cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.15468/dl.6hffqr
title: Occurrence Download

description: A dataset containing 6023 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Geometry POLYGON ((-122.4483263999999991 37.7496221999999975, -122.4483263999999991 37.7519667299999995, -122.4483263999999991 37.7531858899999975, -122.4483263999999991 37.7548739499999968, -122.4483263999999991 37.7570309199999983, -122.4483263999999991 37.7592816599999992, -122.4483263999999991 37.7606883799999977, -122.4483263999999991 37.7620951000000034, -122.4461660999999992 37.7620951000000034, -122.4448511399999973 37.7620951000000034, -122.4433483199999984 37.7620951000000034, -122.4409062499999976 37.7620951000000034, -122.4389338000000009 37.7620951000000034, -122.4389338000000009 37.7603132599999967, -122.4389338000000009 37.7583438500000028, -122.4389338000000009 37.7568433499999969, -122.4389338000000009 37.7557179800000000, -122.4389338000000009 37.7539361400000004, -122.4389338000000009 37.7518729499999992, -122.4389338000000009 37.7496221999999975, -122.4413758799999954 37.7496221999999975, -122.4434422500000039 37.7496221999999975, -122.4453207699999950 37.7496221999999975, -122.4466357299999970 37.7496221999999975, -122.4483263999999991 37.7496221999999975))",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "Year is greater than or equal to 1932",
 "BasisOfRecord is one of (Human Observation, Living Specimen, Observation, Specimen, Machine Observation)"
 ]
}

 The dataset includes 6023 records from 50 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0092122-210914110416597/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.cqyd5a
title: Occurrence Download

description: A dataset containing 31086 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is one of (Limodorum abortivum (L.) Sw.)",
 "Geometry POLYGON((-9.36035 44.71551,-10.59082 42.81152,-11.82129 36.80928,-7.69043 36.17336,-3.38379 35.88905,3.12012 38.13456,9.18457 38.20366,11.7334 37.16032,12.78809 34.74161,17.09473 33.79741, 23.15918 34.23451,30.10254 32.62087,33.2666 32.99024,35.72754 35.03,33.00293 35.53223,28.69629 35.17381,28.34473 36.31513,25.7959 37.50973,24.91699 39.90974,28.78418 40.6473,30.71777 41.17865,36.87012 45.213,38.18848 46.98025,38.71582 47.7541,39.94629 47.93107,40.20996 49.61071,37.0459 50.34546,35.72754 50.40152,33.79395 52.26816,31.68457 51.94426,31.4209 53.27835,32.56348 53.43572,30.98145 54.77535,30.89355 55.52863,28.43262 56.02295,27.20215 57.65716,27.37793 58.30949,27.90527 59.17593,29.66309 59.88894,27.6416 60.58697,31.50879 62.75473,28.78418 69.83962,30.89355 70.28912,29.22363 71.55274,21.75293 71.30079,14.28223 70.14036,11.38184 67.47492,4.87793 63.66576,-5.53711 71.52491,-10.63477 71.69129,-21.5332 67.74276,-28.56445 65.36684,-24.3457 61.35461,-9.36035 44.71551))",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "Year is greater than or equal to 1980",
 "Year is less than or equal to 2021"
 ]
}

 The dataset includes 31086 records from 162 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0244481-210914110416597/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.x9b67m
title: Occurrence Download

description: A dataset containing 24 species occurrences available in GBIF matching the query:
{
 "and" : [
 "InstitutionCode is sio",
 "OccurrenceStatus is Present",
 "TaxonKey is one of (Opalia borealis (A.Gould, 1852), Chlorostoma montereyi (Kiener, 1850), Acanthinucella punctulata (J.E.Gray, 1835), Lottia digitalis (Rathke, 1833), Patinopecten caurinus (A.Gould, 1850), Neostylidium eschrichtii (Middendorff, 1849), Haliotis rufescens Swainson, 1822, Tegula montereyi (Kiener, 1850))"
 ]
}

 The dataset includes 24 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0090768-230224095556074/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.bd9r4b
title: Occurrence Download

description: A dataset containing 44712 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Myodes gapperi (Vigors, 1830)"
 ]
}

 The dataset includes 44712 records from 107 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0126975-210914110416597/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.sky5dy
title: Occurrence Download

description: A dataset containing 236 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is one of (Limoniscus violaceus (P.W.J.Müller, 1821))",
 "Geometry POLYGON((-9.36035 44.71551,-10.59082 42.81152,-11.82129 36.80928,-7.69043 36.17336,-3.38379 35.88905,3.12012 38.13456,9.18457 38.20366,11.7334 37.16032,12.78809 34.74161,17.09473 33.79741, 23.15918 34.23451,30.10254 32.62087,33.2666 32.99024,35.72754 35.03,33.00293 35.53223,28.69629 35.17381,28.34473 36.31513,25.7959 37.50973,24.91699 39.90974,28.78418 40.6473,30.71777 41.17865,36.87012 45.213,38.18848 46.98025,38.71582 47.7541,39.94629 47.93107,40.20996 49.61071,37.0459 50.34546,35.72754 50.40152,33.79395 52.26816,31.68457 51.94426,31.4209 53.27835,32.56348 53.43572,30.98145 54.77535,30.89355 55.52863,28.43262 56.02295,27.20215 57.65716,27.37793 58.30949,27.90527 59.17593,29.66309 59.88894,27.6416 60.58697,31.50879 62.75473,28.78418 69.83962,30.89355 70.28912,29.22363 71.55274,21.75293 71.30079,14.28223 70.14036,11.38184 67.47492,4.87793 63.66576,-5.53711 71.52491,-10.63477 71.69129,-21.5332 67.74276,-28.56445 65.36684,-24.3457 61.35461,-9.36035 44.71551))",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "Year is greater than or equal to 1980",
 "Year is less than or equal to 2021"
 ]
}

 The dataset includes 236 records from 23 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0244489-210914110416597/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.bqny3a
title: Occurrence Download

description: A dataset containing 222 species occurrences available in GBIF matching the query:
{
 "and" : [
 "BasisOfRecord is Specimen",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "TaxonKey is Agave sisalana Perrine"
 ]
}

 The dataset includes 222 records from 52 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0090771-230224095556074/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5517/ccdc.csd.cc2gv89x
title: CCDC 2289359: Experimental Crystal Structure Determination

description: Related Article: María Álvarez, Francisco Villalba, Martina Casciotti, Francisco Molina, Giuseppe Sciortino, Agustí Lledós, Ana C. Albéniz, Tomás R. Belderrain, Pedro J. Pérez|2024|Chem (Cell Press)|10|1576|doi:10.1016/j.chempr.2024.03.009
description: An entry from the Cambridge Structural Database, the world’s repository for small molecule crystal structures. The entry contains experimental data from a crystal diffraction study. The deposited dataset for this entry is freely available from the CCDC and typically includes 3D coordinates, cell parameters, space group, experimental conditions and quality measures.
DOI: 10.15468/dl.3vun67
title: Occurrence Download

description: A dataset listing the 90 species recorded in GBIF matching the query:
{
 "and" : [
 "GadmGid is one of (BRA.11.26_2, BRA.11.48_2)",
 "TaxonKey is Amphibia"
 ]
}

 The dataset's 90 records were derived from 18 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0018373-240506114902167/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5281/zenodo.11193259
title: The Genome Resolved Open Watersheds database (GROWdb): A functional microbiome catalog crowdsourced from North American rivers

description: This repository contains data for version 1 of the Genome Resolved Open Watersheds database (GROWdb), along with data for the manuscript describing GROWdb: 

"A functional microbiome catalog crowdsourced from North American rivers"

Mikayla A. Borton, Bridget B. McGivern, Kathryn R. Willi, Ben J. Woodcroft, Annika C. Mosier, Ted Bambakidis, Derick M. Singleton, Filipe Liu, Janaka N. Edirisinghe, José P. Faria, Rebecca A. Daly, Amy E. Goldman, Michael J. Wilkins, Ed K. Hall, Christa Pennacchio, Simon Roux, Emiley A. Eloe-Fadrosh, Matthew B. Sullivan, Christopher S. Henry, Elisha M. Wood-Charlson, Matthew R.V. Ross, Christopher S. Miller, Byron C. Crump, James C. Stegen, Kelly C. Wrighton

Annotation datasets



annotations.tsv.zip: raw DRAM annotations of 2,093 unique MAGs in GROWdb

metabolism_summary.xlsx: DRAM distillate summary of genome annotations 

genes.fna.zip: nucleotide sequences of genes in 2,093 unique MAGs in GROWdb, with gene identifiers corresponding to those in annotations.tsv.zip


Antibiotic resistance genes (ARGs) dataset



ARGS_genes_rgi.txt: Output of Resistance Gene Identifier containing list of predicted ARGs

AMR_expression_by_sample.csv: metatranscriptomic expression of identified ARGs by category


Expression (Metatranscriptome) Data Tables



GENES_geTMM_norm.counts.rpk_edger_zenodo.csv: geTMM values per gene filtered to genes in at least 10% of samples

BINS_norm.counts.rpk_edger.mean_atLeast20_zenodo.csv: mean geTMM values per genome filtered to genes in at least 10% of samples and to bins with at least 20 genes expressed


Phylogenetic Tree Files



GROW_nxr/nar_tree.pdf: pdf format of phylogenetic tree of nxr and nar

GROW_pmoA_amoA_tree.pdf: pdf format of phylogenetic tree of pmoA and amoA

bipartitionsBranchLabels.nxr-nar_seqs_for_tree_aligned.faa_mode_low.renamed: newick format of phylogenetic tree of nxr and nar

bipartitionsBranchLabels.amoA_pmoA_seqs_for_tree_aligned.faa_mode_low.renamed: newick format of phylogenetic tree of pmoA and amoA


GROWdb Global MAG files





5986_99ID_drep_global.tar.gz: zipped file of dereplicated MAG files (n=5,986) from global freshwater analysis of 9,798 MAGs


GlobalMAG_Inventory.xlsx: Inventory of 9,798 MAGs used in global analysis
DOI: 10.15468/dl.ebf6ce
title: Occurrence Download

description: A dataset containing 4551 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Pinus pseudostrobus Lindl."
 ]
}

 The dataset includes 4551 records from 148 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0018379-240506114902167/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.e9wstd
title: Occurrence Download

description: A dataset containing 516 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is one of (Rosa ×damascena Mill.)"
 ]
}

 The dataset includes 516 records from 89 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0018380-240506114902167/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.b24fhm
title: Occurrence Download

description: A dataset containing 14074 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is one of (Rosa gallica L.)"
 ]
}

 The dataset includes 14074 records from 407 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0018382-240506114902167/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.d2uwqp
title: Occurrence Download

description: A dataset containing 4211 species occurrences available in GBIF matching the query:
{
 "and" : [
 "License is CC-BY 4.0",
 "TaxonKey is Alibertia edulis (Rich.) A.Rich. ex DC."
 ]
}

 The dataset includes 4211 records from 139 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0018383-240506114902167/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.25402/btn.11950188.v1
title: Intratracheal aerosolization of viral vectors to newborn pig airways - Supplementary Table 1

description: <b>Supplementary
 Video 1. </b> Intratracheal
 aerosolization of viral vectors to newborn pig airways.
 
 Video of bronchoscope
 passing through vocal folds of the larynx and into the trachea. A 4-week-old
 pig was sedated using isoflurane and intubated using a bronchoscope. The
 bronchoscope was guided through vocal folds of the larynx to demonstrate
 proper intubation. Tracheal rings visualized indicate that the trachea was
 properly intubated.
 
 <b>Supplementary
 Table 1. </b> Intratracheal
 aerosolization of viral vectors to newborn pig airways.
 
 Table of materials
 used.
 
 <b>Supplementary
 Protocol. </b> Intratracheal
 aerosolization of viral vectors to newborn pig airways.
 
 Supplemental Protocol
 and Methods for stepwise protocol. 
 
 
 




<b>Article Abstract: </b> Gene
therapy for airway diseases requires efficient delivery of nucleic acids to the
airways. In small animal models, gene delivery reagents are commonly delivered
as a bolus dose. However, large animal models are often more relevant for transition
from preclinical studies to human trials. Aerosolizing viral vectors to the
lungs of large animals can maximize anatomical distribution. Here we describe a
technique for aerosolization of viral vectors to the airways of newborn pigs.
Briefly, a pig is anesthetized, intubated with an endotracheal tube, and a
microsprayer is passed through the endotracheal tube. A fine mist is then
sprayed into the distal trachea. Widespread and uniform distribution of
transgene expression is critical for developing successful lung gene therapy
treatments.
DOI: 10.15468/dl.9v2ej6
title: Occurrence Download

description: A dataset containing 854 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is one of (Rosa glabrifolia C.A.Mey. ex Rupr.)"
 ]
}

 The dataset includes 854 records from 31 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0018384-240506114902167/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.25549/examiner-c44-75758
title: Kuchel confers with group at airport over plans for Scandinavian Airlines' use of International Airport, 1954

description: 2 images. Kuchel confers with group at airport over plans for Scandinavian Airlines' use of International Airport, 30 May 1954. Harry C. Dow (airport commissioner); Thomas Kuchel (senator); Peter Tornquist (district manager, Scandinavian Airlines); Gerald Collins (transportation director of Los Angeles Chamber of Commerce).; Caption slip reads: "Photographer: Forbes. Date: 1954-05-30. Reporter: Cowles. Assignment: Kuchel. l. to r., 145: Harry C. Dow, airport commissiner [sic.]; U.S. Sen. Thomas Kuchel. 146: Peter Tornquist, District mgr. for Scandinavian Airlines; Gerald Collins, transportation division director of L.A. Chamber of Commerce. Kuchel confers with group at airport over plans for SAS use of Int'l Airport".
DOI: 10.6084/m9.figshare.25114493.v1
title: IO3 panel multiple reaction monitoring parameters

description: A list of optimized mass spectrometer parameters used for the IO3 panel in multiple reaction monitoring experiments. For each peptide targeted, the table contains precursor m/z values, precursor charge states, fragments selected for transitions, fragment m/z values, fragment charge states, and optimized collision energies for a SCIEX QTRAP 5500.
DOI: 10.6084/m9.figshare.25114511
title: IO3 panel assay characterization

description: Performance figures of merit in fit-for-purpose validation experiments for the multiplexed assay panel using frozen tissue and plasma matrices. The "curveFOM" tab contains response curve results describing the curve fit (correlation coefficient, R squared, slope), upper and lower limits of quantification, and linear dynamic range. The "repeatabilityFOM" tab contains repeatability of peptide measurement in each matrix reported as the intra-assay (within day) and inter-assay (between day) CV at three concentrations of spiked peptide (low, medium, high). The intra-assay and inter-assay CVs are also reported for peptides measured above the LLOQ at endogenous levels in the tissue and plasma matrices. The "stabilityFOM" tab contains the stability of the peptides in processed samples. Stability is presented by the percent difference in samples processed and stored in the autosampler for 24 hours or analyzed after 2 freeze-thaw cycles compared to immediate analysis.
DOI: 10.6084/m9.figshare.25114511.v1
title: IO3 panel assay characterization

description: Performance figures of merit in fit-for-purpose validation experiments for the multiplexed assay panel using frozen tissue and plasma matrices. The "curveFOM" tab contains response curve results describing the curve fit (correlation coefficient, R squared, slope), upper and lower limits of quantification, and linear dynamic range. The "repeatabilityFOM" tab contains repeatability of peptide measurement in each matrix reported as the intra-assay (within day) and inter-assay (between day) CV at three concentrations of spiked peptide (low, medium, high). The intra-assay and inter-assay CVs are also reported for peptides measured above the LLOQ at endogenous levels in the tissue and plasma matrices. The "stabilityFOM" tab contains the stability of the peptides in processed samples. Stability is presented by the percent difference in samples processed and stored in the autosampler for 24 hours or analyzed after 2 freeze-thaw cycles compared to immediate analysis.
DOI: 10.6084/m9.figshare.25114535
title: IO3 panel antibody characterization

description: Results from extensive characterization of the antibodies in a variety of other assay formats. "Reagents" tab lists antibody identifiers found on antibodies.cancer.gov and catalog numbers for recombinant proteins or lysates used for screening. "RecProtWB" tab lists results for antibodies tested in Western blotting. "Endo_RPPA_WB_SW_IF" tab lists results from Western blot, Simple Western, immunofluorescence, and Reverse Phase Protein Array using over-expressing lysates. "IP" tab lists results from immunoprecipitation. "IHC" tab lists results from immunohistochemistry. For all tabs, P indicates a positive result, Px indicates presumed positive, N indicates negative, NT indicates not tested.
DOI: 10.6084/m9.figshare.25114535.v1
title: IO3 panel antibody characterization

description: Results from extensive characterization of the antibodies in a variety of other assay formats. "Reagents" tab lists antibody identifiers found on antibodies.cancer.gov and catalog numbers for recombinant proteins or lysates used for screening. "RecProtWB" tab lists results for antibodies tested in Western blotting. "Endo_RPPA_WB_SW_IF" tab lists results from Western blot, Simple Western, immunofluorescence, and Reverse Phase Protein Array using over-expressing lysates. "IP" tab lists results from immunoprecipitation. "IHC" tab lists results from immunohistochemistry. For all tabs, P indicates a positive result, Px indicates presumed positive, N indicates negative, NT indicates not tested.
DOI: 10.6084/m9.figshare.25114493
title: IO3 panel multiple reaction monitoring parameters

description: A list of optimized mass spectrometer parameters used for the IO3 panel in multiple reaction monitoring experiments. For each peptide targeted, the table contains precursor m/z values, precursor charge states, fragments selected for transitions, fragment m/z values, fragment charge states, and optimized collision energies for a SCIEX QTRAP 5500.
DOI: 10.25402/btn.12471686
title: Supplementary Table 3: An engraved surface induces weak adherence and high proliferation of non-adherent cells and microorganisms during culture

description: <b>Supplementary Table 3. The relative abundance of microorganisms of soil at the genus level
 cultured in the biosimulator or conventional dishes. </b>Bacteria
 from soil was cultured in a biosimulator or conventional dish and the
 taxonomy determined by 16SrRNA sequencing.<br>
DOI: 10.25402/btn.12471695.v1
title: Supplementary Table 2: An engraved surface induces weak adherence and high proliferation of non-adherent cells and microorganisms during culture

description: <b> </b>
 <b>Supplementary Table 2. The relative abundance of microorganisms of water at the genus level
 cultured in the biosimulator or conventional dishes. </b>Bacteria
 from spring water was cultured in a biosimulator or conventional dish and the
 taxonomy determined by 16SrRNA sequencing.
DOI: 10.25549/examiner-c44-75939
title: Finn twins trial, 1954

description: 2 images. Finn twins trial, 7 June 1954. Charles Finn; George Finn.; Caption slip reads: "Photographer: Hecht. Date: 1954-06-07. Reporter: Greenlees. Assignment: Finn twins. 72/73: L to R - Charles Finn and George Finn. (Waiting for case to go to the jury).".
DOI: 10.25402/btn.12645857
title: Supplementary Materials: Analytical validation of an error-corrected ultra-sensitive ctDNA next-generation sequencing assay

description: Supplementary material for 'Analytical
validation of an error-corrected ultra-sensitive ctDNA next-generation
sequencing assay'
DOI: 10.25402/btn.12645857.v1
title: Supplementary Materials: Analytical validation of an error-corrected ultra-sensitive ctDNA next-generation sequencing assay

description: Supplementary material for 'Analytical
validation of an error-corrected ultra-sensitive ctDNA next-generation
sequencing assay'
DOI: 10.25549/examiner-c44-20941
title: Society...Junior Auxiliary provisionals, 1951.

description: 4 images. Society...Santa Monica Auxiliary of Children's Hospital, 31 August 1951. Mrs. John Milligan; Mrs. Robert K. Byerts; Mrs. John Caster; Mrs. Keith Russell; Mrs. Ashley Orr. (Sleeve reads: S9302).; Caption slip reads: "Photographer: Snow. Date: 08-31. Assignment: Society. 15-16; 35-36: L/R standing: Mrs. John Milligan; Mrs. Robert K. Byerts; Mrs. John Caster. L/R, seated: Mrs. Keith Russell; Mrs. Ashley Orr.; Supplementary material reads: "Photo assignment for Friday, August 31, 12 noon. Pls go to the Assistance League, St. Andrews at DeLongpre, meet group in front of main doorway, get shots of Junior Auxiliary provisionals. Candid, three and five col. Contacts Monday. Thanks, Carter Ludlow".
DOI: 10.25402/btn.12662399.v1
title: Supplementary date: Application of Gyrolab microfluidic platform to measure picomolar affinity of a PD-L1-binding Adnectin PET radioligand

description: Supplementary Figure 1. Bioanalytical
 characterization of Adnectin samples. (A) SDS-PAGE: lane 1, standard; lane 3,
 His-ADX_5322_A02-DBCO; lane 5, ADX_5322_A02-DBCO; lane 6, 19F-BMS-986192;
 lanes 2 and 4, other constructs. (B) Analytical SEC. (C) Mass spectrometry
 (MS).
 
 <b>Supplementary
 Figure 2. </b>Multi-curve analysis of the affinity
 series for PD-L1 Adnectins after 22 h or 44 h equilibration at room
 temperature (data points and fitted curve: 50 pM Adnectin in orange and 150
 pM Adnectin in blue). (A) ADX_5322_A02-DBCO, 44 h; (B) His-ADX_5322_A02-DBCO,
 22 h; (C) His-ADX_5322_A02-DBCO, 44h; (D) <sup>19</sup>F-BMS-986192, 22 h; (E)
 <sup>19</sup>F-BMS-986192, 44 h.