Swift parrot, Transcriptome, Illumina FASTQ, Gonads
Dataset size is: 17.93 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 |
|---|---|
| Resource Permissions | organization_member_after_embargo:date_of_transfer_to_archive:365:tsi-consortium-members |
| Access Control Date | 2023-06-30 |
| Access Control Mode | date |
| Sequence Data Type | illumina-shortread |
| 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 | bcl2fastq2 |
| analysis_software_version | v2.20 |
| ancillary_notes | NA |
| associated_media | NA |
| barcode_id | NA |
| base_url | https://downloads-qcif.bioplatforms.com/bpa/tsi_staging/illumina-fastq/BPAOPS-1294/20220629_TSI_UNSW_HHV7HDRX2/ |
| ccg_jira_ticket | BPAOPS-1294 |
| cell_postion | N/A |
| certainty | High |
| class | Aves |
| collection_date | 2021-08-11 |
| collection_method | Necropsy |
| collector | Andrew Thompson |
| collector_sample_id | 21-0168 |
| common_name | Swift parrot |
| country | Australia |
| data_context | Transcriptome |
| data_custodian | Carolyn Hogg |
| data_type | Illumina FASTQ |
| dataset_id | 102.100.100/358780 |
| date_of_transfer | 2022-06-30 |
| date_of_transfer_to_archive | 2022-06-30 |
| death_date | 2021-08-11 |
| decimal_latitude_public | -41.4 |
| decimal_longitude_public | 147.0 |
| description | transcriptomes (multiple species) |
| dna_treatment | N/A |
| experimental_design | N/A |
| facility_project_code | 682001389.0 |
| facility_sample_id | PEE10777A2 |
| family | Psittaculidae |
| file_type | fastq.gz |
| flowcell_id | HHV7HDRX2 |
| flowcell_type | NovaSeq S1 |
| folder_name | 20220629_TSI_UNSW_HHV7HDRX2 |
| genotypic_sex | Female |
| genus | Lathamus |
| habitat | Woodlands |
| health_state | Severe bacterial liver infection resuling in death |
| insert_size_range | 100bp PE |
| institution_name | Department of Natural Resources and Environment Tasmania |
| latitude | -41.4 |
| library_comments | N/A |
| library_construction_protocol | Illumina mRNA prep ligation |
| library_id | 102.100.100/408030 |
| library_index_id | UDP0082 |
| library_index_seq | ACCGTTACAA-TCGCTATGAG |
| library_layout | Paired end |
| library_location | Ramaciotti Centre for Genomics |
| library_ng_ul | 7.28 |
| library_pcr_cycles | 10.0 |
| library_pcr_reps | 1.0 |
| library_prep_date | 2022-06-21 |
| library_prepared_by | Ramaciotti Centre for Genomics |
| library_selection | PolyA |
| library_source | TRANSCRIPTOMIC |
| library_strategy | RNA-Seq |
| library_type | Illumina-transcriptomics |
| lifestage | adult |
| location_text | Riverside |
| longitude | 147.0 |
| material_conc_ng_ul | 167.8 |
| material_extracted_by | Emma Peel |
| material_extraction_date | 2022-05-09 |
| material_extraction_method | Qiagen RNeasy Mini Kit with DNAse treatment |
| material_extraction_type | RNA |
| metadata_revision_date | 2024-08-28 |
| metadata_revision_filename | 20240829_Sample_metadata_COMBINED-FOR-PORTAL_NOLATLON.xlsx |
| method_of_determination | Dissection |
| movie_length | N/A |
| n_libraries_pooled | 12.0 |
| order | Psittaciformes |
| phenotypic_sex | female |
| phylum | Chordata |
| prior_genetics | NA |
| sample_custodian | Carolyn Hogg |
| sample_id | 102.100.100/405648 |
| sample_quality | High |
| sample_type | Tissue |
| scientific_name | Lathamus discolor |
| scientific_name_authorship | John White |
| sequencing_facility | UNSW |
| sequencing_kit_chemistry_version | NovaSeq v1.5 |
| sequencing_model | Illumina NovaSeq 6000 |
| sequencing_platform | ILLUMINA |
| source_population | Tasmania Zoo |
| species | discolor |
| specimen_id | 21-0168 |
| specimen_id_description | Leg tag |
| state_or_region | Tasmania |
| taxon_id | 678569.0 |
| taxonomic_group | Bird |
| ticket | BPAOPS-1294 |
| tissue_collection | Department of Natural Resources and Environment Tasmania |
| tissue_collection_type | Captive |
| tissue_number | 21-0168_gonads |
| tissue_preservation | RNALater |
| tissue_preservation_temperature | -80C |
| tissue_type | Gonads |
| wild_captive | captive |
| work_order | 14031 |