cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.25919/17wm-dk49
title: IN2020_E01 Tasmanian Coast Bathymetry 10m - 210m Multi-resolution AusSeabed products

description: This layer group describes multibeam echosounder data collected on RV Investigator voyage IN2020_E01 titled "Trials and Calibration". The voyage took place between July 29 and August 6, 2020, departing from Hobart (TAS) and arriving in Hobart (TAS). 

The purpose of this voyage was to undertake post port-period equipment calibrations and commissioning, sea trials as well as personnel training.

This dataset is published with the permission of CSIRO. Not to be used for navigational purposes.

The dataset contains bathymetry grids of 10m to 210m resolution of the Tasmanian Coast produced from the processed EM122 and EM710 bathymetry data.
DOI: 10.25549/usctheses-c40-248899
title: etd-DundeeCore-4415-6-migration
DOI: 10.25549/usctheses-c89-154906
title: 2020: messaging in the modern era [pdf]
DOI: 10.25549/usctheses-c40-248711
title: etd-ChoiSaunde-4414-13-recollections
DOI: 10.25549/usctheses-c40-248895
title: etd-DundeeCore-4415-2-colorless
DOI: 10.25549/usctheses-c40-248701
title: etd-ChoiSaunde-4414-03-a_wind
DOI: 10.25549/usctheses-c89-160725
title: How the internet and social media has changed movie marketing [pdf]
DOI: 10.25549/usctheses-c40-248896
title: etd-DundeeCore-4415-3-wanderings
DOI: 10.25549/usctheses-c40-248700
title: etd-ChoiSaunde-4414-02-adarna
DOI: 10.25549/usctheses-c40-248708
title: etd-ChoiSaunde-4414-10-oracion
DOI: 10.25549/usctheses-c40-248697
title: etd-KwokBenjam-4413-2-three
DOI: 10.25549/usctheses-ouc11281276
title: Chan final draft 050916
DOI: 10.25549/usctheses-c40-248710
title: etd-ChoiSaunde-4414-12-christus
DOI: 10.25549/usctheses-c40-248706
title: etd-ChoiSaunde-4414-08-second
DOI: 10.25549/usctheses-c40-248704
title: etd-ChoiSaunde-4414-06-bonaventure
DOI: 10.25549/usctheses-ouc11281340
title: Microsoft Word - Shayna Kessel Dissertation.doc
DOI: 10.25549/usctheses-c40-248894
title: etd-DundeeCore-4415-1-signatures
DOI: 10.25549/usctheses-c40-248703
title: etd-ChoiSaunde-4414-05-drumpf
DOI: 10.25549/usctheses-c40-287254
title: etd-KeWangjing-4686
DOI: 10.6084/m9.figshare.24623805
title: Supplementary Materials for "Ensemble dynamics and information flow deduction from whole-brain imaging data"

description: This dataset is materials for a paper entitled "Ensemble dynamics and information flow deduction from whole-brain imaging data" (now in press at PLoS Comp Biol, https://doi.org/10.1371/journal.pcbi.1011848)The preprint is on bioRxiv 2022.11.18.517011 (https://doi.org/10.1101/2022.11.18.517011)This dataset includes following materials:<br>File1 Fig. Result of 4D imaging in 24 samples.File2 Note. Demonstration of typical temporal dynamics extracted by TDE-RICA.File3 Fig. Results of TDE-RICA for 94 selected neurons of 10 selected samples.File4 Fig. Completing missing values by TDE-RICA by matrix factorization.File5 Fig. Results of TDE-RICA with matrix factorization for all 177 neurons of all 24 samples.File6 Note. TDE-RICA to simple time series data with different time-delay stepsFile7 Data. TDE-RICA to the whole-brain activity dataset with different time-delay stepsFile8 Fig. Changes in neural activity induced by NaCl stimulationFile9 Fig. Cross-correlation functions of motif occurrences averaged across samples.File10 Fig. Determination of hyperparameters for gKDR-GMMFile11 Fig. Simulation results of gKDR-GMMFile12 Fig. Overview of simulation results of gKDR-GMMFile13 Fig. Lagged cross-correlation of all combinations of neurons for all samplesFile14 Fig. Activity profile of example neuron pairs with lagged correlationFile15 Fig. Simulation results by gKDR-GMM, evaluated by TDE-RICAFile16 Fig. Periodic mean of neuronal activities to visualize same periodicity as sensory inputFile17 Fig. Probabilistic and deterministic modelsFile18 Fig. Mean log likelihood values for each neuron in each sample.File19 Fig. Estimation of synaptic connection strength.File20 Fig. Mean synaptic weights from each sample are shown as graph representationFile21 Fig. Results of virtual optogenetics experimentsFile22 Fig. Number of “presynaptic neurons” used for the prediction modelsFile23 Fig. Outline of gKDR-GMMFile24 Fig. Simulation results by gKDR-GPThe code for TDE-RICA will be found in the github repository (https://github.com/YuToyoshima/TDE-RICA)The code for gKDR-GMM will be found in the github repository (https://github.com/yuichiiino1/gKDR-GMM).The dataset used in these analysis will be found in the figshare repository (https://doi.org/10.6084/m9.figshare.21968078)
DOI: 10.6084/m9.figshare.24623805.v1
title: Supplementary Materials for "Ensemble dynamics and information flow deduction from whole-brain imaging data"

description: This dataset is materials for a paper entitled "Ensemble dynamics and information flow deduction from whole-brain imaging data" (now in press at PLoS Comp Biol, https://doi.org/10.1371/journal.pcbi.1011848)The preprint is on bioRxiv 2022.11.18.517011 (https://doi.org/10.1101/2022.11.18.517011) This dataset includes following materials:<br>S1 Note. Demonstration of typical temporal dynamics extracted by TDE-RICA.S2 Note. TDE-RICA to simple time series data with different time-delay stepsS1 Data. TDE-RICA to the whole-brain activity dataset with different time-delay stepsS1 Fig. Result of 4D imaging in 24 samples.S2 Fig. Results of TDE-RICA for 94 selected neurons of 10 selected samples.S3 Fig. Completing missing values by TDE-RICA by matrix factorization.S4 Fig. Results of TDE-RICA with matrix factorization for all 177 neurons of all 24 samples.S5 Fig. Changes in neural activity induced by NaCl stimulationS6 Fig. Cross-correlation functions of motif occurrences averaged across samples.S7 Fig. Determination of hyperparameters for gKDR-GMMS8 Fig. Simulation results of gKDR-GMMS9 Fig. Overview of simulation results of gKDR-GMMS10 Fig. Lagged cross-correlation of all combinations of neurons for all samplesS11 Fig. Activity profile of example neuron pairs with lagged correlationS12 Fig. Simulation results by gKDR-GMM, evaluated by TDE-RICAS13 Fig. Periodic mean of neuronal activities to visualize same periodicity as sensory inputS14 Fig. Probabilistic and deterministic modelsS15 Fig. Mean log likelihood values for each neuron in each sample.S16 Fig. Estimation of synaptic connection strength.S17 Fig. Mean synaptic weights from each sample are shown as graph representationS18 Fig. Results of virtual optogenetics experimentsS19 Fig. Number of “presynaptic neurons” used for the prediction modelsS20 Fig. Outline of gKDR-GMMS21 Fig. Simulation results by gKDR-GPThe code for TDE-RICA will be found in the github repository (https://github.com/YuToyoshima/TDE-RICA)The code for gKDR-GMM will be found in the github repository (https://github.com/yuichiiino1/gKDR-GMM).The dataset used in these analysis will be found in the figshare repository (https://doi.org/10.6084/m9.figshare.21968078)
DOI: 10.25549/usctheses-c40-250825
title: etd-SamerRoxan-4430-dissertation
DOI: 10.25549/usctheses-ouc11281531
title: Microsoft Word - sandal_dissertation.doc
DOI: 10.25549/usctheses-c40-248900
title: etd-DundeeCore-4415-7-sb3
DOI: 10.25549/usctheses-ouc11281523
title: Microsoft Word - DISSERTATIONword2003
DOI: 10.25549/usctheses-c40-248696
title: etd-KwokBenjam-4413-1-signatures
DOI: 10.25549/usctheses-c40-248705
title: etd-ChoiSaunde-4414-07-luz
DOI: 10.25549/usctheses-ouc11281578
title: DissertationElectronic
DOI: 10.25549/usctheses-ouc11281583
title: The Pan American Imagination: Modern U.S. Literature's Hemispheric Vision
DOI: 10.25549/usctheses-ouc11281624
title: THESIS TEMPLATE
DOI: 10.25549/usctheses-ouc11281655
title: Marinova_Dissertation_May 2011
DOI: 10.15485/1618130
title: Locations, metadata, and species cover from field sampling survey associated with NEON AOP survey, East River, CO 2018

description: Locations and descriptions of the sites where field sampling was conducted during the 2018 National Ecological Observatory Network (NEON) Airborne Observation Platform (AOP) imaging spectroscopy and lidar surveys in Gunnison County, Colorado. The sampling sites were located across East River, Washington Gulch, Slate River, and Coal Creek watersheds and contained a mixture of meadow, shrub, and tree sampling sites. This data package contains the location, metadata, species composition, and vector files for the sampling sites in this project. Species vouchers that have been preserved in the Rocky Mountain Biological Laboratory herbarium can be found on the Consortia of Southern Rocky Mountain Herbaria website: http://soroherbaria.org/portal/collections/index.php. Vector files provided here are for areas delineated based on the AOP reflectance data and mosaic developed by Brodrick et al. (doi: 10.15485/1618131), and use with other datasets should be closely evaluated. Subsequent data packages will contain additional biogeochemical, microbial, and geophysical data as they become available for these sampling sites. For full documentation, please see associated reference and additional references will be added here as they become available.
DOI: 10.15485/1631979
title: Genome-resolved metagenomics and metatranscriptomics of microbial communities in three meander-bound floodplain soils along the East River, Colorado.

description: This dataset comprises paired environmental and genomic data for soil samples collected across meander-bound floodplains G (ERMG), L (ERML) and Z (ERMZ). A total of 96 soil samples (32 per floodplain) from the ~ 10-25 cm layer were collected in September 2015, during base flow conditions. An additional 32 soil samples were collected from ERML in September 2016, including three samples from a depth just above the water table. A subset of samples (14) collected in 2016 were used for metatranscriptomics as well as metagenomics. The data package includes: 1) A spread sheet with sample names, location and depth by meander-bound floodplain. 2) Total organic carbon (TOC), total inorganic carbon (TIC), total carbon (TC = TOC + TIC), total nitrogen (TN), and the TOC to TN ratio (TOC:N) from 2015 subsamples. 3) Soil chemistry for 2016 subsamples. 4) A spread sheet with elevation, Easting, Northing, and topographic position index (TPI) for each site sampled in 2015. 5) A kml file, which can be viewed in Google Earth, with the locations of the 96 soil sampling sites along the East River Watershed Floodplain in Colorado. Metagenomics and metatranscriptomics data, as well as reconstructed genomes, are available elsewhere (see data package methods and bioRxiv preprint for links to the data). 6) Two sets of reconstructed genomes with overlapping members (see bioRxiv preprint for description and associated data). Metagenomes and metatranscriptomes are available elsewhere (see data package methods and bioRxiv preprint). To view tar.gz files, the following software can be used: https://www.gnu.org/software/tar/, https://www.7-zip.org/.
DOI: 10.15485/1633810
title: Hybrid predictive modeling approach simulated evapotranspiration and ecosystem respiration data

description: This dataset includes measured data used for developing hybrid-predictive-modeling (HPM) approach and simulated evapotranspiration and ecosystem respiration data across several Fluxnet sites, SNOTEL sites and East River locations (Chen et al., 2020 in review). Fluxnet sites considered in this study include: CA-OAS, CA-OBS, US-NR1, US-TON, US-VAR, US-SRM, US-WHS, US-WKG. Snotel sites Butte (ER-BT), Porphyry Creek (ER-PK) and Schofield Pass (ER-SP) are included as well 16 east river locations with different vegetation types denoted by evergreen forests (EF), deciduous forests (DF), riparian shrublands (RS) and meadow grassland (MS). This data package includes: 1) A summary spread sheet of the sites and acronyms for data variables. 2) Processed Fluxnet datasets that are obtained from Fluxnet.fluxdata.org with HPM estimated evapotranspiration (ET) and ecosystem respiration (RECO). Trained models and metrics for parameters for the Fluxnet sites were added in an update on November 2, 2020; 3) Processed SNOTEL datasets obtained from www.nrcs.usda.gov/snow/ and HPM estimated ET and RECO; 4) Weather data at east river locations obtained from DAYMET (daymet.ornl.gov) as well as HPM estimated ET and RECO. NDVI datasets are obtained from Landsat 5, 7 and 8 on Google Earth Engine platform. Detailed QA/QC and sampling methods of measured data are available at the original data source.
DOI: 10.15485/1646477
title: Soil moisture and temperature data along the northeast facing hillslope at the Lower Montane site in the East River Watershed, Colorado

description: Soil moisture, temperature and electrical conductivity have been monitored with 5TE sensors (Decagon Inc.) located at 10 and 50 cm depth at 4 different locations along the northeast-facing slope at the Lower Montane site in the East River Watershed, Colorado from Oct 2016 to Oct 2018. The purpose of this data is to inform hydrobiogeochemical analyses for the Watershed Function Scientific Focus Area (SFA). The data is reported in 4 csv files labeled their by location identifiers (ER-SMN1-5) and location metadata is provided in SM_loc.csv. These data products are part of the Watershed Function Scientific Focus Area collection effort to further scientific understanding of biogeochemical dynamics from genome to watershed scales.
DOI: 10.15485/1647038
title: Hyporheic, Floodplain, and Surface Water (on Floodplain and River) Geochemical Datasets, and Shapefiles on Meander C at the East River, Colorado

description: The purpose of this dataset was to sample surface water and groundwater geochemistry at random locations in the East River, Colorado to provide a broad spatial dataset of geochemistry. The East River is part of the Watershed Function Scientific Focus Area (WFSFA) located in the Upper Colorado River Basin, United States. We conducted this random sampling at multiple time points including during the snowmelt flooding stage, during peak flood, during the falling limb of flood, and during baseflow. This datasets contain many datafiles. We include flat text files of surface water geochemistry including surface water on the floodplain and surface water in the river, geochemistry of floodplain pore-water samples, and geochemistry of hyporheic pore-water samples. All datasets are also included as shapefiles so location geochemistry is co-located with sampling locations and sampling depths. This datasets also has the locations of small channels, and hollows that are on top of floodplain Meander C. These small channels funnel surface water from the hillslope through the floodplain and out to the river. All text datasets can be analyzed with software such as Excel or R. All shapefiles can be viewed with freely available R packages such as Leaflet.
DOI: 10.15485/1647359
title: Geochemistry, RNA radiocarbon signature, and metatranscriptome data from Rifle, Colorado groundwater well

description: Understanding the different sources of carbon subsurface microbes use is highly informative yet remains challenging. The goal of this work was to develop and test a cultivation-independent method that analyzes both the radiocarbon and ribosomal RNA (rRNA) signature of unamplified RNA from the same environmental sample, and that collectively characterizes community carbon utilization under in situ conditions. The method was applied to a filtered groundwater sample from a geochemically reduced zone of a shallow alluvial aquifer near Rife, Colorado (CO), where multiple potential carbon sources co-occur. The radiocarbon and RNA-Seq results, while addressing diverse sample properties, indicated a strikingly similar conclusion about the quantitative role of autotrophy in the subsurface microbial community.This data package provides (1) ribosomal RNA (rRNA) sequences for groundwater microbial populations, (2) the taxonomic identity and relative abundance of groundwater microbial populations based on these rRNA sequences, (3) radiocarbon signatures of the rRNA indicating the source of carbon used by the groundwater microbial populations (provided in both Word docx file and pdf file), (4) geochemical measurements for the monitoring well corresponding to these measurements.
DOI: 10.15485/1647366
title: Gap-filled water quality, Normalized Differenced Vegetation Index, total nitrogen (nitrate and ammonia) deposition, and land cover data trends for the Continental United States

description: The purpose of this work was to quantify trends in water quality, total nitrogen deposition, vegetation, and land-use trends for the Continental United States (CONUS). This dataset contains gap-filled daily and yearly in-stream carbon (C) and nitrogen (N) concentrations, discharge, and calculated exports from United States Geological Survey (USGS) National Water Information System (NWIS) stations across the United States of six different nitrogen parameters (Supplementary Table A1), one carbon parameter, and temperature (USGS, 2016, 2018) (https://waterdata.usgs.gov/nwis). The final water quality dataset is merged with the normalized differenced vegetation index (NDVI), total deposition (TDEP), landcover, and elevation datasets. All data are available at the CONUS scale as well as at the scale of hydrologic unit codes: (HUC) HUC8, HUC6, HUC4, and HUC2 watersheds. There are two zip files associated with this data package. I split the data into two equal sized zip files to comply with the data size limits, however the datasets are the same within each zip file. All data files can be read in directly into the R software.
DOI: 10.15485/1648526
title: Time-domain reflectometer survey across the East River Watershed, Colorado

description: Lawrence Berkeley National Laboratory (LBNL) collected near-surface point-measurements of soil temperature (file variable TDR_T(C)), volumetric water content (file variable TDR_SM(VWC%)), and soil electrical conductivity (file variable TDR_EC(mS/m)) using a time-domain reflectometer (TDR) at a depth of 25 cm. The survey aimed to characterize the spatial heterogeneity of near-surface hydrological properties at the hillslope scale considering sites with different aspects and elevation within the watershed. The East River is part of the Watershed Function Scientific Focus Area (WFSFA) located in the Upper Colorado River Basin, United States. These data were collected in early July 2019 over four hillslope sites: Pumphouse (north-east facing slope), Bradley (west and east-facing slopes), and Snodgrass (east-facing slope) within the East River watershed. Part of this survey was used to investigate soil-plant interactions at the hillslope scale in Jashvina et al. 2020.
DOI: 10.15485/1650355
title: Geophysical borehole logging data of wells ER-GLS1, ER-GUM1, ER-PLM7, and ER-PLM8 at the East River Watershed, Colorado

description: The purpose of this data set is to provide a means of characterizing the bedrock variability both within a single borehole location and across the East River Watershed. The East River is part of the Watershed Function Scientific Focus Area (WFSFA) located in the Upper Colorado River Basin, United States, and all boreholes are located within Mancos shale bedrock. The data set contains geophysical borehole logging data acquired in October 2018 in boreholes ER-GUM1 (East River- Gothic Upper Montane Borehole #1) and ER-GLS1 (East River- Gothic Lower Subalpine Borehole #1), and acquired in October 2019 in boreholes ER-PLM7 (East River- Pumphouse Lower Montane Borehole #7) and ER-PLM8 (East River- Pumphouse Lower Montane Borehole #8). It contains depth, natural gamma ray emission, spectral gamma ray emission(Th, K, U), magnetic susceptibility, fluid temperature and electrical conductivity, electromagnetic (EM) induction derived rock electrical resistivity, heat pulse and spinner flow measurements to estimate groundwater flow, and Nuclear Magnetic Resonance (NMR) derived water content and hydraulic conductivity. Data for each borehole are provided as comma delimited text files. For each borehole accurate location information is provided (based on RTK GPS (Real Time Kinematic Global Positioning System) surveying). Borehole logging data were acquired using Mount Sopris borehole tools, and Vista Clara Javelin for NMR data.
DOI: 10.15485/1657887
title: Differential concentration discharge for the upper and lower reaches of the East River Watershed, Colorado

description: This dataset captures the difference in concentration over the difference in discharge across upper and lower reaches of the East River watershed for 2015 and 2016 water years. The East River is part of the Watershed Function Scientific Focus Area (WFSFA) located in the Upper Colorado River Basin, United States. Herein, the upper reach is defined as the segment between EAQ (East Above Quigley) and EBC (East Below Copper), and the lower reach is defined as the segment between EBC and PH (Pump House). The overall purpose of the dataset is to provide a better accounting of the gains, losses or fractional solute turnover between sampling stations. Compiled data for the two segments (EAQ to EBC and EBC to PH) are provided in two Excel files, and the same data are provided in csv format in the corresponding zip files.
DOI: 10.15485/1659482
title: Kinetics Data of Iron(II), Manganese(II), Dissolved Organic Carbon and Nitrate from Batch Incubation Experiments Using Hyporheic Sediments from the East River Watershed, Colorado.

description: Hyporheic zones act as critical ecological links between terrestrial and aquatic systems where redox-sensitive metals of iron (Fe) and manganese (Mn) significantly impact nutrient cycling and water quality. In order to understand the production, release and speciation of Fe(II) and Mn(II) in groundwater, we conducted batch incubation experiments using sediment samples from a hyporheic zone of the East River floodplain in Colorado. The East River is part of the Watershed Function Scientific Focus Area (WFSFA) located in the Upper Colorado River Basin, United States. Collection and processing of the data is described in the Methods, along with details of data file contents. There are 6 data files provided in two formats: 1 zip-folder of .csv (open source) files, and 1 zip-folder of .xlsx (Excel) files. The data tables provided in the two formats are the exact same.
DOI: 10.15485/1660462
title: Natural abundance nitrate isotopes from Rifle and the East River Watershed, Colorado

description: This data package provides data on the natural abundance isotopes of nitrate from various sources, including porewater, stream, and precipitation. The overall purpose of this data package is to complement additional data streams for nitrogen cycling metrics (e.g., riverine inorganic and organic nitrogen measurements) with specific data gleaned from the interpretation of terrestrial and riverine isotope measurements and collectively understand on how nitrogen is cycled around this system. The Rifle and East River are part of the Watershed Function Scientific Focus Area (WFSFA) located in the Upper Colorado River Basin, United States. Collection locations include: Pumphouse (multiple sampling dates), River (upstream/ downstream meander C), Shallow soil lysimeters (hillslope, toeslope, floodplain), Hillslope-floodplain borehole wells (i.e., Pumphouse Lower Montane (PLM) wells), and Potassium chloride(KCL)-extracted soil samples. Copper Creek sampling includes 8x river sample points and two tributaries sampled on Sept. Oct. 2017, July 2018. East River below the Rocky Mountain Biological Laboratory sampling includes 1 access point sampled on July, Sept. Oct. 2017. Rifle floodplain sampling includes well TT03 across multiple collection times over 2014. Data is provided in 5 individual files by location in csv format, or all compiled in Excel format.