Hooded Plover, Transcriptome, Illumina FASTQ, muscle
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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 | 2025-07-10 |
| Access Control Mode | date |
| Sequence Data Type | illumina-shortread |
| access_rights | No restrictions |
| ala_specimen_url | NA |
| analysis_software | NovaSeq X Control Software; Real Time Analysis; Dragen BCL Convert |
| analysis_software_version | v1.2.0.28691; v4.6.7; v07.021.645.4.0.3 |
| ancillary_notes | NA |
| associated_media | NA |
| barcode_id | NA |
| base_url | https://downloads-qcif.bioplatforms.com/bpa/tsi_staging/illumina-fastq/BPAOPS-1612/20240710_TSI_AGRF_22KTTFLT3/ |
| bioplatforms_project | Threatened Species Initiative |
| ccg_jira_ticket | BPAOPS-1612 |
| class | Aves |
| collection_date | 2023-10-01 |
| common_name | Hooded Plover |
| country | Australia |
| data_context | Transcriptome |
| data_custodian | Joanna Sumner |
| data_type | Illumina FASTQ |
| dataset_id | 102.100.100/358884 |
| date_of_transfer | 2024-07-10 |
| date_of_transfer_to_archive | 2024-07-11 |
| death_date | 2023-10-01 |
| description | Thinornis rubricollis |
| facility_project_code | CAGRF24050494 |
| facility_sample_id | 16624-4 |
| family | Charadriidae |
| file_type | .fastq.gz |
| flowcell_id | 22KTTFLT3 |
| flowcell_type | 10B-300 |
| folder_name | 20240710_TSI_AGRF_22KTTFLT3 |
| genotypic_sex | not determined |
| genus | Thinornis |
| habitat | beach |
| insert_size_range | 123 - 180 bp |
| institution_name | Museums Victoria |
| library_construction_protocol | Illumina Stranded mRNA |
| library_id | 102.100.100/625836 |
| library_index_id_dual | UDP0352-F & UDP0352-R |
| library_index_seq_dual | CGCATTCCGT-ATTAGTGGAG |
| library_layout | Paired-End |
| library_location | AGRF Melbourne |
| library_ng_ul | 12.5 |
| library_pcr_cycles | 13.0 |
| library_prep_date | 2024-06-17 |
| library_prepared_by | JM |
| library_selection | RANDOM |
| library_source | RNA |
| library_type | illumina-transcriptomics |
| lifestage | adult |
| location_text | Kangaroo Island |
| material_conc_ng_ul | 16.0 |
| material_extracted_by | Joanna Sumner, Museums Victoria Research Institute |
| material_extraction_method | Qiagen Rneasy mini kit |
| material_extraction_type | RNA |
| metadata_revision_date | 2025-08-26 |
| metadata_revision_filename | 20250826_Sample_metadata_COMBINED-FOR-PORTAL_NOLATLON.xlsx |
| method_of_determination | dissection |
| order | Charadriiformes |
| phenotypic_sex | male |
| phylum | Chordata |
| prior_genetics | NA |
| sample_custodian | Vieillot, 1818. Nouveau dictionnaire d’histoire naturelle 27, p.136. |
| sample_id | 102.100.100/624858 |
| sample_quality | high quality |
| sample_type | tissue sample |
| scientific_name | Thinornis rubricollis |
| scientific_name_authorship | Vieillot, 1818. Nouveau dictionnaire d’histoire naturelle 27, p.136. |
| scientific_name_note | Scientific name has changed several times. |
| sequencing_facility | AGRF |
| sequencing_kit_chemistry_version | X-LEAP SBS |
| sequencing_model | X Plus |
| sequencing_platform | NovaSeq |
| species | rubricollis |
| specimen_id | NMV B36044 |
| specimen_id_description | Museums Victoria voucher registration number |
| state_or_region | South Australia |
| subspecies | rubricollis |
| taxon_id | 50410.0 |
| taxonomic_group | bird |
| ticket | BPAOPS-1612 |
| tissue_collection | Ian Potter Australian Wildlife Biobank |
| tissue_collection_type | museum |
| tissue_number | Tr-muscle |
| tissue_preservation | RNAlater |
| tissue_preservation_temperature | frozen, -20, -80 -199 |
| tissue_type | muscle |
| wild_captive | wild |
| work_order | 14071 |