Howard River Toadlet, Reference genome, PacBio-HiFi, heart
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Data and Resources
This data is made available openly under a Creative Commons Attribution license.
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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 | 2024-07-11 |
| metadata_revision_filename | 20240711_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 |