Swift parrot, Reference genome, PacBio-HiFi, Pooled_heart_kidney
Dataset size is: 1.02 TiB
Data and Resources
This data is made available openly under a Creative Commons Attribution license.
Please see the initiative
Data Policy
for attribution information.
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 | 2023-07-01 |
| Access Control Mode | date |
| Sequence Data Type | pacbio-hifi |
| access_rights | Open Access |
| ala_specimen_url | https://bie.ala.org.au/species/urn:lsid:biodiversity.org.au:afd.taxon:3f12e573-a7b7-45e7-a6e4-aeae9bc3a9ed |
| analysis_software | SMRTtools |
| analysis_software_version | 11.0.0.146107 |
| base_url | https://downloads-qcif.bioplatforms.com/bpa/tsi_staging/pacbio-hifi/BPAOPS-1295/20220629_TSI_CAGRF220510524_DA162845/408024_TSI_AGRF_DA162845_HiFi_metadata/ |
| cell_postion | B01 |
| certainty | High |
| class | Aves |
| collection_date | 2021-11-08 |
| collection_method | Necropsy |
| collector | Andrew Thompson |
| collector_sample_id | 21-0168 |
| common_name | Swift parrot |
| country | Australia |
| data_context | Reference genome |
| data_custodian | Carolyn Hogg |
| data_type | PacBio-HiFi |
| dataset_id | 102.100.100/358777 |
| date_of_transfer | 2022-07-01 |
| date_of_transfer_to_archive | 2022-07-04 |
| death_date | 2021-11-08 |
| description | Lathamus discolor HiFi |
| dna_treatment | SHEARING |
| experimental_design | NA |
| facility_project_code | QAGRF220510524 |
| facility_sample_id | 408024.0 |
| family | Psittaculidae |
| file_type | BAM |
| flowcell_id | DA162845 |
| flowcell_type | SMRTcell 8M |
| folder_name | 20220629_TSI_CAGRF220510524_DA162845 |
| genotypic_sex | Female |
| genus | Lathamus |
| habitat | Woodlands |
| health_state | Severe bacterial liver infection resuling in death |
| insert_size_range | 10-20KB |
| institution_name | University of Sydney |
| library_comments | NA |
| library_construction_protocol | Preparing HiFi SMRTbell® Libraries using the SMRTbell Express Template Prep Kit 2.0 |
| library_id | 102.100.100/408024 |
| library_index_id | NA |
| library_index_sequence | NA |
| library_layout | NA |
| library_location | AGRF |
| library_ng_ul | 47.0 |
| library_oligo_sequence | NA |
| library_pcr_cycles | NA |
| library_pcr_reps | NA |
| library_prep_date | 2022-06-01 |
| library_prepared_by | TRENT PETERS |
| library_selection | RANDOM |
| library_source | GENOMIC |
| library_strategy | Preparing HiFi SMRTbell® Libraries using the SMRTbell Express Template Prep Kit 2.0 |
| library_type | WGS |
| lifestage | adult |
| location_text | Riverside |
| material_conc_ng_ul | 179.9 |
| material_extracted_by | Lauren Alexander |
| material_extraction_date | 2022-05-04 |
| material_extraction_method | Circulomics Big Tissue Kit |
| material_extraction_type | DNA |
| metadata_revision_date | 2023-11-30 |
| metadata_revision_filename | 20231130_Sample_metadata_COMBINED-FOR-PORTAL_NOLATLON.xlsx |
| method_of_determination | Dissection |
| movie_length | 30HRS |
| n_libraries_pooled | 1.0 |
| order | Psittaciformes |
| phenotypic_sex | female |
| phylum | Chordata |
| prior_genetics | NA |
| sample_custodian | Carolyn Hogg |
| sample_id | 102.100.100/405644 |
| sample_quality | good |
| sample_type | Whole organism |
| scientific_name | Lathamus discolor |
| scientific_name_authorship | John White |
| sequencing_facility | AGRF |
| sequencing_kit_chemistry_version | Sequel® II Sequencing Plate 2.0 |
| sequencing_model | PacBio Sequel II |
| sequencing_platform | PACBIO_SMRT |
| source_population | Tasmania Zoo |
| species | discolor |
| specimen_id | 21-0168 |
| specimen_id_description | LegTag |
| state_or_region | Tasmania |
| taxon_id | 678569.0 |
| taxonomic_group | Bird |
| ticket | BPAOPS-1295 |
| tissue_collection | Sarah Michael |
| tissue_collection_type | Zoo collection |
| tissue_number | 21-0168_heart_kidney_pooled |
| tissue_preservation | Flash frozen -80C |
| tissue_preservation_temperature | Flash frozen -80C |
| tissue_type | Pooled_heart_kidney |
| wild_captive | captive |
| work_order | 14028 |