cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.15468/dl.c4f8v2
title: Occurrence Download

description: A dataset containing 4628 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Parapholis cylindrica (Willd.) Romero Zarco"
 ]
}

 The dataset includes 4628 records from 371 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0069639-240321170329656/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.2wez9b
title: Occurrence Download

description: A dataset containing 12297 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Erythronium grandiflorum Pursh"
 ]
}

 The dataset includes 12297 records from 182 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0021564-250402121839773/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.j4knq5
title: Occurrence Download

description: A dataset containing 68 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Erythronium pusaterii (Munz & J.T.Howell) Shevock, Bartel & G.A.Allen"
 ]
}

 The dataset includes 68 records from 10 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0021565-250402121839773/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.4121/16912183.v1
title: Dataset for "Plant traits determining biogeomorphic landscape dynamics: a study on clonal expansion strategies driving cliff formation at marsh edges"

description: This dataset contains i) the clonal expansion traits of three marsh species (<i>Spartina anglica</i>, <i>Scirpus maritimus</i>, and <i>Phragmites australis</i>) at marsh edges in a series of mesocosm experiments; and ii) cliff formation at mimicked marsh edges (<i>S. anglica</i> and <i>S. maritimus</i>, that with contrasting clonal expansion traits) in a flume experiment. This study examined how species-specific differences in expansion strategy, i.e. clonal step-length of laterally expanding tillers, both respond to sediment type and drive cliff formation and persistence.
DOI: 10.4121/16893439.v1
title: Data underlying the manuscript "Another look at asymmetry in the connection between ENSO and the NAO"

description: <b>This is the primary script, initial conditions, and boundary layer SST for an article going to be submitted to AMS JC, named “Another look at asymmetry in the connection between ENSO and the NAO”</b>. We conducted atmospheric modeling experiments using the European Center-Hamburg Model version 5.4 (ECHAM-5.4, Roeckner et al. 2003) from the Max-Plank Institute. The ECHAM5.4 was run with 1.875 lon*1.875lat horizontal spacing, 19 vertical levels from the surface to 10 hPa. In the control experiment (CTL), 1955-2009 monthly historical SST and SIC were used as the lower boundary condition and run for 55 years, including a 4-year spin-up. To reduce the potential impact of ENSO and NAO signals, 20 weak or neutral ENSO and NAO years (the normalized Niño-3.4 and NAO indices are between -0.7 and 0.7) were selected, including 1958, 1960, 1961, 1966, 1967, 1969, 1974, 1977, 1979, 1980, 1981, 1985, 1987, 1990, 1996, 2000, 2001, 2003, 2004, and 2006. To examine the influence of different types of ENSO on the NAO, we further performed nine sensitivity experiments covering only the period from December 1<sup>st</sup> to February 28<sup>th</sup> in the 20 sample years. The sensitivity-minus-CTL differences represent the atmospheric response to the SST anomalies in the different ENSO winters. The numerical result dataset is too large to archive, we provided the initial conditions for 20 sample years and the boundary layer conditions for the different sensitivity experiments. The folder contains the boundary layer condition for each sensitivity experiment is named after the experiment name. The initial conditions begin with "rerun".<br>
DOI: 10.3886/e154481
title: Constructing a Monolith: State Policy, Institutional DEI Plans, and the Flattening of Latinx Identity at Hispanic Serving Institutions

description: As racialized institutions, Hispanic Serving Institutions (HSIs) educate large portions of racially minoritized students within organizational and policy structures that advance whiteness. This research considers how the institutional-level diversity, equity, and inclusion (DEI) plans, produced in response to state-level DEI policies in Florida, California, and New York, construct narratives of intersectional diversity and a racialized Latinx identity at Hispanic Serving Community Colleges (HSCCs). Engaging critical discourse analysis, drawing together critical race theory and LatCrit, the analysis expands the consideration of DEI policy implementation at HSCCs. The data included represent the state-level policies and implementation guidance that frame the production of the Institutional DEI plans. <br><br>The findings illustrate the interconnectedness of state-level policy, policy implementation guidance, and institution-level discourse related to defining intersectional diversity and demographic data. Further, it captures a lack of attention to racial composition among Latinx students and the limited characterization of HSI status. This study highlights how the implementation of state-level DEI policies can advance or erase the considerations of intersectionality among Latinx students.
DOI: 10.3886/e154481v1
title: Constructing a Monolith: State Policy, Institutional DEI Plans, and the Flattening of Latinx Identity at Hispanic Serving Institutions

description: As racialized institutions, Hispanic Serving Institutions (HSIs) educate large portions of racially minoritized students within organizational and policy structures that advance whiteness. This research considers how the institutional-level diversity, equity, and inclusion (DEI) plans, produced in response to state-level DEI policies in Florida, California, and New York, construct narratives of intersectional diversity and a racialized Latinx identity at Hispanic Serving Community Colleges (HSCCs). Engaging critical discourse analysis, drawing together critical race theory and LatCrit, the analysis expands the consideration of DEI policy implementation at HSCCs. The data included represent the state-level policies and implementation guidance that frame the production of the Institutional DEI plans. <br><br>The findings illustrate the interconnectedness of state-level policy, policy implementation guidance, and institution-level discourse related to defining intersectional diversity and demographic data. Further, it captures a lack of attention to racial composition among Latinx students and the limited characterization of HSI status. This study highlights how the implementation of state-level DEI policies can advance or erase the considerations of intersectionality among Latinx students.
DOI: 10.25810/bnqe-wt68
title: Trace H2S Promotes Organic Aerosol Production and Organosulfur Compound Formation in CO2-CH4-N2 Haze Chemistry
DOI: 10.6084/m9.figshare.16915501.v1
title: Genotype-be-sequencing SNPs for three largemouth bass lineages and hybrids

description: 8,582 SNPs across 144 largemouth bass individuals, derived by genotype-by-sequencing with PstI enzyme. GBS data was assembled with Stacks2 and a draft <i>Micropterus floridanus</i> genome. Individuals include northern Largemouth Bass (<i>M. salmoides</i>), largemouth bass from the Mobile-Tensaw delta, Florida Bass (<i>M. floridanus</i>), and intergrades. Filtering: Biallelic SNPs were retained if they had a minor allele frequency greater than 0.05, had a minor allele count greater than 4, were genotyped in at least three population groups (NLB, DLB, FLB, or ILB), and had &lt;15% missing data across all individuals. SNPs that departed Hardy–Weinberg equilibrium with a p‐value cutoff of 0.05 in two or more sampling sites were also removed. SNPs in linkage disequilibrium (r2 &gt; 0.2) or within the same 1000‐bp window were pruned using BCFtools.
DOI: 10.6073/pasta/f228282d7029ee21a355fb6feb51601b
title: Jornada Basin LTER Cross-scale Interactions Study (CSIS) Block 11 meteorological station: 5-minute summary wind and air temperature data: 2013 - ongoing

description: This data package contains 5-minute air temperature and wind summary data from Jornada Basin LTER Cross Scale Interactions Study (CSIS) Block-11 met station. Average air temperature, wind speed, and wind direction are measured and calculated at an automated meteorological station connected to a 900 MHz spread spectrum wireless network. Wind speed is measured at 37cm, 75 cm, 150 cm, and 300 cm, wind direction at approximately 3m, and air temperature and relative humidity at approximate 2.5m. This is a subset of baseline weather data collected at the 15 Jornada Basin LTER CSIS study blocks, New Mexico. Measurements are aggregated at intervals of 5, 30, 60 minutes and daily, with precipitation additionally provided with 1 second aggregation during precipitation events. The met station variables measured include air temperature, precipitation, relative humidity, wind direction, wind speed. Precipitation is not measured at Block 1 and Block 12 because of proximity to Block 2 and Block 13, respectively . This is an ONGOING dataset.
DOI: 10.6084/m9.figshare.17003423.v1
title: Eigenvectors from Eigenvalues Sparse Principal Component Analysis

description: We present a novel technique for sparse principal component analysis. This method, named eigenvectors from eigenvalues sparse principal component analysis (EESPCA), is based on the formula for computing squared eigenvector loadings of a Hermitian matrix from the eigenvalues of the full matrix and associated sub-matrices. We explore two versions of the EESPCA method: a version that uses a fixed threshold for inducing sparsity and a version that selects the threshold via cross-validation. Relative to the state-of-the-art sparse PCA methods of Witten et al., Yuan and Zhang, and Tan et al., the fixed threshold EESPCA technique offers an order-of-magnitude improvement in computational speed, does not require estimation of tuning parameters via cross-validation, and can more accurately identify true zero principal component loadings across a range of data matrix sizes and covariance structures. Importantly, the EESPCA method achieves these benefits while maintaining out-of-sample reconstruction error and PC estimation error close to the lowest error generated by all evaluated approaches. EESPCA is a practical and effective technique for sparse PCA with particular relevance to computationally demanding statistical problems such as the analysis of high-dimensional datasets or application of statistical techniques like resampling that involve the repeated calculation of sparse PCs. Supplementary materials for this article are available online.
DOI: 10.6084/m9.figshare.17003423
title: Eigenvectors from Eigenvalues Sparse Principal Component Analysis

description: We present a novel technique for sparse principal component analysis. This method, named eigenvectors from eigenvalues sparse principal component analysis (EESPCA), is based on the formula for computing squared eigenvector loadings of a Hermitian matrix from the eigenvalues of the full matrix and associated sub-matrices. We explore two versions of the EESPCA method: a version that uses a fixed threshold for inducing sparsity and a version that selects the threshold via cross-validation. Relative to the state-of-the-art sparse PCA methods of Witten et al., Yuan and Zhang, and Tan et al., the fixed threshold EESPCA technique offers an order-of-magnitude improvement in computational speed, does not require estimation of tuning parameters via cross-validation, and can more accurately identify true zero principal component loadings across a range of data matrix sizes and covariance structures. Importantly, the EESPCA method achieves these benefits while maintaining out-of-sample reconstruction error and PC estimation error close to the lowest error generated by all evaluated approaches. EESPCA is a practical and effective technique for sparse PCA with particular relevance to computationally demanding statistical problems such as the analysis of high-dimensional datasets or application of statistical techniques like resampling that involve the repeated calculation of sparse PCs. Supplementary materials for this article are available online.
DOI: 10.6073/pasta/ef57a7d6cfbc3a4c6866b176475a7720
title: Jornada Basin LTER Cross-scale Interactions Study (CSIS) Block 11 meteorological station: 1-hour summary data: 2017 - ongoing

description: This data package contains hourly air temperature, relative humidity, wind speed, wind direction, and precipitation summary data from Jornada Basin LTER Cross Scale Interactions Study (CSIS) Block-11 met station. Air temperature, relative humidity, wind speed, wind direction, and precipitation are measured and calculated at an automated meteorological station connected to a 900 MHz spread spectrum wireless network. Wind speed is measured at 37cm, 75 cm, 150 cm, and 300 cm, wind direction at approximately 3m, and air temperature and relative humidity at approximate 2.5m. Measurements are aggregated at intervals of 5, 30, 60 minutes and daily, with precipitation additionally provided with 1 second aggregation during precipitation events. Precipitation is not measured at Block 1 and Block 12 because of proximity to Block 2 and Block 13, respectively . This is an ONGOING dataset.
DOI: 10.6084/m9.figshare.17003380
title: bug and microbe illumina simulated reads

description: simulated illumina reads of microbes and subset human genomes as described here: https://hackmd.io/@astrobiomike/generating-in-silico-illumina-reads
DOI: 10.6084/m9.figshare.17003380.v1
title: bug and microbe illumina simulated reads

description: simulated illumina reads of microbes and subset human genomes as described here: https://hackmd.io/@astrobiomike/generating-in-silico-illumina-reads
DOI: 10.6073/pasta/bd6777daad9d4dd10b2e57334d0075b0
title: Jornada Basin LTER Cross-scale Interactions Study (CSIS) Block 11 meteorological station: 30-minute soil volumetric water content data: 2013 - ongoing

description: 30-minute Soil Moisture data at 10 cm at CSIS Block-11. Collection of soil volumetric water content data at Jornada LTER Cross-scale Interactions Study (CSIS) blocks, New Mexico, supports the environmental monitoring objectives of the Jornada LTER monitoring program that look at plant-soil water dynamics. Soil volumetric water content is measured at 10 cm depth at 3 locations at each of the 4 plots per block. The locations in each plot are under bare soil, under perennial grass, and under shrub. Volumetric water content, bulk electrical conductivity, soil temperature, and bulk dielectric permittivity are recorded every 30 minutes at an automated meteorological station installed at Jornada LTER CSIS Block-11 site. This is an ONGOING dataset.
DOI: 10.6073/pasta/2df492f1a009dd21525d3398118c6781
title: Jornada Basin LTER Cross-scale Interactions Study (CSIS) Block 11 meteorological station: Daily average soil volumetric water content data: 2013 - ongoing

description: Daily Average of 30-minute Soil Volumetric Water Content data at 10 cm at CSIS Block-11. Collection of soil water content data at Jornada LTER Cross-scale Interactions Study (CSIS) blocks, New Mexico, supports the environmental monitoring objectives of the Jornada LTER monitoring program that look at plant-soil water dynamics. Soil volumetric water content is measured every 30 minutes at 10 cm depth at 3 locations at each of the 4 plots per block and averaged for the daily value. The locations in each plot are under bare soil, under perennial grass, and under shrub. Volumetric water content, bulk electrical conductivity, soil temperature, and bulk dielectric permittivity are recorded at an automated meteorological station installed at Jornada LTER CSIS Block-11 site. This is an ONGOING dataset.
DOI: 10.6073/pasta/2f98f0564fd74f0a0c120a614e459ce5
title: Jornada Basin LTER Cross-scale Interactions Study (CSIS) Block 11 meteorological station: Daily summary data: 2013 - ongoing

description: This data package contains hourly air temperature, relative humidity, wind speed, wind direction, and precipitation summary data from Jornada Basin LTER Cross Scale Interactions Study (CSIS) Block-11 met station. Air temperature, relative humidity, wind speed, wind direction, and precipitation are measured and calculated at an automated meteorological station connected to a 900 MHz spread spectrum wireless network. Wind speed is measured at 37cm, 75 cm, 150 cm, and 300 cm, wind direction at approximately 3m, and air temperature and relative humidity at approximate 2.5m. Measurements are aggregated at intervals of 5, 30, 60 minutes and daily, with precipitation additionally provided with 1 second aggregation during precipitation events. The met station variables measured include air temperature, precipitation, relative humidity, wind direction, wind speed. Precipitation is not measured at Block 1 and Block 12 because of proximity to Block 2 and Block 13, respectively . This is an ONGOING dataset.
DOI: 10.6073/pasta/b7d7f3b3863774991e745acf53c5acd8
title: Jornada Basin LTER Cross-scale Interactions Study (CSIS) Block 12 meteorological station: 30-minute summary data: 2017 - ongoing

description: This data package contains 30-minute air temperature, relative humidity, and wind summary data from Jornada Basin LTER Cross Scale Interactions Study (CSIS) Block-1 met station. Average air temperature, relative humidity, wind speed and wind direction are measured and calculated at an automated meteorological station connected to a 900 MHz spread spectrum wireless network. Wind speed is measured at 37cm, 75 cm, 150 cm, and 300 cm, wind direction at approximately 3m, and air temperature and relative humidity at approximate 2.5m. Measurements are aggregated at intervals of 5, 30, 60 minutes and daily, with precipitation additionally provided with 1 second aggregation during precipitation events. The met station variables measured include air temperature, precipitation, relative humidity, wind direction, wind speed. Precipitation is not measured at Block 1 and Block 12 because of proximity to Block 2 and Block 13, respectively. This is an ONGOING dataset.
DOI: 10.25345/c5887d
title: MassIVE MSV000088375 - Proteomic and single-cell transcriptomic dissection of human plasmacytoid dendritic cell response to influenza virus
title: Plasmacytoid dendritic cells [pDCs] represent a rare innate immune subset uniquely endowed with the capacity to produce substantial amounts of type-I interferons [IFN-I]. This function of pDCs is critical for effective antiviral defenses and has been implicated in autoimmunity. While IFN-I and select cytokines have been recognized as pDC secreted products, a comprehensive agnostic profiling of the pDC secretome in response to a physiologic stimulus has not been reported. We applied LC-MS/MS to catalogue the repertoire of proteins secreted by pDCs in response to challenge with live influenza H1N1. Additionally, using single-cell RNA-seq [scRNA-seq], we perform multidimensional analyses of pDC transcriptional diversification following stimulation. Our data reveal an abundance of protein species released by pDCs in addition to IFN-I, and evidence highly specialized roles within the pDC population ranging from dedicated cytokine super-producers to cells with APC-like functions. Moreover, dynamic expression of transcription factors and surface markers characterize activated pDC fates.
DOI: 10.6084/m9.figshare.17003425.v1
title: MassARRAY Sequenom Genotypes for 91 SNPs in 990 Largemouth Bass Samples

description: Genotypes for 52 and 39 SNPs in 990 samples (including replicates), using the MassARRAY Sequenom iPLEX platform. Samples include largemouth bass from 52 sites across the eastern United States, representing Northern Largemouth Bass (<i>Micropterus salmoides</i>), diverged Largemouth Bass from the Mobile-Tensaw Delta (<i>M. salmoides</i>), Florida Bass (<i>M. floridanus</i>), and their hybrids. These 91 SNPs were developed from genotype-by-sequencing data to determine hybridization and genetic integrity among the 3 lineages using the program STRUCTURE. 18 of these SNPs are typically excluded from STRUCTURE runs due to quality control testing.
DOI: 10.6084/m9.figshare.17003425
title: MassARRAY Sequenom Genotypes for 91 SNPs in 990 Largemouth Bass Samples

description: Genotypes for 52 and 39 SNPs in 990 samples (including replicates), using the MassARRAY Sequenom iPLEX platform. Samples include largemouth bass from 52 sites across the eastern United States, representing Northern Largemouth Bass (<i>Micropterus salmoides</i>), diverged Largemouth Bass from the Mobile-Tensaw Delta (<i>M. salmoides</i>), Florida Bass (<i>M. floridanus</i>), and their hybrids. These 91 SNPs were developed from genotype-by-sequencing data to determine hybridization and genetic integrity among the 3 lineages using the program STRUCTURE. 18 of these SNPs are typically excluded from STRUCTURE runs due to quality control testing.
DOI: 10.6084/m9.figshare.16915501
title: Genotype-by-sequencing SNPs for three largemouth bass lineages and hybrids

description: 8,582 SNPs across 144 largemouth bass individuals, derived by genotype-by-sequencing with PstI enzyme. GBS data was assembled with Stacks2 and a draft <i>Micropterus floridanus</i> genome. Individuals include northern Largemouth Bass (<i>M. salmoides</i>), largemouth bass from the Mobile-Tensaw delta, Florida Bass (<i>M. floridanus</i>), and intergrades. Filtering: Biallelic SNPs were retained if they had a minor allele frequency greater than 0.05, had a minor allele count greater than 4, were genotyped in at least three population groups (NLB, DLB, FLB, or ILB), and had &lt;15% missing data across all individuals. SNPs that departed Hardy–Weinberg equilibrium with a p‐value cutoff of 0.05 in two or more sampling sites were also removed. SNPs in linkage disequilibrium (r2 &gt; 0.2) or within the same 1000‐bp window were pruned using BCFtools.<br>File <b>NFLDB_popname.strata</b> has population info for samples. NB=Northern Largemouth Bass, DB=Delta Largemouth Bass, FB=Florida Bass, ILMB=Intergrade largemouth bass
DOI: 10.6084/m9.figshare.16915501.v3
title: Genotype-by-sequencing SNPs for three largemouth bass lineages and hybrids

description: 8,582 SNPs across 144 largemouth bass individuals, derived by genotype-by-sequencing with PstI enzyme. GBS data was assembled with Stacks2 and a draft <i>Micropterus floridanus</i> genome. Individuals include northern Largemouth Bass (<i>M. salmoides</i>), largemouth bass from the Mobile-Tensaw delta, Florida Bass (<i>M. floridanus</i>), and intergrades. Filtering: Biallelic SNPs were retained if they had a minor allele frequency greater than 0.05, had a minor allele count greater than 4, were genotyped in at least three population groups (NLB, DLB, FLB, or ILB), and had &lt;15% missing data across all individuals. SNPs that departed Hardy–Weinberg equilibrium with a p‐value cutoff of 0.05 in two or more sampling sites were also removed. SNPs in linkage disequilibrium (r2 &gt; 0.2) or within the same 1000‐bp window were pruned using BCFtools.<br>File <b>NFLDB_popname.strata</b> has population info for samples. NB=Northern Largemouth Bass, DB=Delta Largemouth Bass, FB=Florida Bass, ILMB=Intergrade largemouth bass