Eastern Freshwater Cod, Reference genome, Illumina-HiC, blood
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This dataset is currently under a short embargo period until August 20, 2026 to enable primary access by research partners.
If you would like access during this period please contact us here or contact the project lead directly (see details in the table below) for collaboration opportunities.
Data and Resources
Please see the initiative
Data Policy
for attribution information.
Additional Info Show Blank Fields
| Field | Value |
|---|---|
| Resource Permissions | organization_member |
| Access Control Date | 2026-08-20 |
| Access Control Mode | date |
| Sequence Data Type | illumina-hic |
| analysis_software | 4.1.23 |
| ancillary_notes | NA |
| associated_media | NA |
| base_url | https://downloads-qcif.bioplatforms.com/bpa/fish_staging/genomics-hi-c/BPAOPS-1875/20250820-232K7NLT3-WO27005-WO14101/20250820_FISH_BRF_618617_232K7NLT3/ |
| bioplatforms_dataset_id | 102.100.100/618617 |
| bioplatforms_library_id | 102.100.100/616631 |
| bioplatforms_project | Australian Fish Genomics Initiative |
| bioplatforms_project_ncbi_umbrellabioproject_id | PRJNA1098053 |
| bioplatforms_sample_id | 102.100.100/614626 |
| ccg_jira_ticket | BPAOPS-1875 |
| class | Actinopterygii |
| collection_date | 2024-03-25 |
| collection_method | Electrofishing |
| collection_permit | AEC 202414067 |
| collector | NSW Fisheries |
| collector_sample_id | PU25-15 |
| common_name | Eastern Freshwater Cod |
| country | Australia |
| data_context | Reference genome |
| data_type | Illumina-HiC |
| date_of_transfer | 2025-08-20 |
| date_of_transfer_to_archive | 2025-08-25 |
| death_date | 2025-05-23 |
| decimal_latitude_public | -29.824946 |
| decimal_longitude_public | 152.585386 |
| dna_treatment | FA crosslinking |
| env_broad_scale | freshwater biome [ENVO_00000873] |
| env_local_scale | freshwater river biome [ENVO_01000253] |
| env_medium | river water [ENVO_01000599] |
| facility_project_code | NA |
| facility_sample_id | 616631_FISH_BRF_232K7NLT3_CTACCGAA-AAGTGTCT |
| family | Percichthyidae |
| flowcell_id | 232K7NLT3 |
| flowcell_type | NovaSeq X 10B |
| folder_name | 20250820-232K7NLT3-WO27005-WO14101 |
| genotypic_sex | not determined |
| genus | Maccullochella |
| health_state | healthy |
| identified_by | Peter Unmack |
| insert_size_range | ~600bp |
| latitude | -29.824946 |
| library_construction_protocol | HiC Arima 2.0 |
| library_id | 616631 |
| library_index_id | Arima_09_A02 |
| library_index_id_dual | Arima_09_A02 |
| library_index_seq | CTACCGAA |
| library_index_seq_dual | AAGTGTCT |
| library_layout | Paired end |
| library_location | BRF Freezer |
| library_ng_ul | 1.0 |
| library_oligo_sequence | CAAGCAGAAGACGGCATACGAGATctaccgaaCTGTCTCTTATACACATCTCCGAGCCCACGAGAC |
| library_oligo_sequence_dual | AATGATACGGCGACCACCGAGATCTACACaagtgtctTCGTCGGCAGCGTCAGATGTGTATAAGAGACAG |
| library_pcr_cycles | 8 |
| library_pcr_reps | 1 |
| library_prepared_by | Max Nekrasov |
| library_selection | Restriction digest |
| library_source | GENOMIC |
| library_strategy | HiC |
| library_type | Illumina-HiC |
| lifestage | adult |
| location_info_restricted | no |
| location_text | Nymboida River, Buccurumbi, then held as broodstock at Grafton Fisheries Research Centre |
| longitude | 152.585386 |
| material_extracted_by | ANU-BRF |
| material_extraction_date | 2025-06-23 |
| material_extraction_type | DNA |
| metadata_revision_date | 2025-07-24 |
| metadata_revision_filename | 20250724_FISH_Sample_metadata_COMBINED-FOR-PORTAL_NOLATLON.xlsx |
| method_sex_determination | dissection |
| n_libraries_pooled | 1 |
| order | Centrarchiformes |
| phenotypic_sex | male |
| phylum | Chordata |
| project_collaborators | Peter Unmack |
| project_lead | Matthew Mac Campbell |
| sample_collection_type | University |
| sample_custodian | Peter Unmack, Matthew Campbell |
| sample_id | MI2515.G1_fin |
| sample_id_description | Peter Unmack field code |
| sample_quality | high |
| sample_type | tissue sample |
| scientific_name | Maccullochella ikei |
| sequencing_facility | BRF |
| sequencing_kit_chemistry_version | DRAGEN BCLConvert |
| sequencing_model | NovaSeq X |
| sequencing_platform | Illumina |
| sex_certainty | 1.0 |
| species | ikei |
| specimen_custodian | Peter Unmack, Matthew Campbell |
| specimen_id | MI2515.G1 |
| specimen_id_description | Peter Unmack field code |
| state_or_region | NSW |
| taxon_id | 135759 |
| taxonomic_group | Fish |
| ticket | BPAOPS-1875 |
| tissue | blood |
| tissue_preservation | Nitrogen |
| tissue_preservation_temperature | -196.0 |
| wild_captive | wild |
| work_order | 27005 |