| Data File(s) | Type | Description | Action |
|---|---|---|---|
984169_v1_metagenome.csv (80.17 KB) | Comma Separated Values (.csv) | Primary data file for dataset ID 984169, version 1. This is a combined table that contains columns with information about the metagenomic samples, NCBI Sequence Read Archive accession information, and JGI IMG Genome IDs. | |
| Supplemental File(s) | Type | Description | Action |
984169_v1_estimated_genome_copies.csv (67.67 KB) | Comma Separated Values (.csv) | Supplemental table containing the estimated genome copies with columns by taxon (bacteria class). This table contains columns: IMG_Genome_ID = Contains the JGI sample ID of the specified timepoint DateID_PT = Contains the DateID of the sample (time zone: US/Pacific (PST/PDT)) ISO_DateTime_UTC = Contains the Datetime with timezone of the sample (time zone: UTC) Followed by an estimated gene copy column per bacteria class. See name_matches_and_ids.csv for more information about class names along with identifiers. | |
NCBI_and_JGI_Linking.csv (4.93 KB) | Comma Separated Values (.csv) | Supplemental file containing NCBI SRA accession identifiers, JGI IMG accession identifiers, and the DateID. This table can be used as a lookup table to connect the NCBI and JGI holdings. | |
Nunn_OrcasIsland_Data_JGI_metadata.xlsx (124.89 KB) | Microsoft Excel | This file contains the same data as the combined table 984169_v1_metagenome.csv and the supplemental file 984169_v1_metagenome-estimated-genome-copies.csv. In this Excel file, the data are separated into three tables: Orcas Island, WA, USA 2021 Coastal Ocean (2m depth) Time Series Sheets: Sheet1 - NCBI Sequence Read Archive Accession Numbers for Metagenomic Samples Sheet2 - IMG Genome IDs for Metagenomic Samples Sheet3 - Estimated Gene Copy for Metagenomic Samples | |
name_matches_and_ids.csv (10.25 KB) | Comma Separated Values (.csv) | Information about the bacteria class names used in the estimated Gene Copy table: 984169_v1_estimated_genome_copies.csv. These names were matched to NCBI:txid identifiers on 2025-09-10 using the Global Names Verifier (GNV) . Additional links to the List of Prokaryotic names with Standing in Nomenclature (LPSN, https://lpsn.dsmz.de/) were provided when the NCBI differed from the name as provided in this dataset. This supplemental name table includes columns: Name_in_dataset, The bacteria class name as used in this dataset Exact_Match, Did the name match the exact name at NCBI? (Yes, or No with more details). MatchedName_at_NCBI, The matched name as it appears at NCBI. NCBI_TaxonId_for_MatchedName, The identifier (NCBI:txid) for the MatchedName_at_NCBI ClassificationPath_at_NCBI, The current classification shown at NCBI (as of 2025-09-18) LPSN_page_for_name_in_dataset, The page containing information about the Name_in_dataset at LPSN (https://lpsn.dsmz.de/) which may clarify if it is a mispelling, or a synonym of some kind. Note: LPSN can be consulted for information about the standing of names used at NCBI and literature. NCBI provides this disclaimer on taxonomy pages: "The NCBI taxonomy database is not an authoritative source for nomenclature or classification - please consult the relevant scientific literature for the most reliable information." |
Files
Filename: 984169_v1_metagenome.csv (80.17 KB)
Type: Comma Separated Values (.csv)
Description: Primary data file for dataset ID 984169, version 1. This is a combined table that contains columns with information about the metagenomic samples, NCBI Sequence Read Archive accession information, and JGI IMG Genome IDs.
Type: Comma Separated Values (.csv)
Description: Primary data file for dataset ID 984169, version 1. This is a combined table that contains columns with information about the metagenomic samples, NCBI Sequence Read Archive accession information, and JGI IMG Genome IDs.
Supplemental Files
Filename: 984169_v1_estimated_genome_copies.csv (67.67 KB)
Type: Comma Separated Values (.csv)
Description: Supplemental table containing the estimated genome copies with columns by taxon (bacteria class). This table contains columns: IMG_Genome_ID = Contains the JGI sample ID of the specified timepoint DateID_PT = Contains the DateID of the sample (time zone: US/Pacific (PST/PDT)) ISO_DateTime_UTC = Contains the Datetime with timezone of the sample (time zone: UTC) Followed by an estimated gene copy column per bacteria class. See name_matches_and_ids.csv for more information about class names along with identifiers.
Type: Comma Separated Values (.csv)
Description: Supplemental table containing the estimated genome copies with columns by taxon (bacteria class). This table contains columns: IMG_Genome_ID = Contains the JGI sample ID of the specified timepoint DateID_PT = Contains the DateID of the sample (time zone: US/Pacific (PST/PDT)) ISO_DateTime_UTC = Contains the Datetime with timezone of the sample (time zone: UTC) Followed by an estimated gene copy column per bacteria class. See name_matches_and_ids.csv for more information about class names along with identifiers.
Filename: NCBI_and_JGI_Linking.csv (4.93 KB)
Type: Comma Separated Values (.csv)
Description: Supplemental file containing NCBI SRA accession identifiers, JGI IMG accession identifiers, and the DateID. This table can be used as a lookup table to connect the NCBI and JGI holdings.
Type: Comma Separated Values (.csv)
Description: Supplemental file containing NCBI SRA accession identifiers, JGI IMG accession identifiers, and the DateID. This table can be used as a lookup table to connect the NCBI and JGI holdings.
Filename: Nunn_OrcasIsland_Data_JGI_metadata.xlsx (124.89 KB)
Type: Microsoft Excel
Description: This file contains the same data as the combined table 984169_v1_metagenome.csv and the supplemental file 984169_v1_metagenome-estimated-genome-copies.csv. In this Excel file, the data are separated into three tables: Orcas Island, WA, USA 2021 Coastal Ocean (2m depth) Time Series Sheets: Sheet1 - NCBI Sequence Read Archive Accession Numbers for Metagenomic Samples Sheet2 - IMG Genome IDs for Metagenomic Samples Sheet3 - Estimated Gene Copy for Metagenomic Samples
Type: Microsoft Excel
Description: This file contains the same data as the combined table 984169_v1_metagenome.csv and the supplemental file 984169_v1_metagenome-estimated-genome-copies.csv. In this Excel file, the data are separated into three tables: Orcas Island, WA, USA 2021 Coastal Ocean (2m depth) Time Series Sheets: Sheet1 - NCBI Sequence Read Archive Accession Numbers for Metagenomic Samples Sheet2 - IMG Genome IDs for Metagenomic Samples Sheet3 - Estimated Gene Copy for Metagenomic Samples
Filename: name_matches_and_ids.csv (10.25 KB)
Type: Comma Separated Values (.csv)
Description: Information about the bacteria class names used in the estimated Gene Copy table: 984169_v1_estimated_genome_copies.csv. These names were matched to NCBI:txid identifiers on 2025-09-10 using the Global Names Verifier (GNV) . Additional links to the List of Prokaryotic names with Standing in Nomenclature (LPSN, https://lpsn.dsmz.de/) were provided when the NCBI differed from the name as provided in this dataset. This supplemental name table includes columns: Name_in_dataset, The bacteria class name as used in this dataset Exact_Match, Did the name match the exact name at NCBI? (Yes, or No with more details). MatchedName_at_NCBI, The matched name as it appears at NCBI. NCBI_TaxonId_for_MatchedName, The identifier (NCBI:txid) for the MatchedName_at_NCBI ClassificationPath_at_NCBI, The current classification shown at NCBI (as of 2025-09-18) LPSN_page_for_name_in_dataset, The page containing information about the Name_in_dataset at LPSN (https://lpsn.dsmz.de/) which may clarify if it is a mispelling, or a synonym of some kind. Note: LPSN can be consulted for information about the standing of names used at NCBI and literature. NCBI provides this disclaimer on taxonomy pages: "The NCBI taxonomy database is not an authoritative source for nomenclature or classification - please consult the relevant scientific literature for the most reliable information."
Type: Comma Separated Values (.csv)
Description: Information about the bacteria class names used in the estimated Gene Copy table: 984169_v1_estimated_genome_copies.csv. These names were matched to NCBI:txid identifiers on 2025-09-10 using the Global Names Verifier (GNV) . Additional links to the List of Prokaryotic names with Standing in Nomenclature (LPSN, https://lpsn.dsmz.de/) were provided when the NCBI differed from the name as provided in this dataset. This supplemental name table includes columns: Name_in_dataset, The bacteria class name as used in this dataset Exact_Match, Did the name match the exact name at NCBI? (Yes, or No with more details). MatchedName_at_NCBI, The matched name as it appears at NCBI. NCBI_TaxonId_for_MatchedName, The identifier (NCBI:txid) for the MatchedName_at_NCBI ClassificationPath_at_NCBI, The current classification shown at NCBI (as of 2025-09-18) LPSN_page_for_name_in_dataset, The page containing information about the Name_in_dataset at LPSN (https://lpsn.dsmz.de/) which may clarify if it is a mispelling, or a synonym of some kind. Note: LPSN can be consulted for information about the standing of names used at NCBI and literature. NCBI provides this disclaimer on taxonomy pages: "The NCBI taxonomy database is not an authoritative source for nomenclature or classification - please consult the relevant scientific literature for the most reliable information."