Swift parrot, Transcriptome, Illumina FASTQ, Gonads

Psittaculidae, Lathamus discolor, 21-0168, Bird, Project Lead: Carolyn Hogg

Dataset size is: 17.93 GiB

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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