GAP PacBio-HiFi flow cell 2, Reference genomes, 376415
Dataset size is: 1.16 TiB
This dataset is currently under a short embargo period until June 1, 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
-
376415_GAP_GWA_DA256563.pdf Metadata Only PDF
-
376415_GAP_GWA_DA256563-SeqQC.pdf Metadata Only PDF
-
376415_GAP_GWA_DA256563.subreads.bam Metadata Only BAM
-
376415_GAP_GWA_DA256563.ccs.bam Metadata Only BAM
-
376415_GAP_GWA_DA256563-LibQC.xlsx Metadata Only XLSX
-
376415_GAP_GWA_DA256563_ccs_stat... Metadata Only CSV
Please see the initiative
Data Policy
for attribution information.
Additional Info Show Blank Fields
| Field | Value |
|---|---|
| Resource Permissions | organization_member |
| Access Control Date | 2024-06-01 |
| Access Control Mode | date |
| Sequence Data Type | pacbio-hifi |
| analysis_software | SMRT Link |
| analysis_software_version | 11.1.0.166339 |
| bait_set_reference | NA |
| base_url | https://downloads-qcif.bioplatforms.com/bpa/plants_staging/pacbio-hifi/BPAOPS-1411/20230502_GAP_GWA_GWA-AS-799_DA256563/ |
| cell_postion | D01 |
| country | Australia |
| data_type | Main dataset |
| dataset_id | 102.100.100/83801 |
| dataset_url | https://data.bioplatforms.com/dataset?ext_search_by=&q=ticket%3ABPAOPS-1411 |
| date_data_published | 19/06/2023 |
| date_of_transfer | 2023-06-02 |
| date_of_transfer_to_archive | 2023-06-13 |
| description | PacBio-HiFi flow cell 2 |
| 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-AS-799 376415 L264 PBS033 |
| family | Asteraceae |
| flowcell_id | DA256563 |
| flowcell_type | 8M SMRT cell |
| folder_name | 20230502_GAP_GWA_GWA-AS-799_DA256563 |
| genomic_material_associated_references | In the protocol |
| genomic_material_preparation_date | 2022-06-01 |
| genomic_material_preparation_materials | In the protocol |
| genomic_material_preparation_process | HMW DNA Prep https://www.protocols.io/view/scalable-high-molecular-weight-dna-extraction-for-bnjhmcj6 |
| genomic_material_preparation_type | Leaf gDNA |
| genomic_material_prepared_by | Ashley Jones |
| herbarium_code | CANB |
| id_vetting_by | Schmidt-Lebuhn, Alexander |
| insert_size_range | 19760.0 |
| library_construction_protocol | Preparing whole genome and metagenome libraries using SMRTbell® prep kit 3.0 PN 102-166-600 APR2022 |
| library_id | 102.100.100/383177 |
| library_layout | NA |
| library_location | GWA FRIDGE 7 |
| library_ng_ul | 39.7 |
| library_prep_date | 2023-04-20 |
| library_prepared_by | Hadi Shamaileh |
| 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 |
| location_notes | Edge of Mt Majura Nature Reserve towards Federal Hwy |
| 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 | ACT PERMIT PL2018160 |
| preservation_temperature | −80°C |
| preservation_type | Tissue - freezing |
| project_aim | Reference genomes |
| sample_id | 102.100.100/376415 |
| sample_submission_date | 2022-06-01 |
| sample_submitter_email | alexander.schmidt-lebuhn@csiro.au |
| sample_submitter_name | Schmidt-Lebuhn, Alexander |
| scientific_name | Leucochrysum albicans |
| scientific_name_authorship | (A.Cunn.) Paul G.Wilson |
| scientific_name_notes | subsp. tricolor (DC.) N.G.Walsh |
| sequencing_facility | Genomics WA |
| sequencing_model | PacBio Sequel II |
| sequencing_platform | PACBIO_SMRT |
| state_or_territory | ACT |
| ticket | BPAOPS-1411 |
| voucher_herbarium_catalog_number | CANB 920543.1 |
| voucher_herbarium_collector_id | Schmidt-Lebuhn, Alexander |
| voucher_herbarium_event_date | 2021-01-12 |
| voucher_herbarium_record_number | 1997 |
| voucher_herbarium_recorded_by | Schmidt-Lebuhn, Alexander |