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BCO-DMO ERDDAP
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| griddap | Subset | tabledap | Make A Graph | wms | files | Accessible | Title | Summary | FGDC | ISO 19115 | Info | Background Info | RSS | Institution | Dataset ID | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| https://erddap.bco-dmo.org/erddap/tabledap/bcodmo_dataset_934706_v1 | https://erddap.bco-dmo.org/erddap/tabledap/bcodmo_dataset_934706_v1.graph | https://erddap.bco-dmo.org/erddap/files/bcodmo_dataset_934706_v1/ | public | [AE1913 Protein Spectral Counts] - Scaffold-derived metaproteomic exclusive and total spectral counts associated with proteins from samples taken during R/V Atlantic Explorer cruise AE1913 from the Sargasso Sea to Northeast US shelf waters in June of 2019 (Collaborative Research: Direct Characterization of Adaptive Nutrient Stress Responses in the Sargasso Sea using Protein Biomarkers and a Biogeochemical AUV) | These are the Scaffold-derived metaproteomic exclusive and total spectral counts associated with proteins. Samples were taken during R/V Atlantic Explorer cruise AE1913 in Subtropical North Atlantic, beginning at the Bermuda Atlantic Time-series Station (BATS) of the Sargasso Sea and ending in coastal Northeast US shelf waters in June of 2019.\n\ncdm_data_type = Other\nVARIABLES:\nrow_id (unitless)\nprotein_id (unitless)\nkegg_id (unitless)\nenzyme_comm_id (unitless)\nprotein_name (unitless)\npfams_id (unitless)\nsupergroup (unitless)\nclassification (unitless)\nsample_id (unitless)\nspectral_count (unitless)\ncruise_id (unitless)\nstation_id (unitless)\ndepth (Depth_m, m)\nminimum_filter_size_microns (microns (um))\nmaximum_filter_size_microns (microns (um))\ndate_y_m_d (unitless)\nlatitude (Latitude_dd, degrees_north)\nlongitude (Longitude_dd, degrees_east)\n | https://erddap.bco-dmo.org/erddap/metadata/fgdc/xml/bcodmo_dataset_934706_v1_fgdc.xml | https://erddap.bco-dmo.org/erddap/metadata/iso19115/xml/bcodmo_dataset_934706_v1_iso19115.xml | https://erddap.bco-dmo.org/erddap/info/bcodmo_dataset_934706_v1/index.htmlTable | https://www.bco-dmo.org/dataset/934706
| https://erddap.bco-dmo.org/erddap/rss/bcodmo_dataset_934706_v1.rss | https://erddap.bco-dmo.org/erddap/subscriptions/add.html?datasetID=bcodmo_dataset_934706_v1&showErrors=false&email= | BCO-DMO | bcodmo_dataset_934706_v1 | |||
| https://erddap.bco-dmo.org/erddap/tabledap/bcodmo_dataset_783873 | https://erddap.bco-dmo.org/erddap/tabledap/bcodmo_dataset_783873.graph | https://erddap.bco-dmo.org/erddap/files/bcodmo_dataset_783873/ | public | [Diel proteomes Trichodesmium IMS101] - Diel proteomes of cultured Trichodesmium erythraeum sp. IMS101 from laboratory experiments conducted in November of 2018 (New technology for high resolution analysis of proteins and other organic materials produced by marine microorganisms) | Diel proteomes of cultured Trichodesmium erythraeum sp. IMS101 from laboratory experiments conducted in November of 2018.\n\ncdm_data_type = Other\nVARIABLES:\nprotein_name (unitless)\nhours_post_dawn (hours)\ncnratio (dimensionless)\nrelative_protein_abundance (unitless)\n | https://erddap.bco-dmo.org/erddap/info/bcodmo_dataset_783873/index.htmlTable | https://www.bco-dmo.org/dataset/783873
| https://erddap.bco-dmo.org/erddap/rss/bcodmo_dataset_783873.rss | https://erddap.bco-dmo.org/erddap/subscriptions/add.html?datasetID=bcodmo_dataset_783873&showErrors=false&email= | BCO-DMO | bcodmo_dataset_783873 | |||||
| https://erddap.bco-dmo.org/erddap/tabledap/bcodmo_dataset_737620_v3 | https://erddap.bco-dmo.org/erddap/tabledap/bcodmo_dataset_737620_v3.graph | https://erddap.bco-dmo.org/erddap/files/bcodmo_dataset_737620_v3/ | public | [ProteOMZ Protein Level Spectral Counts] - Total spectral count of proteins from R/V Falkor cruise 160115 for the ProteOMZ expedition in the Central Pacific in 2016 (The ProteOMZ Expedition: Investigating Life Without Oxygen in the Pacific Ocean) | Relative protein abundance data of the upper 1000m water column from the ProteOMZ R/V Falkor expedition. There are 56,577 protein identifications over 102 samples, for ~6 million data points.\n\ncdm_data_type = Other\nVARIABLES:\nsample_id (untiless)\nMS_MS_sample_name (untiless)\nstation_id (unitless)\ndepth (Depth_m, m)\nlatitude (Latitude_dd, degrees_north)\nlongitude (Longitude_dd, degrees_east)\ndate_ymd (unitless)\ntime_hms (unitless)\nminimum_filter_size_microns (microns)\nmaximum_filter_size_microns (microns)\ncruise_id (unitless)\nprotein_id (unitless)\nspectral_count_sum (count)\nmolecular_weight_kDa (kDa)\nprotein_name (unitless)\nncbi_id (taxon)\nncbi_name (verbatimIdentifiation)\nkegg_id (unitless)\nkegg_description (unitless)\nkegg_pathway (unitless)\npfams_id (unitless)\npfams_name (unitless)\nuniprot_id (unitless)\nenzyme_comm_id (unitless)\ntime (Iso_datetime_utc, seconds since 1970-01-01T00:00:00Z)\n | https://erddap.bco-dmo.org/erddap/metadata/fgdc/xml/bcodmo_dataset_737620_v3_fgdc.xml | https://erddap.bco-dmo.org/erddap/metadata/iso19115/xml/bcodmo_dataset_737620_v3_iso19115.xml | https://erddap.bco-dmo.org/erddap/info/bcodmo_dataset_737620_v3/index.htmlTable | https://www.bco-dmo.org/dataset/737620
| https://erddap.bco-dmo.org/erddap/rss/bcodmo_dataset_737620_v3.rss | https://erddap.bco-dmo.org/erddap/subscriptions/add.html?datasetID=bcodmo_dataset_737620_v3&showErrors=false&email= | BCO-DMO | bcodmo_dataset_737620_v3 | |||
| https://erddap.bco-dmo.org/erddap/tabledap/bcodmo_dataset_768237_v1 | https://erddap.bco-dmo.org/erddap/tabledap/bcodmo_dataset_768237_v1.graph | https://erddap.bco-dmo.org/erddap/files/bcodmo_dataset_768237_v1/ | public | [Ross Sea metaproteome protein spectral counts] - Ross Sea metaproteome protein spectral counts searched against Phaeocystis strain transcriptome from net tows during RVIB Nathaniel B. Palmer cruise NBP0601 in December of 2015 (Controls of Ross Sea Algal Community Structure) | A net tow metaproteome of a Phaeocystis antarctica bloom in the Ross Sea, mapped here to Phaeocystis metatranscriptomes analyzed by 2D LCMS, in units of protein spectral counts.\n\ncdm_data_type = Other\nVARIABLES:\nsample_id (unitless)\ncruise_id (unitless)\nstation_id (unitless)\nlatitude_dd (degrees_north)\nlongitude (Longitude_dd, degrees_east)\ndepth (Depth_m, m)\ndate_local (unitless)\ntime_local (unitless)\nminimum_filter_size_microns (microns (um))\nmaximum_filter_size_microns (microns (um))\nprotein_id (unitless)\nprotein_name (unitless)\nspectral_count (count)\nmolecular_weight_kDa (kilo-Daltons (kDa))\nncbi_id (unitless)\nncbi_name (unitless)\nkegg_id (unitless)\nkegg_description (unitless)\nkegg_pathway (unitless)\npfams_id (unitless)\npfams_name (unitless)\nuniprot_id (unitless)\nenzyme_comm_id (unitless)\nother_identified_proteins (unitless)\ntime (Iso_datetime_utc, seconds since 1970-01-01T00:00:00Z)\n | https://erddap.bco-dmo.org/erddap/info/bcodmo_dataset_768237_v1/index.htmlTable | https://www.bco-dmo.org/dataset/768237
| https://erddap.bco-dmo.org/erddap/rss/bcodmo_dataset_768237_v1.rss | https://erddap.bco-dmo.org/erddap/subscriptions/add.html?datasetID=bcodmo_dataset_768237_v1&showErrors=false&email= | BCO-DMO | bcodmo_dataset_768237_v1 | |||||
| log in | [Synechococcus WH8102 chemostats] - Semi-quantitative cell proteome of marine Synechococcus WH8102 using DIA-MS, interactive nutrient-temperature responses in stable chemostat bioreactors from laboratory experiments conducted in 2019 (Convergence: RAISE: Linking the adaptive dynamics of plankton with emergent global ocean biogeochemistry) | This proteomic data set was prepared to determine how the distribution of protein-based traits contribute to cellular elemental stoichiometry of a globally-abundant, surface ocean phytoplankton in response to nutrient stress under variable temperature conditions. Cellular proteins are from laboratory chemostat cultures of marine Synechococcus isolate WH8102 (clade III). Proteins were extracted from cells grown under stable, steady-state conditions in a low-phosphorus medium (N:P=80) and a low-nitrate medium (N:P=1.7) across 3 temperatures of 20, 24, and 28˚C (for a total of 6 chemostat cultures) at a white light density of 125 µmol quanta-1 m-2 s-1 on a 12-hour-light:12-hour-dark diel cycle, at a continuous dilution rate of 0.18 d-1, in fall of 2019. Cells and proteins were collected at 5 mid-light-period time points on non-consecutive days to yield a total of 30 samples. Culture work was performed at the University of California, Irvine by Adam Martiny's group. Proteins were analyzed with data-independent acquisition mass spectrometry proteomics methods by Mak Saito's group at the Woods Hole Oceanographic Institution. Data are exclusive peak area intensities of proteins with 2 or more representative peptides, normalized with Scaffold (2.2.1) DIA proteome software. Peptides were analyzed using a Michrom Advance HPLC system coupled to a Q-Exactive mass spectrometer (Thermo Scientific instrument version 2.8) with a Michrom Advance CaptiveSpray source, using the constant injection concentration of 1 µg/µL to allow uniformity across the dataset. Data with more details are published in Garcia et al. (2024) Proteome trait regulation of marine Synechococcus elemental stoichiometry under global change (DOI:10.1093/ismejo/wrae046).\n\ncdm_data_type = Other\nVARIABLES:\nProtein_ID_long_form (unitless)\nProtein_ID_short_form (unitless)\nGene_name1 (unitless)\nGene_name2 (unitless)\nProtein_name (unitless)\nMolecular_Weight (kilodalton (kDa))\nPeptide_Count (unitless)\nSample_Number (unitless)\nTemp_chemostat (Degrees Celsius)\n... (4 more variables)\n | BCO-DMO | bcodmo_dataset_923159_v1 | ||||||||||||
| log in | [Total spectral count of proteins (MetZyme 0.2)] - Total spectral count of proteins from R/V Kilo Moana cruise KM1128 for the METZYME expedition in the tropical North Pacific in 2011. (Connecting Trace Elements and Metalloenzymes Across Marine Biogeochemical Gradients (GPc03)) | Global metaproteomic dataset for KM1128 the METZYME expedition. The global proteome dataset presented here included 16951 protein identifications and 31994 unique peptide identifications compiled from 37 samples and 74 raw files (CID and HCD modes for each file) and ### total spectra.\n\ncdm_data_type = Other\nVARIABLES:\nsample_id (unitless)\nMS_MS_sample_name (unitless)\nstation_id (unitless)\ndepth (Depth_m, m)\nlatitude (Latitude_dd, degrees_north)\nlongitude (Longitude_dd, degrees_east)\ndate_y_m_d (unitless)\ntime_h_m_s (unitless)\ntime (Iso_datetime_utc, seconds since 1970-01-01T00:00:00Z)\nminimum_filter_size_microns (microns)\nmaximum_filter_size_microns (microns)\ncruise_id (unitless)\nprotein_id (unitless)\nspectral_count_sum (count)\nmolecular_weight_kDa (kilodalton (kDa))\nprotein_name (unitless)\nncbi_id (unitless)\nncbi_name (unitless)\nkegg_id (unitless)\nkegg_description (unitless)\nkegg_pathway (unitless)\npfams_id (unitless)\npfams_name (unitless)\nuniprot_id (unitless)\nenzyme_comm_id (unitless)\n | BCO-DMO | bcodmo_dataset_730722_v5 |