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Dataset Title:  [Atlantic silverside RNA-seq reads] - Sample and genetic accession information
for RNA-seq data from whole Atlantic silverside (Menidia menidia) larvae from
two populations and their F1 hybrids reared under different temperatures in
2017 (Collaborative research: The genomic underpinnings of local adaptation
despite gene flow along a coastal environmental cline)
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Institution:  BCO-DMO   (Dataset ID: bcodmo_dataset_854887_v1)
Information:  Summary ? | License ? | Metadata | Background (external link) | Files
 
Variable ?   Optional
Constraint #1 ?
Optional
Constraint #2 ?
   Minimum ?
 
   Maximum ?
 
 BioProject (unitless) ?          "PRJNA694674"    "PRJNA694674"
 BioSample (unitless) ?          "SAMN17531688"    "SAMN17531729"
 Sample_name (unitless) ?          "JJ20_01"    "PP26_16"
 SRA (unitless) ?          "SRS8109308"    "SRS8109349"
 taxonomy_id (unitless) ?          238744    238744
 taxonomy_name (unitless) ?          "Menidia menidia"    "Menidia menidia"
 ecotype (unitless) ?          "Jekyll Island_Geor..."    "Pathchogue_New Yor..."
 dev_stage (unitless) ?          "larvae"    "larvae"
 sex (unitless) ?          "not determined"    "not determined"
 tissue (unitless) ?          "whole larvae"    "whole larvae"
 sample_type (unitless) ?          "mRNA"    "mRNA"
 cross (unitless) ?          "JIGA mother x JIGA..."    "PANY mother x PANY..."
 treatment (degrees Celsius) ?          "20degree"    "26degree"
 
Server-side Functions ?
 distinct() ?
? ("Hover here to see a list of options. Click on an option to select it.Hover here to see a list of options. Click on an option to select it.Hover here to see a list of options. Click on an option to select it.Hover here to see a list of options. Click on an option to select it.Hover here to see a list of options. Click on an option to select it.")

File type: (more information)

(Documentation / Bypass this form ? )
 
(Please be patient. It may take a while to get the data.)


 

The Dataset Attribute Structure (.das) for this Dataset

Attributes {
 s {
  BioProject {
    String long_name "Bioproject";
    String units "unitless";
  }
  BioSample {
    String long_name "Biosample";
    String units "unitless";
  }
  Sample_name {
    String long_name "Sample_name";
    String units "unitless";
  }
  SRA {
    String long_name "Sra";
    String units "unitless";
  }
  taxonomy_id {
    Int32 actual_range 238744, 238744;
    String long_name "Taxonomy_id";
    String units "unitless";
  }
  taxonomy_name {
    String long_name "Taxonomy_name";
    String units "unitless";
  }
  ecotype {
    String long_name "Ecotype";
    String units "unitless";
  }
  dev_stage {
    String long_name "Dev_stage";
    String units "unitless";
  }
  sex {
    String long_name "Sex";
    String units "unitless";
  }
  tissue {
    String long_name "Tissue";
    String units "unitless";
  }
  sample_type {
    String long_name "Sample_type";
    String units "unitless";
  }
  cross {
    String long_name "Cross";
    String units "unitless";
  }
  treatment {
    String long_name "Treatment";
    String units "degrees Celsius";
  }
 }
  NC_GLOBAL {
    String cdm_data_type "Other";
    String Conventions "COARDS, CF-1.6, ACDD-1.3";
    String creator_email "info@bco-dmo.org";
    String creator_name "BCO-DMO";
    String creator_url "https://www.bco-dmo.org/";
    String doi "10.26008/1912/bco-dmo.854887.1";
    String history 
"2024-10-13T20:49:28Z (local files)
2024-10-13T20:49:28Z https://erddap.bco-dmo.org/erddap/tabledap/bcodmo_dataset_854887_v1.html";
    String infoUrl "https://www.bco-dmo.org/dataset/854887";
    String institution "BCO-DMO";
    String license 
"The data may be used and redistributed for free but is not intended
for legal use, since it may contain inaccuracies. Neither the data
Contributor, ERD, NOAA, nor the United States Government, nor any
of their employees or contractors, makes any warranty, express or
implied, including warranties of merchantability and fitness for a
particular purpose, or assumes any legal liability for the accuracy,
completeness, or usefulness, of this information.";
    String sourceUrl "(local files)";
    String summary 
"Sample and genetic accession information for RNA-seq data from whole Atlantic silverside (Menidia menidia) larvae from two populations and their F1 hybrids. Larvae were reared under two different temperatures to study temperature-dependent gene regulatory divergence between locally adapted Atlantic silverside populations in 2017. 

The data are deposited in the National Center for Biotechnology Information (NCBI) Sequence Read Archive (SRA) with accession numbers SRR13523227- SRR13523268 associated with BioProject PRJNA694674 and BioSamples SAMN17531688 - SAMN17531729.";
    String title "[Atlantic silverside RNA-seq reads] - Sample and genetic accession information for RNA-seq data from whole Atlantic silverside (Menidia menidia) larvae from two populations and their F1 hybrids reared under different temperatures in 2017 (Collaborative research: The genomic underpinnings of local adaptation despite gene flow along a coastal environmental cline)";
  }
}

 

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.

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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