as the digital hydrogeologic input data for numerical simulation of the groundwater system. The data consist of a single GeoDatabase (RGTIHM_3DHFM.gdb) that contains five polygon vector feature classes and two line vector feature classes: Polygon feature class RGTIHM_3DHFM_modelgrid have X, Y and elevation attributes that define the hydrostratigraphic framework for the recent alluvium, subdivisions of the Santa Fe Group, and pre-Santa Fe Group bedrock units that serve as the geohydrologic layering of the digital framework model. Polygon data are also attributed with codes that represent sedimentary facies that can be used to distribute hydraulic properties of the aquifer layers. The four other polygon feature classes (RGTIHM_3DHFM_extent_LSF, RGTIHM_3DHFM_extent_MSF, RGTIHM_3DHFM_extent_USF, and RGTIHM_3DHFM_extent_RC) represents the surface and subsurface extent of the hydrostratigraphic subdivisions of the Santa Fe Group (LSF, MSF, USF) and of recent alluvium (RC). The line vector feature classes RGTIHM_3DHFM_faults and RGTIHM_3DHFM_volc_dikes represent the faults the igneous intrusive dikes, respectively, used in the three-dimensional hydrogeologic framework model. Both faults and dikes may be used as potential horizontal flow barriers in numerical simulation of the groundwater system.
DOI: 10.5066/p98pgdj1
title: Colorado River Delta Project: A compilation of vegetation indices, phenology assessment metrics, estimates of evapotranspiration and change maps for seven reaches of the delta's 150 km region, for nearly the last two decades

description: These data were compiled for monitoring riparian zone trends and changes in the Lower Colorado Delta as part of the Minute 139 of the 1944 Water Treaty between the United States and Mexico. The quality and quantity of the Delta's riparian and aquatic ecosystems have been dramatically reduced over the past century, due largely to significant alterations to natural hydrologic and sediment regimes. The Minute 319 Agreement states that 130 million cubic meters of water was to be released during the spring of 2014. Water was released from Morelos Dam at the Northern International Border (NIB) near Yuma, Arizona, to the river's delta in Mexico, allowing water to reach the Gulf of California for the first time in 13 years since 2000. Our study evaluated the short and long-term effects of environmental flows to hydrological processes in this borderland delta region. Because of the landscape changes and the anticipated impacts of added water in 2014 from Minute 319 water release, we explored remote sensing-based change analysis techniques and data to develop time series data of the Colorado River delta riparian corridor vegetation greenness and water use since the year 2000. We divided the river into 7 Reaches (R1..R7) to separate between the different land covers, management conditions, and general geospatial and hydrological conditions. We generated a variety of vegetation index, ET, anomalies, and trends using time series for all reaches combined then separately. Our data shows Landsat and MODIS derived EVI and EVI2 as well as time-series data of ETLandsat-EVI (mm/day), using a modified (EVI mod) equation, and ETMODIS-EVI with both EVI and then EVI 2 as the input variable to the ET algorithm were extremely consistent across sensors and methods and covaried well with vegetation, climate, and hydrological conditions of each reach and the whole region.
DOI: 10.6084/m9.figshare.20364078.v4
title: STAMPS 2022 gtotree setup

description: additional setup for STAMPS 2022
DOI: 10.5066/p9xohudo
title: Gas and heat emission measurements at Solfatara Plateau Thermal Area, Yellowstone National Park (May-September 2017)

description: From May to September 2017 measurements of gas and heat emissions were made at Solfatara Plateau Thermal Area, an acid-sulfate, vapor-dominated area in Yellowstone National Park, Wyoming. An eddy covariance system measured half-hourly CO2, H2O and sensible and latent heat fluxes, air temperature and pressure, wind speed and direction and soil moisture. A Multi-GAS instrument measured (0.5 Hz frequency) atmospheric H2O, CO2, SO2 and H2S volumetric mixing ratios, air pressure, temperature and relative humidity and wind speed and direction. Soil temperature at 30 cm depth and CO2 flux were also measured on a grid across a 0.11 km2 area using thermocouple probes and the accumulation chamber method, respectively. The eddy covariance, Multi-GAS and soil CO2 flux and temperature data sets are saved in spreadsheets in the *.csv format.
DOI: 10.6084/m9.figshare.20364078
title: STAMPS 2022 gtotree setup

description: additional setup for STAMPS 2022
DOI: 10.6084/m9.figshare.20364078.v5
title: STAMPS 2022 gtotree setup

description: additional setup for STAMPS 2022
DOI: 10.5066/p9saq66d
title: Trends in 7-day-low streamflows at 174 USGS streamflow gages in the Chesapeake Bay watershed, Mid-Atlantic U.S.

description: This data set contains U.S. Geological Survey (USGS) streamgage identification numbers, begin and end years of the periods of streamflow record tested, Sen slope trends in the annual minimum 7-day streamflow for the period of record tested, the p-values (significance) of the trends, and the trend Sen slopes standardized by the standard deviations of the residual errors defined as the difference between observations and the Sen slope lines, for 174 USGS streamgages with 56 to 75 years of record in the Chesapeake Bay watershed, Mid-Atlantic U.S.
DOI: 10.5066/f74x55vb
title: Aleutian Arc Fluid Geochemical Data

description: This report contains the chemical and isotopic data from thermal waters and gases collected from the Aleutian Arc over the past 20 years, where such data remain unpublished or only published in part.
DOI: 10.6084/m9.figshare.19919588.v2
title: feature analysis dataset

description: Feature Analysis Table used in "Software Architecture Models in Software Startups: a Feature<br> Analysis"
DOI: 10.5066/f7d50k4w
title: Analysis of the effect of Hurricane Sandy on New Jersey Atlantic coastal marshes based on landsat thematic mapper and operational land imager data: 2000-2015

description: This USGS Data Release represents geospatial data sets that were created for the analysis of the effect of Hurricane Sandy on New Jersey Atlantic Coastal Marshes. The following listed image products were generated: 1) Fifteen marsh surface condition index (MSCI) data sets were calculated from yearly summer collections of ETM+ image data from 2000 to 2015. Three classes described the results of the MSCI mapping; classs1-severely impacted, class 2-moderately impacted, and class 3-intact marsh. 2) Marsh change data product using Landsat images of July 14, 2011 (before) and July 19, 2013 (after) Hurricane Sandy is based on the difference in the percentage of vegetation. It shows a pattern of an increasing loss of marsh vegetation for the marshes closest to where Sandy made landfall near Brigantine, New Jersey. 3) Land cover classification using Landsat TM of 14 July 2011 and 19 July 2013, 30 m spatial resolution. Eleven classes namely i) high salt marsh ii) estuarine high salt marsh iii) forested wetland iv) Phragmites australis and Spartina cynosuroides v) salt shrub scrub vi) marsh substrate from estuarine marsh area vii) marsh substrate located near lagoon viii) unconsolidated beach sediment ix) ponds and other shallow bodies on marsh x) small tidal creeks xi) urban development areas
DOI: 10.6084/m9.figshare.19919588.v3
title: feature analysis dataset

description: Feature Analysis Table used in "Software Architecture Models in Software Startups: a Feature<br> Analysis"
DOI: 10.6084/m9.figshare.19919588
title: Software Architecture Models in Software Startups: a Feature Analysis -- Dataset

description: Feature Analysis Table used in "Software Architecture Models in Software Startups: a Feature<br> Analysis"
DOI: 10.6084/m9.figshare.19919588.v5
title: Software Architecture Models in Software Startups: a Feature Analysis -- Dataset

description: Feature Analysis Table used in "Software Architecture Models in Software Startups: a Feature<br> Analysis"
DOI: 10.6084/m9.figshare.19919588.v4
title: "Software Architecture Models in Software Startups: a Feature Analysis" Dataset

description: Feature Analysis Table used in "Software Architecture Models in Software Startups: a Feature<br> Analysis"
DOI: 10.5281/zenodo.6890581
title: Effects

description: data
DOI: 10.5066/p9wbxe5f
title: Horizontal-to-Vertical Seismic Method (HVSR) Soundings in the Northern and Central Parts of the Tug Hill Glacial Aquifer, Jefferson and Oswego Counties, North Central New York

description: The U.S. Geological Survey, in cooperation with the New York State Department of Environmental Conservation, the Tug Hill Commission, the Jefferson County Soil and Water Conservation District, the Oswego County Soil and Water Conservation District, and the Tug Hill Land Trust collected horizontal-to-vertical seismic soundings at 139 locations in the Northern and Central parts of the Tug Hill Glacial Aquifer. The goal of the project was to help determine thickness of the unconsolidated deposits and depth to bedrock. The HVSR technique, commonly referred to as the passive-seismic method, is used to estimate the thickness of unconsolidated sediments and the depth to bedrock (Lane and others, 2008). The passive-seismic method uses a single, [...]
DOI: 10.5066/p9ixl0xt
title: Gully Monitoring Sites and New Flows on Mars Observed in HiRISE Data

description: This dataset consists of data from monitoring of gullies on Mars using the High Resolution Imaging Science Experiment (HiRISE). Table 1 provides a list of monitored locations, which are HiRISE image series covering Martian gullies with a time baseline of at least 4000 Mars Reconnaissance Orbiter (MRO) orbits. Images from these locations were blink-compared at 1 m/pix to search for changes on the gully channels and aprons. Observed changes are documented in detail in Table 2. This compilation uses HiRISE data acquired through MRO orbit 61299.
DOI: 10.5066/p9y9hzge
title: Vegetation Composition and Management History Data (2015-2019) from Experimental Plots at Badlands NP, Wind Cave NP, and Scotts Bluff NM Used to Develop the ABAM Model

description: Plant species cover and richness data were collected in experimental plots at three sites: one at Badlands National Park (BADL), South Dakota, one at Scotts Bluff National Monument (SCBL), Nebraska, and one at Wind Cave National Park (WICA), South Dakota. At the Badlands and Scotts Bluff sites, data were collected in the summers of 2015 and 2017-2020 in 50 x 50-m plots with one of five treatments: unburned for the entire time of data collection, burned only in fall 2016, burned only in fall 2018, burned in both fall 2016 and fall 2018, or burned then treated with the herbicide imazapic in fall 2016. At the Wind Cave site, data were collected in the summers of 2017-2020 in 10 x 10-m plots in which the herbicide indaziflam was applied either in fall 2017 or spring 2018, with or without previous removal of standing vegetation (mowing and raking). Data were collected using a point-intercept method. At the Badlands and Scotts Bluff sites, this method used 100 points per plot; at the Wind Cave site, this method used 64 points per plot. Species-level data were used to calculate attributes (relative percent cover, diversity) used in the Annual Brome Adaptive Management (ABAM) model. This model is described in the parent publication.
DOI: 10.26188/20347203.v1
title: Supplementary_Data_File.xlsx

description: Supplementary data file with all the details on MAGs used in this study.
DOI: 10.34740/kaggle/dsv/3979238
title: WallStreetBets 2022
DOI: 10.6084/m9.figshare.20363190.v1
title: Construction of a cross-species cell landscape at single-cell level

description: We applied scRNA-seq to map organism-level cell landscapes at multiple life stages for mice, zebrafish, and Drosophila. By integrating the comprehensive dataset of more than 2.6 million single cells, we constructed a cross-species cell landscape and identified signatures and common pathways that changed throughout the lifespan. We identified structural inflammation and mitochondrial dysfunction as the most common hallmarks of organism ageing, and found that pharmacological activation of mitochondrial metabolism alleviated ageing phenotypes in mice. Meanwhile, the cross-species cell landscape with other published data sets were stored in an integrated online portal Cell Landscape (http://bis.zju.edu.cn/cellatlas/).
DOI: 10.15151/esrf-es-771250315
title: BAG Montpellier

description: The BAG of Montpellier ...