Howard River Toadlet, Reference genome, PacBio-HiFi, heart
Dataset size is: 22.68 GiB
This dataset is currently under a short embargo period until November 28, 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
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 | 2024-11-28 |
| Access Control Mode | date |
| Sequence Data Type | pacbio-hifi |
| access_rights | no restrictions |
| ala_specimen_url | NA |
| analysis_software | SMRT Link Analysis |
| analysis_software_version | 12.0.0.172289 |
| ancillary_notes | NA |
| associated_media | NA |
| bait_set_name | NA |
| bait_set_reference | NA |
| barcode_id | NA |
| base_url | https://downloads-qcif.bioplatforms.com/bpa/tsi_staging/pacbio-hifi/BPAOPS-1527/20231128_TSI_AGRF_CAGRF230414583_m84073_230825_013051_s1/ |
| bioplatforms_project | Threatened Species Initiative |
| cell_postion | B01 |
| certainty | certain |
| class | Amphibia |
| collection_date | 2023-02-16 |
| collection_method | by hand |
| collector | Renee Catullo, Peter McDonald, Tony Griffiths |
| common_name | Howard River Toadlet |
| country | Australia |
| data_context | Reference genome |
| data_custodian | Renee Catullo |
| data_type | PacBio-HiFi |
| dataset_id | 102.100.100/358825 |
| dataset_url | replacement for BPAOPS-1476 above |
| date_of_transfer | 2023-11-29 |
| date_of_transfer_to_archive | 2023-11-29 |
| death_date | 2023-02-17 |
| decimal_latitude_public | -12.44 |
| decimal_longitude_public | 131.04 |
| description | Howard River Toadlet (Uperoleia daviesae) |
| dna_treatment | SHEARING |
| experimental_design | NA |
| facility_project_code | CAGRF230414583 |
| facility_sample_id | 462243.0 |
| family | Myobatrachidae |
| fast5_compression | NA |
| file_type | BAM |
| flowcell_id | m84073_230825_013051_s1 |
| flowcell_type | SMRT Cell 25M |
| folder_name | 20231128_TSI_AGRF_CAGRF230414583_m84073_230825_013051_s1 |
| genotypic_sex | not determined |
| genus | Uperoleia |
| habitat | sandsheet heath |
| health_state | unknown |
| insert_size_range | 15000.0 |
| institution_name | UWA Catullo Lab internal identifier |
| latitude | -12.44 |
| library_comments | NA |
| library_construction_protocol | Preparing HiFi SMRTbell Libraries using SMRTbell Express Template Prep Kit 2.0 |
| library_id | 102.100.100/462243 |
| library_index_id | NA |
| library_index_id_dual | NA |
| library_index_seq_dual | NA |
| library_index_sequence | NA |
| library_layout | NA |
| library_location | AGRF |
| library_ng_ul | 250pM |
| library_oligo_sequence | NA |
| library_oligo_sequence_dual | NA |
| library_pcr_cycles | NA |
| library_pcr_reps | NA |
| library_prep_date | 2023-08-18 |
| library_prepared_by | Trent Peters |
| library_selection | size fractionation |
| library_source | GENOMIC |
| library_strategy | WGS |
| library_type | PacBio-HiFi |
| lifestage | adult organism |
| location_text | Willard Rd, Shoal Bay, Darwin |
| longitude | 131.04 |
| material_extracted_by | AGRF |
| metadata_revision_date | 2023-11-30 |
| metadata_revision_filename | 20231130_Sample_metadata_COMBINED-FOR-PORTAL_NOLATLON.xlsx |
| method_of_determination | calling individual |
| model_base_caller | NA |
| movie_length | 24Hrs |
| n_libraries_pooled | 1.0 |
| order | Anura |
| phenotypic_sex | male |
| phylum | Chordata |
| prior_genetics | NA |
| sample_custodian | Renee Catullo |
| sample_id | 102.100.100/460203 |
| sample_quality | sampled for this purpose |
| sample_type | tissue sample |
| scientific_name | Uperoleia daviesae |
| scientific_name_authorship | Young, Tyler & Kent, 2005 |
| sequencing_facility | AGRF |
| sequencing_kit_chemistry_version | Revio sequencing plate |
| sequencing_model | PacBio Revio |
| sequencing_platform | PACBIO_SMRT |
| species | daviesae |
| specimen_id | Up1333 |
| specimen_id_description | UWA Catullo Lab internal identifier |
| state_or_region | Northern Territory |
| taxon_id | 1534773.0 |
| taxonomic_group | Amphibian |
| ticket | BPAOPS-1527 |
| tissue_collection | UWA Catullo Lab - private |
| tissue_collection_type | university |
| tissue_number | Up1333 |
| tissue_preservation | "-80C" |
| tissue_preservation_temperature | -80.0 |
| tissue_type | heart |
| wild_captive | wild |
| work_order | 14052 |