cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5063/f1kd1wbg
title: False Bay Creek watershed water quality and Ulva abundance

description: The False Bay Creek watershed is the largest watershed on San Juan Island which drains into False Bay on the southwestern coast of the island. Much of the lower watershed is comprised of agriculture and cattle ranching some of which is managed by the San Juan County Land Bank. False Bay is a large open sand flat home to many spcies including infuanal invertebrates, fishes, crabs, and birds. A conspicuous feature of False Bay is the accumulation of Ulva sp. (sea lettus) on the upper shore during spring and summer. Over time these mats grow to considerable size, often over 20cm deep. Over the summer, these mats decompose producing a strong oder that is detecable from kilometers away. Some False Bay and Island residents claim that summer time Ulva abundance has increased over time and suggest that this is due to the upland agriculture. However, other observations from locals indicate little change in Ulva aubndnace and resulting odor. This monitoring program was devised to address these opposing views. Specifically, we wanted to see if nutrients from the creek were correlated with Ulva abundance. We identified 9 sampling location (later expanded to 11) through out the watershed at key locations. At each sampling location we collected water temperature, salinity, dissolved oxygen, and conductivity data from a handheld meter and water samples approximaly monthly from April 2021 to November 2022. All water samples were processed for total nitirgen and phospohorus (TNP) and a subset were also processed for nitrate, nitrite, ammonia, ortho-phosphate, and silica. From ~March to ~September the biomass and cover of Ulva sp. was also measured in a fixed area near the head of the bay. These were paired with orthomosaics captured by a unmanned aerial system ('drone'), to estimate Ulva sp. cover and biomass in the whole bay. A subset of water and Ulva sp. samples were processed for nitrogen and oxygen stable isotopes to examine the ultimate source of nitrogen in Ulva tissues.
DOI: 10.25345/c5t43j80p
title: MassIVE Reanalysis RMSV000000354.8233 - CCMS MassIVE Knowledge Base (MassIVE-KB) MS-GF+ reanalysis of Bioplex AP-MS Dataset for Library Construction, RTN4 [launched by 89f2bcaf3c714e3788b179581bc93515]
title: Center for Computational Mass Spectrometry (CCMS) systematic reanalysis of public proteomics mass spectrometry (MS) datasets provides a public, large-scale and comparable set of dataset reanalyses results including detailed provenance records. To further facilitate the broad reusability of public proteomics MS data, these reanalyses were also used to build the MassIVE Knowledge Base (MassIVE-KB) spectral library, a community-wide resource derived from hundreds of millions of identified spectra from tens of terabytes of mass spectrometry data.
DOI: 10.5063/f1kk9989
title: Ice Cover data for Oneida and Cazenovia Lakes, New York, 1826 to present

description: This dataset reports ice cover of Oneida Lake and the nearby Cazenovia Lake and is part of the collection "Cornell Oneida Lake Data". The Cornell Biological Field Station (CBFS) serves as a primary field site for aquatic research at Cornell University (more information can be found at http://www.cbfs.dnr.cornell.edu) and is part of the Department of Natural Resources, College of Agriculture and Life Sciences, Cornell University. The centerpiece of the station's research program is a 60-year database on the food web of Oneida Lake, New York, that has been collected with support from the Cornell University Brown Endowment and from the New York State Department of Environmental Conservation. The data are collected by personnel from the Cornell Biological Field Station and include limnology, benthos, zooplankton, phytoplankton, and fish data from Oneida Lake since 1957.
DOI: 10.25345/c5t43j815
title: MassIVE Reanalysis RMSV000000354.8410 - CCMS MassIVE Knowledge Base (MassIVE-KB) MS-GF+ reanalysis of Bioplex AP-MS Dataset for Library Construction, LHX9 [launched by 89f2bcaf3c714e3788b179581bc93515]
title: Center for Computational Mass Spectrometry (CCMS) systematic reanalysis of public proteomics mass spectrometry (MS) datasets provides a public, large-scale and comparable set of dataset reanalyses results including detailed provenance records. To further facilitate the broad reusability of public proteomics MS data, these reanalyses were also used to build the MassIVE Knowledge Base (MassIVE-KB) spectral library, a community-wide resource derived from hundreds of millions of identified spectra from tens of terabytes of mass spectrometry data.
DOI: 10.25345/c5t43j82n
title: MassIVE Reanalysis RMSV000000354.8620 - CCMS MassIVE Knowledge Base (MassIVE-KB) MS-GF+ reanalysis of Bioplex AP-MS Dataset for Library Construction, CA5A [launched by 89f2bcaf3c714e3788b179581bc93515]
title: Center for Computational Mass Spectrometry (CCMS) systematic reanalysis of public proteomics mass spectrometry (MS) datasets provides a public, large-scale and comparable set of dataset reanalyses results including detailed provenance records. To further facilitate the broad reusability of public proteomics MS data, these reanalyses were also used to build the MassIVE Knowledge Base (MassIVE-KB) spectral library, a community-wide resource derived from hundreds of millions of identified spectra from tens of terabytes of mass spectrometry data.
DOI: 10.5063/f1kp80k8
title: Glacier runoff influences biogeochemistry and resource availability in coastal temperate rainforest streams: Implications for juvenile salmon growth

description: To assess heterogeneity in stream habitat quality for juvenile salmon in a watershed in the Alaska Coast Mountains, we collected organic matter and invertebrate drift and measured streamwater physical and biogeochemical properties over the main runoff season in two adjacent tributaries, one fed mainly by rain and the other partially by glacier ice/snowmelt. We then used bioenergetic modeling to evaluate how temporal patterns in water temperature and invertebrate drift in each tributary influence juvenile salmon growth potential.
DOI: 10.25345/c5t43j834
title: MassIVE Reanalysis RMSV000000354.9006 - CCMS MassIVE Knowledge Base (MassIVE-KB) MS-GF+ reanalysis of Bioplex AP-MS Dataset for Library Construction, ULK4 [launched by 89f2bcaf3c714e3788b179581bc93515]
title: Center for Computational Mass Spectrometry (CCMS) systematic reanalysis of public proteomics mass spectrometry (MS) datasets provides a public, large-scale and comparable set of dataset reanalyses results including detailed provenance records. To further facilitate the broad reusability of public proteomics MS data, these reanalyses were also used to build the MassIVE Knowledge Base (MassIVE-KB) spectral library, a community-wide resource derived from hundreds of millions of identified spectra from tens of terabytes of mass spectrometry data.
DOI: 10.25345/c5t43j84m
title: MassIVE Reanalysis RMSV000000354.9398 - CCMS MassIVE Knowledge Base (MassIVE-KB) MS-GF+ reanalysis of Bioplex AP-MS Dataset for Library Construction, LEPRE1 [launched by 89f2bcaf3c714e3788b179581bc93515]
title: Center for Computational Mass Spectrometry (CCMS) systematic reanalysis of public proteomics mass spectrometry (MS) datasets provides a public, large-scale and comparable set of dataset reanalyses results including detailed provenance records. To further facilitate the broad reusability of public proteomics MS data, these reanalyses were also used to build the MassIVE Knowledge Base (MassIVE-KB) spectral library, a community-wide resource derived from hundreds of millions of identified spectra from tens of terabytes of mass spectrometry data.
DOI: 10.5063/f1kw5dh8
title: Avian biodiversity data from Global Biodiversity Information Facility for the Central Desert Ecological Sites of California

description: Bird observations at different spatial scales at several sites and regions across deserts in California. All data pulled from GBIF.
DOI: 10.25345/c5t43j853
title: MassIVE Reanalysis RMSV000000354.9780 - CCMS MassIVE Knowledge Base (MassIVE-KB) MS-GF+ reanalysis of Bioplex AP-MS Dataset for Library Construction, BBS7 [launched by 89f2bcaf3c714e3788b179581bc93515]
title: Center for Computational Mass Spectrometry (CCMS) systematic reanalysis of public proteomics mass spectrometry (MS) datasets provides a public, large-scale and comparable set of dataset reanalyses results including detailed provenance records. To further facilitate the broad reusability of public proteomics MS data, these reanalyses were also used to build the MassIVE Knowledge Base (MassIVE-KB) spectral library, a community-wide resource derived from hundreds of millions of identified spectra from tens of terabytes of mass spectrometry data.
DOI: 10.25345/c5t43j86k
title: MassIVE Reanalysis RMSV000000354.10169 - CCMS MassIVE Knowledge Base (MassIVE-KB) MS-GF+ reanalysis of Bioplex AP-MS Dataset for Library Construction, GLOD4 [launched by 89f2bcaf3c714e3788b179581bc93515]
title: Center for Computational Mass Spectrometry (CCMS) systematic reanalysis of public proteomics mass spectrometry (MS) datasets provides a public, large-scale and comparable set of dataset reanalyses results including detailed provenance records. To further facilitate the broad reusability of public proteomics MS data, these reanalyses were also used to build the MassIVE Knowledge Base (MassIVE-KB) spectral library, a community-wide resource derived from hundreds of millions of identified spectra from tens of terabytes of mass spectrometry data.
DOI: 10.5063/f1m043tj
title: Channel geomorphology cross sectional surveys, pre/post high-flow release, lower Dolores River, 2017

description: Cross sectional elevation data for Dolores River long term monitoring sites was collected before and after high flow releases to understand changes in channel hydraulic geometries associated with these flows. Colorado Parks and Wildlife (CPW) conducted geomorphic monitoring associated with managed releases from McPhee Reservoir in 2017. CPW and partners in the Dolores River Native Fish Monitoring & Recommendation Team (M&R Team) sought to assess impacts of release flow targets identified in the 2014 Lower Dolores River Implementation Monitoring and Evaluation Plan. Target flows in the plan include flushing flows--fine sediment scouring, flushing flows--d50 mobilization, habitat maintenance flows--bankfull, and habitat maintenance flows--overbanking/floodplain access. Cross sectional surveys and pre/post release photopoints documented effects of flow magnitude and duration on channel geometries. Evidence of scouring and evacuation of sediment within the channel and re-deposition onto the floodplain was present at multiple sites, as well as scouring and evacuation of material within pools. Little bank erosion occurred at 4 of 5 sites, suggesting the river is stabilizing within a narrower channel.
DOI: 10.25345/c5t43j872
title: MassIVE Reanalysis RMSV000000354.10376 - CCMS MassIVE Knowledge Base (MassIVE-KB) MS-GF+ reanalysis of Bioplex AP-MS Dataset for Library Construction, PRPF6 [launched by 89f2bcaf3c714e3788b179581bc93515]
title: Center for Computational Mass Spectrometry (CCMS) systematic reanalysis of public proteomics mass spectrometry (MS) datasets provides a public, large-scale and comparable set of dataset reanalyses results including detailed provenance records. To further facilitate the broad reusability of public proteomics MS data, these reanalyses were also used to build the MassIVE Knowledge Base (MassIVE-KB) spectral library, a community-wide resource derived from hundreds of millions of identified spectra from tens of terabytes of mass spectrometry data.
DOI: 10.5063/f1mc8xg9
title: A meta-analysis of shrub density as a predictor of animal abundance

description: Facilitative interactions between shrub and animal species can shape the structure and composition of various ecosystems. Here, we tested whether the density of woody plants such as shrubs can be used to predict the local abundance of animal populations in a meta-analysis. Keyword searches on ISI Web of Science using the “density”, “facil*”, “shrub*”, and “animal*” returned 753 studies. Full-text review for shrub density, animal abundance or density, and sampling effort in total number of days resulted in a total of 113 independent observations that reported shrub density and animal abundance. shrub density positively predicted estimated animal abundance locally particularly in desert and grassland ecosystems. Shrub density can be used as an effective measure in predicting local animal abundances for wildlife biology and ecological research.
DOI: 10.25345/c5t43j88j
title: MassIVE Reanalysis RMSV000000354.10552 - CCMS MassIVE Knowledge Base (MassIVE-KB) MS-GF+ reanalysis of Bioplex AP-MS Dataset for Library Construction, KLK4 [launched by 89f2bcaf3c714e3788b179581bc93515]
title: Center for Computational Mass Spectrometry (CCMS) systematic reanalysis of public proteomics mass spectrometry (MS) datasets provides a public, large-scale and comparable set of dataset reanalyses results including detailed provenance records. To further facilitate the broad reusability of public proteomics MS data, these reanalyses were also used to build the MassIVE Knowledge Base (MassIVE-KB) spectral library, a community-wide resource derived from hundreds of millions of identified spectra from tens of terabytes of mass spectrometry data.
DOI: 10.25345/c5t43j891
title: MassIVE Reanalysis RMSV000000354.10763 - CCMS MassIVE Knowledge Base (MassIVE-KB) MS-GF+ reanalysis of Bioplex AP-MS Dataset for Library Construction, PHEX [launched by 89f2bcaf3c714e3788b179581bc93515]
title: Center for Computational Mass Spectrometry (CCMS) systematic reanalysis of public proteomics mass spectrometry (MS) datasets provides a public, large-scale and comparable set of dataset reanalyses results including detailed provenance records. To further facilitate the broad reusability of public proteomics MS data, these reanalyses were also used to build the MassIVE Knowledge Base (MassIVE-KB) spectral library, a community-wide resource derived from hundreds of millions of identified spectra from tens of terabytes of mass spectrometry data.
DOI: 10.5063/f1mk6bbs
title: Herbivore influence on post-fire California sage scrub plant and soil microbial assemblages

description: California sage scrub (CSS) is an endangered, shrub-dominated, southern California ecosystem type threatened by increasing fire frequencies and type conversion to non-native grasslands. For five years, we investigated the influence of herbivores on post-fire CSS succession by annually surveying plant assemblages in control (herbivores allowed access) and experimental (herbivore excluded) plots at the Bernard Field Station, in Claremont California, USA, following a fire in May 2017. We also explored if soil microbe abundances, fungi assemblage structure, and carbon and nitrogen concentrations differed among treatments. Molecular data available at GenBank under Bioproject PRJNA893696.
DOI: 10.25345/c5t43j904
title: MassIVE Reanalysis RMSV000000354.11148 - CCMS MassIVE Knowledge Base (MassIVE-KB) MS-GF+ reanalysis of Bioplex AP-MS Dataset for Library Construction, CENPP [launched by 89f2bcaf3c714e3788b179581bc93515]
title: Center for Computational Mass Spectrometry (CCMS) systematic reanalysis of public proteomics mass spectrometry (MS) datasets provides a public, large-scale and comparable set of dataset reanalyses results including detailed provenance records. To further facilitate the broad reusability of public proteomics MS data, these reanalyses were also used to build the MassIVE Knowledge Base (MassIVE-KB) spectral library, a community-wide resource derived from hundreds of millions of identified spectra from tens of terabytes of mass spectrometry data.
DOI: 10.25345/c5t43j91m
title: MassIVE Reanalysis RMSV000000354.11531 - CCMS MassIVE Knowledge Base (MassIVE-KB) MS-GF+ reanalysis of Bioplex AP-MS Dataset for Library Construction, IMMP1L [launched by 89f2bcaf3c714e3788b179581bc93515]
title: Center for Computational Mass Spectrometry (CCMS) systematic reanalysis of public proteomics mass spectrometry (MS) datasets provides a public, large-scale and comparable set of dataset reanalyses results including detailed provenance records. To further facilitate the broad reusability of public proteomics MS data, these reanalyses were also used to build the MassIVE Knowledge Base (MassIVE-KB) spectral library, a community-wide resource derived from hundreds of millions of identified spectra from tens of terabytes of mass spectrometry data.
DOI: 10.5063/f1mp51qn
title: Data for the case study described in Luypaert et al. (2022): A framework for quantifying soundscape diversity using Hill numbers

description: This data was used to construct the case study in Luypaert et al. (2022) - https://doi.org/10.1111/2041-210X.13924.The data consists of:1. Frog incidence frequency dataThis data represents a subset of the data described in:Bueno, A. S., Masseli, G. S., Kaefer, I. L., & Peres, C. A. (2020). Sampling design may obscure species–area relationships in landscape‐scale field studies.Ecography, 43(1), 107-118.The data consists of a subset of 105 sites on 62 forest islands and 4 continuous forest sites.The data was obtained for the project Ecological Impacts of River Damming on Forest Bird Assemblages in the Brazilian Amazon. Find out more at https://www.rufford.org/projects/anderson_saldanha_bueno.Raw data files corresponding to these frog observations are available for inspection on the ARBIMON platform:https://arbimon.rfcx.org/project/soundscape-frogdiv-relationship2. Acoustic index dataFor the purposes of the case study described in Luypaert et al. (2022), the Acoustic Cover (CVR) index was used. The CVR-index was computed using a sampling rate of 44,100 Hz and a window size of 256. Indices were computed in the R programming language using the 'index_calc' function in the soundscapeR package (https://github.com/ThomasLuypaert/soundscapeR), which in turn calls on the QUT Ecoacoustics Analysis Programs software for its index computations (https://ap.qut.ecoacoustics.info/tutorials/01-usingap/practical?tabs=windows).
DOI: 10.25345/c5t43j923
title: MassIVE Reanalysis RMSV000000355.4640 - CCMS MassIVE Knowledge Base (MassIVE-KB) MS-GF+ reanalysis of Bioplex AP-MS Dataset for Library Construction, PRDM16 [launched by dab8bba1f45f4e4082f7fa74fbbf30fb]
title: Center for Computational Mass Spectrometry (CCMS) systematic reanalysis of public proteomics mass spectrometry (MS) datasets provides a public, large-scale and comparable set of dataset reanalyses results including detailed provenance records. To further facilitate the broad reusability of public proteomics MS data, these reanalyses were also used to build the MassIVE Knowledge Base (MassIVE-KB) spectral library, a community-wide resource derived from hundreds of millions of identified spectra from tens of terabytes of mass spectrometry data.
DOI: 10.5063/f1mw2fkr
title: Data: Repeatability of performance within and across contexts measuring behavioral flexibility

description: Research into animal cognitive abilities is increasing quickly and often uses methods where behavioral performance on a task is assumed to represent variation in the underlying cognitive trait. However, because these methods rely on behavioral responses as a proxy for cognitive ability, it is important to validate that the task structure does, in fact, target the cognitive trait of interest rather than non-target cognitive, personality, or motivational traits (construct validity). One way to validate that task structure elicits performance based on the target cognitive trait is to assess the temporal and contextual repeatability of performance. In other words, individual performance is likely to represent an inherent trait when it is consistent across time and across similar or different tasks that theoretically test the same trait. Here we assessed the temporal and contextual repeatability of the cognitive trait behavioral flexibility in great-tailed grackles. For temporal repeatability, we quantified the number of trials to form a color preference after each of multiple color reversals on a serial reversal learning task. For contextual repeatability, we then compared performance on this task to the latency to switch solutions on two different multi-access boxes. We found that the number of trials to form a preference in reversal learning was repeatable across serial reversals and the latency to switch a preference was repeatable across reversal learning and the multi-access box contexts. This supports the idea that reversal learning and solution switching on multi-access boxes similarly reflect the inherent trait of behavioral flexibility.
DOI: 10.25345/c5t43j93k
title: MassIVE Reanalysis RMSV000000355.5030 - CCMS MassIVE Knowledge Base (MassIVE-KB) MS-GF+ reanalysis of Bioplex AP-MS Dataset for Library Construction, GABBR1 [launched by dab8bba1f45f4e4082f7fa74fbbf30fb]
title: Center for Computational Mass Spectrometry (CCMS) systematic reanalysis of public proteomics mass spectrometry (MS) datasets provides a public, large-scale and comparable set of dataset reanalyses results including detailed provenance records. To further facilitate the broad reusability of public proteomics MS data, these reanalyses were also used to build the MassIVE Knowledge Base (MassIVE-KB) spectral library, a community-wide resource derived from hundreds of millions of identified spectra from tens of terabytes of mass spectrometry data.
DOI: 10.25345/c5t43j942
title: MassIVE Reanalysis RMSV000000355.5239 - CCMS MassIVE Knowledge Base (MassIVE-KB) MS-GF+ reanalysis of Bioplex AP-MS Dataset for Library Construction, GOLGA8G [launched by dab8bba1f45f4e4082f7fa74fbbf30fb]
title: Center for Computational Mass Spectrometry (CCMS) systematic reanalysis of public proteomics mass spectrometry (MS) datasets provides a public, large-scale and comparable set of dataset reanalyses results including detailed provenance records. To further facilitate the broad reusability of public proteomics MS data, these reanalyses were also used to build the MassIVE Knowledge Base (MassIVE-KB) spectral library, a community-wide resource derived from hundreds of millions of identified spectra from tens of terabytes of mass spectrometry data.
DOI: 10.5063/f1n014zx
title: The Sacramento-San Joaquin Delta genus and community level classification maps derived from airborne spectroscopy data

description: Since 2004, airborne hyperspectral imagery has been acquired over the Sacramento - San Joaquin Delta in northern California to map submerged and floating invasive species and study how they affect the Delta ecosystem. Acquiring imagery over 2220 square kilometers of the Delta typically required 60-70 flightlines each year, which were then further processed to surface reflectance, georegistered, and prepared for analysis. Further, each flightline was processed using multiple spectral mapping methods such as spectral angle mapper, spectral mixture analysis, spectral indexes, and continuum removal over water and cellulose absorption bands. The outputs of these transformations were used as inputs to a Random Forests classifier. Concurrent with image acquisition, field data (800-2000 points) were collected across the Delta for training and validation of the classification products. The field data were divided into test and training polygons. These polygons were overlaid on the transformed files and pixel data were extracted corresponding to the polygons. The training data were used to train the Random Forests classifier to identify 10 classes (water, submerged aquatic vegetation, emergent marsh, soil, non-photosynthetic vegetation, water hyacinth, water primrose, pennywort, shadow, riparian vegetation). The classifier was validated quantitatively using the test data at both pixel and polygon level using overall accuracy and kappa metrics. The classifier was then applied to all flightlines and class maps were produced. Mosaics of these class maps are published in this dataset.