GAP PacBio-HiFi, Reference genomes, 378161
Dataset size is: 1.05 TiB
This dataset is currently under a short embargo period until July 31, 2024 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
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378161_GAP_GWA_DA256594.xlsx Metadata Only XLSX
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378161_GAP_GWA_DA256594-SeqQC.pdf Metadata Only PDF
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378161_GAP_GWA_DA256594_ccs_stat... Metadata Only CSV
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378161_GAP_GWA_DA256594.subreads.bam Metadata Only BAM
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378161_GAP_GWA_DA256594.ccs.bam Metadata Only BAM
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378161_GAP_GWA_DA256594.pdf Metadata Only PDF
Please see the initiative
Data Policy
for attribution information.
Additional Info Show Blank Fields
| Field | Value |
|---|---|
| Resource Permissions | organization_member |
| Access Control Date | 2024-07-31 |
| Access Control Mode | date |
| Sequence Data Type | pacbio-hifi |
| analysis_software | SMRT Link |
| analysis_software_version | 11.1.0.166339 |
| base_url | https://downloads-qcif.bioplatforms.com/bpa/plants_staging/pacbio-hifi/BPAOPS-1448/20230722_GAP_GWA_GWA-AJ-889_DA256594/ |
| cell_postion | C01 |
| country | Australia |
| data_type | Main dataset |
| dataset_id | 102.100.100/83826 |
| dataset_url | https://data.bioplatforms.com/dataset?ext_search_by=&q=ticket%3ABPAOPS-1448 |
| date_data_published | 21/06/2023 |
| date_of_transfer | 2023-08-01 |
| date_of_transfer_to_archive | 2023-08-04 |
| description | PacBio-HiFi |
| dna_treatment | Shearing on Diagenode megaruptor-3, FFPE repair with NEB kit, Blue Pippin Size selection > 15kB before library preparation |
| facility | GWA |
| facility_sample_id | iLab ID GWA-AJ-889 Dampiera Purpurea L290 PBS035 |
| family | Goodeniaceae |
| flowcell_id | DA256594 |
| flowcell_type | 8M SMRT cell |
| folder_name | 20230722_GAP_GWA_GWA-AJ-889_DA256594 |
| genomic_material_associated_references | Jones et al (2021) PLOS ONE https://journals.plos.org/plosone/article?id=10.1371/journal.pone.0253830 |
| genomic_material_preparation_date | 2022-02-01 |
| genomic_material_preparation_materials | In the protocol |
| genomic_material_preparation_process | Jones et al (2021) PLOS ONE https://journals.plos.org/plosone/article?id=10.1371/journal.pone.0253830 |
| genomic_material_preparation_type | Leaf gDNA |
| genomic_material_prepared_by | Ashley Jones |
| herbarium_code | MEL |
| id_vetting_by | Andre Messina |
| id_vetting_date | 2021-01-06 |
| insert_size_range | 21083.0 |
| library_construction_protocol | Preparing whole genome and metagenome libraries using SMRTbell® prep kit 3.0 PN 102-166-600 APR2022 |
| library_id | 102.100.100/384048 |
| library_layout | NA |
| library_location | GWA FRIDGE 10 |
| library_ng_ul | 128.5 |
| library_prep_date | 2023-04-20 |
| library_prepared_by | Ali Sadiq Cheema |
| library_selection | RANDOM |
| library_source | GENOMIC |
| library_status | Library Sequenced |
| library_strategy | Preparing whole genome and metagenome libraries using SMRTbell® prep kit 3.0 PN 102-166-600 APR2022 with custom steps |
| library_type | Long read Hi Fi library with custom steps |
| living_collections_catalog_number | RBGC 214104 |
| living_collections_event_date | 2021-01-09 |
| living_collections_material_sample_rna | N/A |
| living_collections_record_number | RBGC 214104 |
| living_collections_recorded_by | Gareth Holmes |
| location_id | Burrowa-Pine Mountain National Park |
| location_notes | Walking track to Pine Mountain, on N slopes of ridge c. 1.5 km W of Pine Mountain Summit |
| metadata_revision_date | 2024-02-28 |
| metadata_revision_filename | 2024-02-28_Combined_plant_sample_metadata_forQCIF.xlsx |
| movie_length | 30 hours |
| nagoya_protocol_compliance | Yes |
| nagoya_protocol_permit_number | 10008918.0 |
| preservation_date_begin | 2022-11-01 |
| preservation_temperature | Leaf −80°C (2022-11), DNA 4°C (2023-02) |
| preservation_type | Freezing, fridge |
| project_aim | Reference genomes |
| sample_id | 102.100.100/378161 |
| sample_submitter_email | David.Cantrill@rbg.vic.gov.au |
| sample_submitter_name | David Cantrill |
| scientific_name | Dampiera purpurea |
| scientific_name_authorship | R.Br. |
| sequencing_facility | Genomics WA |
| sequencing_model | PacBio Sequel II |
| sequencing_platform | PACBIO_SMRT |
| state_or_territory | Victoria |
| ticket | BPAOPS-1448 |
| voucher_herbarium_catalog_number | MEL 2525469A |
| voucher_herbarium_collector_id | A. Messina |
| voucher_herbarium_event_date | 2021-01-06 |
| voucher_herbarium_record_number | A. Messina 1874 |
| voucher_herbarium_recorded_by | A. Messina |