Regent Honeyeater, Reference genome, Pacbio HiFi, Pooled sample of kidney and heart
Dataset size is: 695.73 GiB
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 |
|---|---|
| Geospatial Coverage |
Dataset extentMap tiles & Data by OpenStreetMap, under CC BY SA.
|
| Resource Permissions | organization_member_after_embargo:date_of_transfer_to_archive:365:tsi-consortium-members |
| Access Control Date | 2022-05-27 |
| Access Control Mode | date |
| Sequence Data Type | pacbio-hifi |
| analysis_software | SMRT Link Analysis |
| analysis_software_version | 9.0.0.92188 |
| base_url | https://downloads-qcif.bioplatforms.com/bpa/tsi_staging/pacbio-hifi/BPAOPS-1074/20210527_TSI_AGRF_DA061164/357464_TSI_AGRF_DA061164_HiFi_metadata/ |
| birth_date | 2020-09-20 |
| cell_postion | D01 |
| certainty | Certain |
| class | Aves |
| collection_date | 2020-10-28 |
| collection_method | Medical euthanasia due to poor prognosis |
| collector | Lydia Tong, Taronga |
| collector_sample_id | TARZ-13825.1 |
| common_name | Regent Honeyeater |
| country | Australia |
| data_context | Reference genome |
| data_custodian | Jo Day |
| data_type | Pacbio HiFi |
| dataset_id | 102.100.100/358730 |
| date_of_transfer | 2021-05-27 |
| date_of_transfer_to_archive | 2021-05-27 |
| death_date | 2020-10-28 |
| decimal_latitude_public | -33.84 |
| decimal_longitude_public | 151.24 |
| dna_treatment | SHEARING |
| experimental_design | NA |
| facility_sample_id | 357464.0 |
| family | Meliphagidae |
| file_name | 357464_TSI_AGRF_PacBio_DA061164.subreads.bam |
| file_type | BAM |
| flowcell_id | DA061164 |
| flowcell_type | SMRT Cell 8M |
| folder_name | 20210527_TSI_AGRF_DA061164 |
| genus | Anthochaera |
| insert_size_range | 15800.0 |
| institution_name | Taronga Conservation Society Australia |
| latitude | -33.84 |
| library_comments | NA |
| library_construction_protocol | Preparing HiFi SMRTbell® Libraries using SMRTbell Express Template Prep Kit 2.0 |
| library_id | 102.100.100/357464 |
| library_index_id | NA |
| library_index_sequence | NA |
| library_layout | NA |
| library_location | AGRF |
| library_ng_ul | 120.0 |
| library_oligo_sequence | NA |
| library_pcr_cycles | NA |
| library_pcr_reps | NA |
| library_prep_date | 2021-04-08 |
| library_prepared_by | Trent Peters |
| library_selection | size fractionation |
| library_source | GENOMIC |
| library_status | Library Sequenced |
| library_strategy | Preparing HiFi SMRTbell® Libraries using SMRTbell Express Template Prep Kit 2.0 |
| library_type | WGS |
| lifestage | juvenile |
| location_text | Taronga Zoo, Bradleys Head Road, Mosman, NSW 2088 |
| longitude | 151.24 |
| material_conc_ng_ul | 105.0 |
| material_extracted_by | Jo Day (Taronga), Elspeth McLennan (USYD) |
| material_extraction_date | 2020-12-03 |
| material_extraction_method | Circulomics Kit ("Nanobind Tissue Big DNA Kit v1.0 11/19") |
| 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 | Passeriformes |
| phenotypic_sex | male |
| phylum | Chordata |
| sample_custodian | Jo Day |
| sample_id | 102.100.100/355453 |
| sample_quality | Good |
| scientific_name | Anthochaera phrygia |
| sequencing_facility | AGRF |
| sequencing_model | PacBio Sequel II |
| sequencing_platform | PACBIO_SMRT |
| source_population | Taronga Zoo |
| species | phrygia |
| specimen_id | WYR20-16179 |
| specimen_id_description | Species360 (GAN) number |
| state_or_region | New South Wales |
| taxon_id | 2020318.0 |
| taxonomic_group | Bird |
| ticket | BPAOPS-1074 |
| tissue_number | WYR20-16179_pooled_kidney_heart |
| tissue_preservation | Flash frozen at -80C |
| tissue_type | Pooled sample of kidney and heart |
| wild_captive | captive |