Broad-toothed Rat, Genome resequencing, Illumina FASTQ, Liver
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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 | 2024-11-23 |
| Access Control Mode | date |
| Sequence Data Type | illumina-shortread |
| access_rights | No Restrictions |
| analysis_software | NovaSeq X Control Software; Real Time Analysis; Dragen BCL Convert |
| analysis_software_version | v1.2.0.28691; v4.6.7; v07.021.645.4.0.3 |
| base_url | https://downloads-qcif.bioplatforms.com/bpa/tsi_staging/illumina-fastq/BPAOPS-1524/20231124_TSI_AGRF_CAGRF23091272_22GHFLLT3/ |
| bioplatforms_project | Threatened Species Initiative |
| ccg_jira_ticket | BPAOPS-1524 |
| class | Mammalia |
| collection_date | 2013-11-28 |
| collection_method | Trapping |
| collector | Karen Roberts |
| collector_sample_id | KKR173 |
| common_name | Broad-toothed Rat |
| country | Australia |
| data_context | Genome resequencing |
| data_custodian | Kevin Rowe |
| data_type | Illumina FASTQ |
| dataset_id | 102.100.100/358863 |
| date_of_transfer | 2023-11-24 |
| date_of_transfer_to_archive | 2023-11-27 |
| description | Mastacomys fuscus |
| facility_project_code | CAGRF23091272 |
| facility_sample_id | 15097-3 |
| family | Muridae |
| file_type | fastq.gz |
| flowcell_id | 22GHFLLT3 |
| flowcell_type | 10B-300 |
| folder_name | 20231124_TSI_AGRF_CAGRF23091272_22GHFLLT3 |
| genotypic_sex | not determined |
| genus | Mastacomys |
| insert_size_range | 382 bp ± 100 bp |
| institution_name | Museums Victoria |
| library_construction_protocol | IDT xGen cfDNA & FFPE Library Preperation |
| library_id | 102.100.100/463517 |
| library_index_id_dual | IDT8_i7_3 & IDT8_i5_3 |
| library_index_seq_dual | TGAGCTAG-AACCGTTC |
| library_layout | Paired-End |
| library_location | AGRF Melbourne |
| library_ng_ul | 57.3 |
| library_pcr_cycles | 7.0 |
| library_prep_date | 2023-10-23 |
| library_prepared_by | SW |
| library_source | gDNA |
| library_type | Illumina-shortread |
| lifestage | Adult |
| location_text | Alpine National Park, Davies Plain Camp, 16.91 km south east of Mt Pinnibar summit, and 6.70 km north east of Davies Plain Track and Kings Plain 4WD Track junction |
| material_conc_ng_ul | 36.7 |
| material_extracted_by | Yanni Chan |
| material_extraction_date | 2023-09-20 |
| material_extraction_method | Dneasy |
| material_extraction_type | DNA |
| metadata_revision_date | 2025-08-26 |
| metadata_revision_filename | 20250826_Sample_metadata_COMBINED-FOR-PORTAL_NOLATLON.xlsx |
| method_of_determination | not determined |
| order | Rodentia |
| phenotypic_sex | Female |
| phylum | Chordata |
| sample_custodian | Kevin C. Rowe |
| sample_id | 102.100.100/462971 |
| sample_type | Contemporary |
| scientific_name | Mastacomys fuscus |
| scientific_name_authorship | Thomas 1922 |
| sequencing_facility | AGRF |
| sequencing_kit_chemistry_version | XLEAP-SBS |
| sequencing_model | X Plus |
| sequencing_platform | NovaSeq |
| species | fuscus |
| specimen_id | Z27368 |
| specimen_id_description | Museums Victoria registration number |
| state_or_region | Victoria |
| subspecies | mordicus |
| taxon_id | 442609.0 |
| taxonomic_group | Mammal |
| ticket | BPAOPS-1524 |
| tissue_collection | Mammalogy |
| tissue_collection_type | Museum |
| tissue_number | Z27368 |
| tissue_preservation | Frozen |
| tissue_preservation_temperature | -196.0 |
| tissue_type | Liver |
| wild_captive | wild-caught |