BCO-DMO ERDDAP
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Row Type Variable Name Attribute Name Data Type Value
attribute NC_GLOBAL cdm_data_type String Other
attribute NC_GLOBAL Conventions String COARDS, CF-1.6, ACDD-1.3
attribute NC_GLOBAL creator_email String info at bco-dmo.org
attribute NC_GLOBAL creator_name String BCO-DMO
attribute NC_GLOBAL creator_url String https://www.bco-dmo.org/ (external link)
attribute NC_GLOBAL doi String 10.26008/1912/bco-dmo.908689.1
attribute NC_GLOBAL Easternmost_Easting double -147.6667
attribute NC_GLOBAL geospatial_lat_max double 60.6667
attribute NC_GLOBAL geospatial_lat_min double 59.845
attribute NC_GLOBAL geospatial_lat_units String degrees_north
attribute NC_GLOBAL geospatial_lon_max double -147.6667
attribute NC_GLOBAL geospatial_lon_min double -149.4667
attribute NC_GLOBAL geospatial_lon_units String degrees_east
attribute NC_GLOBAL infoUrl String https://www.bco-dmo.org/dataset/908689 (external link)
attribute NC_GLOBAL institution String BCO-DMO
attribute NC_GLOBAL license String The data may be used and redistributed for free but is not intended\nfor legal use, since it may contain inaccuracies. Neither the data\nContributor, ERD, NOAA, nor the United States Government, nor any\nof their employees or contractors, makes any warranty, express or\nimplied, including warranties of merchantability and fitness for a\nparticular purpose, or assumes any legal liability for the accuracy,\ncompleteness, or usefulness, of this information.
attribute NC_GLOBAL Northernmost_Northing double 60.6667
attribute NC_GLOBAL sourceUrl String (local files)
attribute NC_GLOBAL Southernmost_Northing double 59.845
attribute NC_GLOBAL summary String The dataset includes the annotation files of nine high-quality de novo transcriptomes generated from shotgun assemblies of short-sequence reads. The species are ecologically-important members of sub-arctic North Pacific marine zooplankton communities. The de novo assemblies included one generated several years ago plus eight new ones generated from six co-occurring species of calanoid copepods in the Gulf of Alaska. The transcriptomes include the first published ones for Neocalanus plumchrus, Neocalanus cristatus, Eucalanus bungii and Metridia pacifica and three for Neocalanus flemingeri and two for Calanus marshallae. Total RNA from single individuals was used to construct gene libraries that were sequenced on an Illumina Next-Seq platform. Short-sequence reads were assembled with Trinity software and resulting transcripts were annotated using the SwissProt database with additional functional annotation using gene ontology terms and enzyme function. The annotations files are the first ones published for these species. The integrated dataset can be used for quantitative inter- and intra-species comparisons of gene expression patterns across biological processes using the annotations.\n\nThese data are further described in the following publications: Hartline, et al. (2023) (DOI: 10.1038/s41597-023-02130-1), Roncalli, et al. (2022) (DOI: 10.1111/mec.16354), and Roncalli, et al. (2019) (DOI: 10.1038/s42003-019-0565-5)
attribute NC_GLOBAL title String [Gulf of Alaska copepods: annotated transcriptomes] - Annotated de novo transcriptomes generated from six co-occurring species of calanoid copepods from the R/V Tiglax TXF18, TXS19, TXF15, TXF17 in the Gulf of Alaska from 2015-2019 (Collaborative Proposal: Optimizing Recruitment of Neocalanus copepods through Strategic Timing of Reproduction and Growth in the Gulf of Alaska)
attribute NC_GLOBAL Westernmost_Easting double -149.4667
variable seq_id String
attribute seq_id long_name String Seq_id
attribute seq_id units String unitless
variable Genbank_accession String
attribute Genbank_accession long_name String Genbank_accession
attribute Genbank_accession units String unitless
variable Species String
attribute Species long_name String Species
attribute Species units String unitless
variable Station String
attribute Station long_name String Station
attribute Station units String unitless
variable latitude float
attribute latitude _CoordinateAxisType String Lat
attribute latitude actual_range float 59.845, 60.6667
attribute latitude axis String Y
attribute latitude ioos_category String Location
attribute latitude long_name String Latitude
attribute latitude standard_name String latitude
attribute latitude units String degrees_north
variable longitude float
attribute longitude _CoordinateAxisType String Lon
attribute longitude actual_range float -149.4667, -147.6667
attribute longitude axis String X
attribute longitude ioos_category String Location
attribute longitude long_name String Longitude
attribute longitude standard_name String longitude
attribute longitude units String degrees_east
variable Collection_date String
attribute Collection_date long_name String Collection_date
attribute Collection_date units String unitless
variable Depth_range String
attribute Depth_range long_name String Depth_range
attribute Depth_range units String meters (m)
variable Life_stage String
attribute Life_stage long_name String Life_stage
attribute Life_stage units String unitless
variable Sex String
attribute Sex long_name String Sex
attribute Sex units String unitless
variable Entry String
attribute Entry long_name String Entry
attribute Entry units String unitless
variable Entry_name String
attribute Entry_name long_name String Entry_name
attribute Entry_name units String unitless
variable evalue String
attribute evalue long_name String Evalue
attribute evalue units String unitless
variable Protein_names String
attribute Protein_names long_name String Protein_names
attribute Protein_names units String unitless
variable Gene_names String
attribute Gene_names long_name String Gene_names
attribute Gene_names units String unitless
variable Organism String
attribute Organism long_name String Organism
attribute Organism units String unitless
variable Cross_reference_KEGG String
attribute Cross_reference_KEGG long_name String Cross_reference_kegg
attribute Cross_reference_KEGG units String unitless
variable Gene_ontology_IDs String
attribute Gene_ontology_IDs long_name String Gene_ontology_ids
attribute Gene_ontology_IDs units String unitless
variable Gene_ontology_GO String
attribute Gene_ontology_GO long_name String Gene_ontology_go
attribute Gene_ontology_GO units String unitless
variable Gene_ontology_biological_process String
attribute Gene_ontology_biological_process long_name String Gene_ontology_biological_process
attribute Gene_ontology_biological_process units String unitless
variable Gene_ontology_cellular_component String
attribute Gene_ontology_cellular_component long_name String Gene_ontology_cellular_component
attribute Gene_ontology_cellular_component units String unitless
variable Gene_ontology_molecular_function String
attribute Gene_ontology_molecular_function long_name String Gene_ontology_molecular_function
attribute Gene_ontology_molecular_function units String unitless
variable BioProject String
attribute BioProject long_name String Bioproject
attribute BioProject units String unitless
variable TSA_Master_Accession String
attribute TSA_Master_Accession long_name String Tsa_master_accession
attribute TSA_Master_Accession units String unitless
variable Study_Accession String
attribute Study_Accession long_name String Study_accession
attribute Study_Accession units String unitless
variable Study_Title String
attribute Study_Title long_name String Study_title
attribute Study_Title units String unitless
variable Experiement_Accession String
attribute Experiement_Accession long_name String Experiement_accession
attribute Experiement_Accession units String unitless
variable Experiment_Title String
attribute Experiment_Title long_name String Experiment_title
attribute Experiment_Title units String unitless
variable SRA_Accession String
attribute SRA_Accession long_name String Sra_accession
attribute SRA_Accession units String unitless
variable BioSample String
attribute BioSample long_name String Biosample
attribute BioSample units String unitless
variable Sample_Accession String
attribute Sample_Accession long_name String Sample_accession
attribute Sample_Accession units String unitless

 
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