SOILS_GRH_GENOMIC

Manifest table for genomic data archived in NCBI

File: 

mcmlter-soil-xue-grh_genomic-20210909.csv (1 KB)

...or query the dataset by variables and dates of interest:

Variables
DATASET_CODE
  • Label: Dataset code
  • Definition: Internal dataset code.
  • Type: Nominal
  • Missing values: None specified
BIOPROJECT_ACCN
  • Label: BioProject Accession Number
  • Definition: NCBI BioProject accession number.
  • Type: Nominal
  • Missing values: None specified
SRA_EXPT_ACCN
  • Label: SRA Experiment Accession Number
  • Definition: NCBI Sequence Read Archive (SRA) accession number associated with the experiment.
  • Type: Nominal
  • Missing values: None specified
SRA_RUN_ACCN
  • Label: SRA Run Accession Number
  • Definition: NCBI Sequence Read Archive (SRA) accession number associated with the sequencing run.
  • Type: Nominal
  • Missing values: None specified
EXPT_NAME
  • Label: Experiment name
  • Definition: Name of the experiment in the NCBI data portal.
  • Type: Nominal
  • Missing values: None specified
SAMPLE_NAME
  • Label: Sample name
  • Definition: Name of the sample in the NCBI data portal.
  • Type: Nominal
  • Missing values: None specified
SPECIES
  • Label: Species
  • Definition: Abbreviated code for the species name of the associated organism. Matches nematode species name codes used elsewhere in this data package. C_elegans = Caenorhabditis elegans. P_murrayi = Plectus murrayi.
  • Type: Nominal
  • Missing values: None specified
P_MEDIA
  • Label: Phosphorus media
  • Definition: Phosphorus media type (i.e., rich or poor) that associated nematode populations were reared on. Matches codes used elsewhere in this data package.
  • Type: Nominal
  • Missing values: None specified
LIBRARY_NAME
  • Label: Library name
  • Definition: Name of the sequencing library in the NCBI data portal.
  • Type: Nominal
  • Missing values: None specified
LIBRARY_STRATEGY
  • Label: Library strategy
  • Definition: Library strategy employed, where RNA-Seq = random sequencing of whole transcriptome.
  • Type: Nominal
  • Missing values: None specified
LIBRARY_SOURCE
  • Label: Library source
  • Definition: Library source, where TRANSCRIPTOMIC = Transcription products or non genomic DNA (EST, cDNA, RT-PCR, screened libraries).
  • Type: Nominal
  • Missing values: None specified
LIBRARY_LAYOUT
  • Label: Library layout
  • Definition: Library layout, where the options are single or paired-end.
  • Type: Nominal
  • Missing values: None specified
SEQUENCING_PLATFORM
  • Label: Sequencing platform
  • Definition: Sequencing platform used.
  • Type: Nominal
  • Missing values: None specified
SEQUENCING_INSTRUMENT
  • Label: Sequencing instrument
  • Definition: Model of sequencing instrument used.
  • Type: Nominal
  • Missing values: None specified
SEQUENCING_DESIGN
  • Label: Sequencing design
  • Definition: Description of the sequencing design.
  • Type: Nominal
  • Missing values: None specified
FILE_TYPE
  • Label: File type
  • Definition: File type
  • Type: Nominal
  • Missing values: None specified
Data Source Details

Header lines: 

1

Footer lines: 

0

Orientation: 

Column

Field delimiter: 

,