Smoky Mouse, Genome Resequencing, Illumina FASTQ, Liver
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Data and Resources
This data is made available openly under a Creative Commons Attribution license.
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Additional Info Show Blank Fields
| Field | Value |
|---|---|
| Resource Permissions | organization_member_after_embargo:date_of_transfer_to_archive:365:tsi-consortium-members |
| Access Control Date | 2022-04-19 |
| Access Control Mode | date |
| Sequence Data Type | illumina-shortread |
| access_rights | No Restrictions |
| analysis_software | NovaSeq Control Software (NCS) v1.7.0 and Real Time Analysis (RTA) v3.4.4, bcl2fastq 2.20.0.422 |
| ancillary_notes | Identified by unknown |
| base_url | https://downloads-qcif.bioplatforms.com/bpa/tsi_staging/illumina-shortread/BPAOPS-1065/20210419_TSI_AGRF_H3VNHDSX2/ |
| ccg_jira_ticket | BPAOPS-1065 |
| certainty | Confident |
| class | Mammalia |
| collection_date | 1998-10-16 |
| collector | unknown |
| collector_sample_id | M28451 |
| common_name | Smoky Mouse |
| country | Australia |
| data_context | Genome Resequencing |
| data_custodian | Kevin C. Rowe |
| data_type | Illumina FASTQ |
| dataset_id | 102.100.100/358733 |
| date_of_transfer | 2021-04-19 |
| date_of_transfer_to_archive | 2021-04-19 |
| description | NovaSeq 6000; IDT xGen Prism; Dataset ID 358732, 358733, 358734, 358735 |
| family | Muridae |
| file_type | fastq.gz |
| flow_cell_id | H3VNHDSX2 |
| flowcell_id | H3VNHDSX2 |
| flowcell_type | S4-300 |
| folder_name | 20210419_TSI_AGRF_ H3VNHDSX2 |
| genotypic_sex | not determined |
| genus | Pseudomys |
| insert_size_range | 350.0 |
| institution_name | Australian National Wildlife Collection |
| library_construction_protocol | IDT xGen Prism |
| library_id | 357531 |
| library_index_id | IDT8_i7_28 & IDT8_i5_28 |
| library_index_sequence | GATTACCG-TTGGACTG |
| library_layout | PE |
| library_pcr_cycles | 10.0 |
| library_type | DNA |
| lifestage | Adult |
| location_text | Yarrangobilly Caves, Kosciuszko National Park |
| material_conc_ng_ul | 8.9 |
| material_extracted_by | Kevin Rowe |
| material_extraction_date | 2021-02-23 |
| material_extraction_method | Qiagen DNeasy Spin Column |
| material_extraction_type | DNA |
| metadata_revision_date | 2025-08-26 |
| metadata_revision_filename | 20250826_Sample_metadata_COMBINED-FOR-PORTAL_NOLATLON.xlsx |
| method_of_determination | unknown |
| n_libraries_pooled | 96.0 |
| order | Rodentia |
| phenotypic_sex | Male |
| phylum | Chordata |
| sample_custodian | Leo Joesph |
| sample_id | 102.100.100/355520 |
| sample_quality | Degraded (Low Molecular Weight) |
| sequencing_facility | AGRF |
| sequencing_model | 6000.0 |
| sequencing_platform | NovaSeq |
| species | fumeus |
| specimen_id | ANWC M28451 |
| specimen_id_description | ANWC registration number |
| state_or_region | New South Wales |
| taxon_id | 442609.0 |
| taxonomic_group | Mammal |
| ticket | BPAOPS-1065 |
| tissue_collection | Mammalogy |
| tissue_number | ANWC M28451_Liver |
| tissue_preservation | -80 C (ethanol subsample) |
| tissue_preservation_temperature | -80.0 |
| tissue_type | Liver |
| wild_captive | wild-caught |