BCO-DMO ERDDAP
Accessing BCO-DMO data

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Dataset Title:	[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)
Institution:	BCO-DMO (Dataset ID: bcodmo_dataset_783873)
Information:	Summary \| License \| ISO 19115 \| Metadata \| Background \| Data Access Form \| Files

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Things You Can Do With Your Graphs

Well, you can do anything you want with your graphs, of course. But some things you might not have considered are:

Web page authors can embed a graph of the latest data in a web page using HTML <img> tags.
Anyone can use ERDDAPs Slide Sorter to build a personal web page that displays graphs with the latest data (or other images or HTML content), each in its own, draggable slide.

The Dataset Attribute Structure (.das) for this Dataset

Attributes {
 s {
  protein_name {
    String bcodmo_name "sample_descrip";
    String description "Protein name";
    String long_name "Protein Name";
    String units "unitless";
  }
  hours_post_dawn {
    Byte _FillValue 127;
    String _Unsigned "false";
    Byte actual_range 0, 23;
    String bcodmo_name "time_elapsed";
    String description "Hours post dawn. Hours after incubator light is on";
    String long_name "Hours Post Dawn";
    String nerc_identifier "https://vocab.nerc.ac.uk/collection/P01/current/ELTMZZZZ/";
    String units "hours";
  }
  cnratio {
    Float64 _FillValue NaN;
    Float64 actual_range 3.148860158, 4.334379031;
    String bcodmo_name "C_to_N";
    String description "POC:PON ratio of culture. Ratio of particulate organic carbon to particulate organic nitrogen";
    String long_name "Cnratio";
    String units "dimensionless";
  }
  relative_protein_abundance {
    Float32 _FillValue NaN;
    Float32 actual_range 0.0, 1126.7;
    String bcodmo_name "proteins";
    String description "Relative protein abundance. Normalized spectral counts.";
    String long_name "Relative Protein Abundance";
    String units "unitless";
  }
 }
  NC_GLOBAL {
    String access_formats ".htmlTable,.csv,.json,.mat,.nc,.tsv";
    String acquisition_description 
"A batch culture (1.5L) of Trichodesmium erythraeum sp. IMS101 was grown in a
27\\u00b0C incubator with a 14:10 light cycle that ramps up and down mimicking
dawn and dusk. Sampling occurred every 1-3 hours with concentrated sampling at
dawn and dusk. 70mL of the culture was sterically subsampled and collected on
0.2mm Supor filters, then frozen at -80\\u00b0C. 10mL was collected and
filtered on combusted GFF filters for CHN analysis.
 
\\u00a0
 
Proteins were extracted in sodium dodecyl sulfate and digested in gel similar
to Saito et al., 2014 (Science). Peptides were analyzed by LC-MS/MS on a
Thermo Orbitrap Fusion using LC x LC/MS chromatography with high and low pH
reversed phase chromatography.";
    String awards_0_award_nid "646121";
    String awards_0_award_number "GBMF3934";
    String awards_0_funder_name "Gordon and Betty Moore Foundation";
    String awards_0_funding_acronym "GBMF";
    String awards_0_funding_source_nid "361";
    String awards_1_award_nid "646122";
    String awards_1_award_number "GBMF3782";
    String awards_1_data_url "https://www.moore.org/grant-detail?grantId=GBMF3782";
    String awards_1_funder_name "Gordon and Betty Moore Foundation: Marine Microbiology Initiative";
    String awards_1_funding_acronym "MMI";
    String awards_1_funding_source_nid "385";
    String cdm_data_type "Other";
    String comment 
"Diel proteomes Tricho IMS101 
  PI: Mak Saito 
  Data Version 1: 2019-12-10";
    String Conventions "COARDS, CF-1.6, ACDD-1.3";
    String creator_email "info@bco-dmo.org";
    String creator_name "BCO-DMO";
    String creator_type "institution";
    String creator_url "https://www.bco-dmo.org/";
    String data_source "extract_data_as_tsv version 2.3  19 Dec 2019";
    String dataset_current_state "Final and no updates";
    String date_created "2019-12-10T17:10:43Z";
    String date_modified "2020-02-07T18:43:23Z";
    String defaultDataQuery "&amp;time&lt;now";
    String doi "10.26008/1912/bco-dmo.783873.1";
    String history 
"2024-11-08T05:45:42Z (local files)
2024-11-08T05:45:42Z https://erddap.bco-dmo.org/tabledap/bcodmo_dataset_783873.das";
    String infoUrl "https://www.bco-dmo.org/dataset/783873";
    String institution "BCO-DMO";
    String instruments_0_acronym "Mass Spec";
    String instruments_0_dataset_instrument_nid "783878";
    String instruments_0_description "General term for instruments used to measure the mass-to-charge ratio of ions; generally used to find the composition of a sample by generating a mass spectrum representing the masses of sample components.";
    String instruments_0_instrument_external_identifier "https://vocab.nerc.ac.uk/collection/L05/current/LAB16/";
    String instruments_0_instrument_name "Mass Spectrometer";
    String instruments_0_instrument_nid "685";
    String instruments_0_supplied_name "Thermo Orbitrap Fusion mass spectrometer";
    String keywords "abundance, bco, bco-dmo, biological, chemical, cnratio, data, dataset, dawn, dmo, erddap, hours, hours_post_dawn, management, name, oceanography, office, post, preliminary, protein, protein_name, relative, relative_protein_abundance";
    String license "https://www.bco-dmo.org/dataset/783873/license";
    String metadata_source "https://www.bco-dmo.org/api/dataset/783873";
    String param_mapping "{'783873': {}}";
    String parameter_source "https://www.bco-dmo.org/mapserver/dataset/783873/parameters";
    String people_0_affiliation "Woods Hole Oceanographic Institution";
    String people_0_affiliation_acronym "WHOI";
    String people_0_person_name "Mak A. Saito";
    String people_0_person_nid "50985";
    String people_0_role "Principal Investigator";
    String people_0_role_type "originator";
    String people_1_affiliation "Woods Hole Oceanographic Institution";
    String people_1_affiliation_acronym "WHOI";
    String people_1_person_name "Noelle Held";
    String people_1_person_nid "787371";
    String people_1_role "Student";
    String people_1_role_type "related";
    String people_2_affiliation "Woods Hole Oceanographic Institution";
    String people_2_affiliation_acronym "WHOI BCO-DMO";
    String people_2_person_name "Amber D. York";
    String people_2_person_nid "643627";
    String people_2_role "BCO-DMO Data Manager";
    String people_2_role_type "related";
    String project "MM Proteins and Organics Tech,MM Saito";
    String projects_0_acronym "MM Proteins and Organics Tech";
    String projects_0_description "In support of acquiring a high resolution mass spectrometer that incorporates the latest technologies for analyzing proteins and other organic materials.";
    String projects_0_end_date "2014-06";
    String projects_0_name "New technology for high resolution analysis of proteins and other organic materials produced by marine microorganisms";
    String projects_0_project_nid "786670";
    String projects_0_project_website "https://www.moore.org/grant-detail?grantId=GBMF3934";
    String projects_0_start_date "2013-06";
    String projects_1_acronym "MM Saito";
    String projects_1_description "In support of obtaining deeper knowledge of major biogeochemically relevant proteins to inform a mechanistic understanding of global marine biogeochemical cycles.";
    String projects_1_end_date "2019-12";
    String projects_1_name "Marine Microbial Investigator Award: Investigator Mak Saito";
    String projects_1_project_nid "786672";
    String projects_1_start_date "2013-05";
    String publisher_name "Biological and Chemical Oceanographic Data Management Office (BCO-DMO)";
    String publisher_type "institution";
    String sourceUrl "(local files)";
    String standard_name_vocabulary "CF Standard Name Table v55";
    String summary "Diel proteomes of cultured Trichodesmium erythraeum sp. IMS101 from laboratory experiments conducted in November of 2018.";
    String title "[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)";
    String version "1";
    String xml_source "osprey2erddap.update_xml() v1.5";
  }
}

Using tabledap to Request Data and Graphs from Tabular Datasets

tabledap lets you request a data subset, a graph, or a map from a tabular dataset (for example, buoy data), via a specially formed URL. tabledap uses the OPeNDAP (external link)

Data Access Protocol (DAP) (external link)

and its selection constraints (external link)

The URL specifies what you want: the dataset, a description of the graph or the subset of the data, and the file type for the response.

(easy) You can get data by using the dataset's Data Access Form or Subset form. They make the URL for you.
(easy) You can make a graph or map by using the dataset's Make A Graph form. It makes the URL for you.
(not hard) You can bypass the forms and get the data or make a graph or map by generating the URL by hand or with a computer program or script.

Tabledap request URLs must be in the form
https://coastwatch.pfeg.noaa.gov/erddap/tabledap/datasetID.fileType{?query}
For example,
https://coastwatch.pfeg.noaa.gov/erddap/tabledap/pmelTaoDySst.htmlTable?longitude,latitude,time,station,wmo_platform_code,T_25&time>=2015-05-23T12:00:00Z&time<=2015-05-31T12:00:00Z
Thus, the query is often a comma-separated list of desired variable names, followed by a collection of constraints (e.g., variable<value), each preceded by '&' (which is interpreted as "AND").

For details, see the tabledap Documentation.

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