cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.25740/tk375mb4283
title: Data on SARS-CoV-2 RNA in settled solids from 7 wastewater treatment plants

description: Time series of SARS-CoV-2 RNA in settled solids from Wastewater treatment plants (POTWs) in California, Illinois, Chicago between March and Sept 2020
DOI: 10.3535/cqm-wtg-czt
title: Amphibalanus

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/e2g-7nj-ks1
title: Gammarus locusta (Linnaeus, 1758)

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.25740/wd199pm1314
title: Supporting data and code for "Optical control of fast and processive engineered myosins in vitro and in living cells"

description: This repository makes data and code available to readers of Ruijgrok, Paul V. and Ghosh, Rajarshi P. et al. (Nature Chemical Biology 2021), and relies on that published paper for context. Five archives are included in this collection. “Source Data for Figures 1-5”, "Source Data for Extended Data Figures 3-4", and “Source Data for Supplementary Figures 3-11” contain all the data presented in figure panels in the main text, Extended Data, and Supplementary Information, respectively. “Gliding Filament Analysis Code” includes MATLAB, Python, and Jython code used to process raw videomicroscopy data from gliding filament motility assays. "Gliding Filament Sample Data" contains a sample videomicroscopy dataset on the MyLOVChar4 construct, enabling a demonstration analysis using the provided code.
DOI: 10.3535/pwt-sj3-4w7
title: Echinogammarus berilloni (Catta, 1878)

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/v7z-2lp-yse
title: Sacculina

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.15468/dl.uu5jm9
title: Occurrence Download

description: A dataset containing 38 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Markea spruceana Hunz."
 ]
}

 The dataset includes 38 records from 12 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0102786-250525065834625/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.25740/mp388hh4436
title: Monitoring Data from Pilot-Scale Open-Water Unit Process Wetland Treatment of Reverse Osmosis Concentrate from Water Reuse

description: This workbook provides monitoring data from a pilot-scale ozone/open-water wetland treatment system for reverse osmosis concentrate from the Silicon Valley Advanced Water Purification Center (San Jose, CA). Water quality analyses included common water quality parameters, nutrients, trace metals, and trace organics. These analyses were performed by UC Berkeley, Stanford University, Valley Water's Water Quality Lab, and a contract lab (Eurofins). Functional gene analyses (qPCR) were conducted at Colorado School of Mines for samples of the biomat microbial community that developed in the open-water wetlands. Results are consolidated in Excel and .csv formats.
DOI: 10.3535/1jl-hhs-tt0
title: Mithrax hispidus (Herbst, 1790)

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/deh-0dc-6qf
title: Semibalanus

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.25740/fb148fk5108
title: Model code, inputs, and output from N isotope global inverse model

description: Model code, ancillary input files, and model output related to Martin et al., Global Biogeochemical Cycles in review
DOI: 10.3535/h1n-2hr-meh
title: Clibanarius Dana, 1852

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.25740/hq633by6518
title: Tc cec rnaseq

description: RNA-Seq Tc mouse cec
DOI: 10.3535/500-q1p-lyv
title: Animalia

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/yb9-tdp-3b8
title: Niphargus aquilex Schiödte, 1855

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.25740/hk632xt6449
title: Tmu si rnaseq

description: Tmu si rnaseq
DOI: 10.25740/jv169bq2041
title: Tmu cec rnaseq

description: Tmu cecum RNA-Seq
DOI: 10.3535/21v-f08-5qp
title: Palaemon xiphias Risso, 1816

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/qwl-qx3-0nz
title: Balanus

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.25740/bz204zx2289
title: Tc si rs

description: Tc RNA-Seq si
DOI: 10.3535/gbr-32b-lq5
title: Eulimnogammarus cyaneus (Dybowsky, 1874)

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/ppr-y1c-wqr
title: Animalia

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.25740/mn686yr7047
title: Tmu malt

description: Tmu malt RNA-Seq
DOI: 10.3535/bfm-wg6-0s8
title: Palaemon elegans Rathke, 1837

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.25740/fn865fy8284
title: Tmu wax rnaseq

description: Tmu waxl RNA-Seq
DOI: 10.25740/qn655ch4474
title: RO Permeate MS2 UV Inactivation

description: This Excel contains the complete plaque forming unit (PFU) data of MS2 UV inactivation experiments. Experiments consisted of spiking RO permeate water with MS2, collecting samples at various UV dosages, and then plating samples in a plaque assay.
DOI: 10.25740/yc907qm9119
title: Tritrichomonas casperi genome sequence

description: Genome assembly of Tritrichomonas casperi (from the manuscript https://doi.org/10.1016/j.cell.2023.11.018)
DOI: 10.3535/aj6-57y-43p
title: Palaemon varians Leach, 1813

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/wdk-3j6-rpg
title: Culterthelphusa simoni (Rathbun, 1905)

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/csl-aqj-w8b
title: Polybius depurator (Linnaeus, 1758)

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/kf4-l98-d33
title: Hymenodora gracilis S. I. Smith, 1886

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.25740/dv208bv2737
title: Tmu muc rnaseq

description: Tmu muc RNA-Seq
DOI: 10.3535/4fl-g0a-4t0
title: Kingsleya latifrons (Randall, 1840)

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/4yp-gjz-mar
title: Palaemon elegans Rathke, 1837

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/xxr-bqy-xly
title: Polybius depurator (Linnaeus, 1758)

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.25740/ht207tk9988
title: Tritrichomonas musculis genome sequence

description: Genome sequence of Tritrichomonas musculis, from PMID 38096822
DOI: 10.25740/rd167ky3733
title: Tritrich 16S

description: 16S with Tritrichs
DOI: 10.3535/3yr-xg5-wx9
title: Lysmata vittata (Stimpson, 1860)

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/ys0-dq9-rk2
title: Crangon crangon (Linnaeus, 1758)

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/82h-c1s-kaw
title: Tmetonyx cicada (Fabricius, 1780)

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/hej-nmm-tlp
title: Palaemon ortmanni M. J. Rathbun, 1902

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/nqf-ple-lr4
title: Heteropanope Stimpson, 1858

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/g46-3dh-9f3
title: Polybius navigator (Herbst, 1794)

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/rrj-jv0-s8b
title: Arenaeus cribrarius (Lamarck, 1818)

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/4jb-xr4-0vq
title: Cantellius

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/7gf-0ey-phr
title: Polybius navigator (Herbst, 1794)

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.25740/pz376rp0413
title: Monterey Bay phytoplankton data from the Hopkins Marine Station CalCOFI program (1954-1968)

description: In 1951, the Hopkins Marine Station of Stanford University became involved in the California Cooperative Oceanic Fisheries Investigations (CalCOFI) program to collect oceanographic data in and near Monterey Bay. Hopkins staff conducted weekly sampling (more or less) continuously from March 1951 through June 1974. Moss Landing Marine Laboratories (MLML) took over the Monterey Bay sampling program in July 1974, and it appears to have ended in 1979. The aim of the initial program was to conduct joint fisheries-oceanographic cruises that would help researchers understand what contributed to the crash of the California sardine fishery. The Hopkins Marine Station CalCOFI dataset is an extremely important contribution to early oceanographic research in the Northeast Pacific Ocean, and extends our observations in this area decades into the past. The raw and aggregated data for most of these cruises currently resides in the library at the Hopkins Marine Station. 

This portion of the dataset is a transcription of the phytoplankton data that was collected from 1954 to 1968 (a subset of the full HMS CalCOFI program). These spreadsheets are the output of a crowdsourcing campaign on the 'From the Page' platform. We thank 58 contributors for transcribing over 1500 pages! See the dataset README file for detailed information about the data.
DOI: 10.3535/ber-bs7-afy
title: Cantellius

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/jd2-pkb-r6k
title: Cantellius

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.25740/jz021qy7454
title: Validation of Physics-Based Image Systems Simulation with 3D Scenes

description: Data related to:

Validation of Physics-Based Image Systems Simulation with 3D Scenes
Lyu, Goossens, Wandell and Farrell (2022) IEEE Sensors.

The data stored here are used for recreating the figures in the associated GitHub repository (https://github.com/ISET/isetcornellbox ). The data must be downloaded to run several of the scripts.

Abstract— Image systems simulation software can accelerate innovation by reducing many of the time-consuming and expensive steps in designing, building and evaluating image systems. To realize this potential, it is necessary to build trust in physics-based end-to-end image  
 systems simulations. Towards this goal, we describe and experimentally validate an end-to-end physics-based image systems simulation of a digital camera. The simulation models the spectral radiance of 3D-scenes, formation of the spectral irradiance by multi-element optics, and conversion of the irradiance to digital values by the image sensor. We quantify the accuracy of the simulation by comparing real and simulated images of a precisely constructed, three-dimensional high dynamic range test scene.
DOI: 10.3535/g2l-vv3-sj5
title: Animalia

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.15468/dl.ksg938
title: Occurrence Download

description: A dataset containing 0 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Centaurea solstitialis L.",
 "Country is Brazil",
 "HasCoordinate is true"
 ]
}

 The dataset includes 0 records from 0 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0102789-250525065834625/datasets/export for details.
DOI: 10.3535/1f3-j5f-3gg
title: Scalpellum

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/km7-109-svx
title: Animalia

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/2kk-tlx-m64
title: Lepas

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.25740/gk906zk5623
title: Data Set for: Enveloped and non-enveloped virus survival on microfiber towels

description: The goal of this study is to investigate the efficacy of the Supertowel versus regular towels for the inactivation of non-enveloped and enveloped viruses under different conditions. Conditions included temperatures, humidities, and wet and dry towels; tests occurred over 24 hours. We use culture-based to estimate inactivation attributable to the antimicrobial properties of the towels. Results from this study will help inform decay rate predictions and risk modeling for indirect transmission of enveloped and non-enveloped viruses.
DOI: 10.3535/j5h-4cn-587
title: Lepas

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/ves-amp-bnr
title: Orchestia gammarellus (Pallas, 1766)

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.25740/nt620vn7810
title: Monterey Bay zooplankton data from the Hopkins Marine Station CalCOFI program (1955-1963)

description: In 1951, the Hopkins Marine Station of Stanford University became involved in the California Cooperative Oceanic Fisheries Investigations (CalCOFI) program to collect oceanographic data in and near Monterey Bay. Hopkins staff conducted weekly sampling (more or less) continuously from March 1951 through June 1974. Moss Landing Marine Laboratories (MLML) took over the Monterey Bay sampling program in July 1974, and it appears to have ended in 1979. The aim of the initial program was to conduct joint fisheries-oceanographic cruises that would help researchers understand what contributed to the crash of the California sardine fishery. The Hopkins Marine Station CalCOFI dataset is an extremely important contribution to early oceanographic research in the Northeast Pacific Ocean, and extends our observations in this area decades into the past. The raw and aggregated data for most of these cruises currently resides in the library at the Hopkins Marine Station. 

This portion of the dataset is a transcription of the zooplankton data that was collected from 1955 to 1963 (a subset of the full HMS CalCOFI program). These spreadsheets are the output of a crowdsourcing campaign on the 'From the Page' platform. We thank 58 contributors for transcribing over 1500 pages! See the dataset README file for detailed information about the data.
DOI: 10.3535/mbq-vk3-mtq
title: Metopograpsus oceanicus (Hombron & Jacquinot, 1846)

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/r65-pra-76y
title: Animalia

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.25740/bs332fy8205
title: Kelp forests of the Monterey Peninsula: transect data

description: Subtidal video surveys are an equitable and accessible tool for research and teaching. After minimal training, these videos, conducted along underwater transects, can be be analyzed by anyone, anywhere. These surveys have the potential to become an interactive teaching tool that introduces students to the scientific method in the context of subtidal ecosystems. 

This collection contains metadata and data for video transects from the Monterey Peninsula. 

This work was conceived in the context of the DIMES (Diversifying and Integrating Marine Education at Stations) program funded by an NSF RCN-UBE Incubator award (2018116). Additional funding was provided by Stanford University’s Transforming Learning Accelerator.
DOI: 10.3535/b2e-yln-0yc
title: Palaemon serratus (Pennant, 1777)

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/dpj-e9t-xy1
title: Pontonia margarita S. I. Smith, 1869

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.25740/bb708mf8734
title: Data on Quantifying the Viral Reduction Achieved Using Ash and Sand as Handwashing Agents

description: Volunteer experiment results described in the corresponding manuscript.
DOI: 10.25740/jv609mn4338
title: Ofu 2017 data for  Reef flat flow dynamics for a nearly closed fringing reef-lagoon: Ofu, American Samoa

description: This is the data discussed in Maticka et al. "Reef flat flow dynamics for a nearly closed fringing reef-lagoon: Ofu, American Samoa" submitted for publication in JGR Oceans in September 2022. It consists of Matlab structures with variables listed first by instrument type and then by data type and processing. Primasrily this data describes waves and flows observed in March 2017 on the fore-reef and reef flat  of pool 400 on the south shore of Ofu. In the paper, the data is analyzed to show how the waves break and dissipate on the reef flat, and what flows they drive there. The observed flow measurements include 5 days when a highh resolution ADCP was measuring reef flat flows, measurements that give unique detail on the vertical structure of these flows. This work builds on the earlier work of Rogers et al. and is also discussed in the PhD thesis of Samantha Maticka, from this paper is drived.
DOI: 10.25740/nf771cs9443
title: Tomato Brown Rugose Fruit Virus Genomes

description: New Tomato Brown Rugose Fruit Viruses assembled from wastewater and stool samples.
DOI: 10.3535/yx5-qt3-bj4
title: Animalia

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.15468/dl.j9hkx3
title: Occurrence Download

description: A dataset containing 203 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Centaurea solstitialis L.",
 "Country is Argentina",
 "HasCoordinate is true"
 ]
}

 The dataset includes 203 records from 12 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0102787-250525065834625/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.25740/cc603xw1974
title: Time-series data on urchin abundance from the Monterey Peninsula, California, USA.

description: Time-series data on urchin abundance from the Monterey Peninsula, California, USA. These data were collected primarily by students in a summer kelp forest ecology course at Hopkins Marine Station (BIOHOPK185; Ecology and Conservation of Kelp Forest Communities). Fiorenza Micheli led the surveys from 2003-2004. James Watanabe led the surveys with the summer kelp forest ecology course from 2009-2018. From 2019-present, Robin Elahi continued the monitoring with the course.
DOI: 10.3535/9ey-21p-qh3
title: Animalia

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/qxe-9jn-710
title: Metopograpsus oceanicus (Hombron & Jacquinot, 1846)

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/7cy-vna-8jt
title: Animalia

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/wqy-e91-sta
title: Pontonia margarita S. I. Smith, 1869

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.15468/dl.u4cpq6
title: Occurrence Download

description: A dataset containing 0 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Centaurea solstitialis L.",
 "Country is Botswana",
 "HasCoordinate is true"
 ]
}

 The dataset includes 0 records from 0 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0102788-250525065834625/datasets/export for details.
DOI: 10.3535/2vn-yna-bjm
title: Elasmopus pocillimanus (Spence Bate, 1863)

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/q3j-ht6-2cq
title: Sacculina

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.25740/yy929gq2553
title: Using Acoustic Velocities and Microimaging to Probe Microstructural Changes caused by Thermal Shocking of Tight Rocks

description: Large scale, Earth processes and bulk rock properties are influenced by underpinning, dynamic, microstructures within rocks and geomaterials. Traditionally, porosity has been considered the primary control on important bulk rock properties like seismic wave velocities (Vp and Vs) and permeability (k). However, in tight rocks, velocity and permeability can still change substantially despite slight porosity changes. Therefore, other microstructural features must be controlling these bulk rock properties. Understanding which microstructural features control Vp, Vs, and permeability in tight rocks is particularly useful in applications like enhanced geothermal systems, where methods like thermal shocking are used to increase the k of the subsurface. Thermal shocking involves quickly injecting surface water in the subsurface to cool minerals, induce contraction of minerals crystals, and cause thermal cracking. We tested three tight lithologies with unique microstructures; Sierra White Granodiorite (SWG), Porphyritic Trachybasalt (PTB), and Monte San Angelo (MSA) carbonate. We simulated the effects of thermal shocking by slowly heating (<2C min-1) samples to 350C and then quenching them. Using time-lapse microimaging, we assessed whether and how thermal cracking occurs in each lithology. We also explored how thermal cracks influence bulk rock properties like porosity, Vp, Vs, along with k. Vp, Vs, and k were measured in the presence of confining pressure. 
We found thermal shocking is most effective in SWG, then MSA, and the least in PTB. Our time-lapse microimaging shows extensive cracking in the SWG and MSA lithologies, and little to no cracking in PTB. Vp and Vs for all lithologies became more pressure sensitive, and elastic moduli of each lithology decreased with thermal shocking. These results show that the presence of thermal cracks reduces stiffness between mineral crystal boundaries. Additionally, the presence of minerals with high thermal conductivity and/or thermal expansion coefficients leads to increased thermal cracking in SWG and MSA. This is especially true when these minerals are juxtaposed with other minerals that are less sensitive to temperature changes. In MSA, vuggy pores and calcite, a mineral with high thermal anisotropy, both contributed to thermal cracking. SWG and MSA k increased but remained the same for PTB. Therefore, in thermally shocked SWG and MSA, Vp and Vs are good indicators of thermal cracking and k increases. Vp and Vs are not as useful for PTB, specifically when Vp and Vs are measured at high pore pressures. Additionally, lithologies like PTB may require multiple thermal shock stimulations to increase k. Our results highlight which microstructures are altered with thermal shocking, how micro-scale changes alter bulk rock properties, and when we can monitor k increases and microscale thermal cracking with measurements of bulk rock properties.
DOI: 10.3535/873-d8g-ssp
title: Balanus

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.