JSON

OMG Exon Capture Raw 102.100.100/364448 BHYCGCDRXX GCCTACG

Thylogale stigmatica, AM M.38916.001 Australia New South Wales

Data and Resources

Additional Info

Field Value
Geospatial Coverage

Dataset extent

Map tiles & Data by OpenStreetMap, under CC BY SA.
Resource Permissions organization_member
Sequence Data Type
access_rights
ala_species_name
ala_specimen_url
ancillary_notes
archive_ingestion_date 2021-03-03
associated_media
barcode_id
base_url https://downloads-qcif.bioplatforms.com/bpa/omg_staging/exon_capture/brf/BPAOPS-1032/
birth_date
bpa_dataset_id 102.100.100/52647
bpa_library_id 102.100.100/364448
bpa_sample_id 102.100.100/362277
bpa_work_order 40074
class Mammalia
collection_date 2002-10-22
collection_method ROAD KILL
collector SUSANNE ULYATT | National Parks and Wildlife Service - Lismore
collector_sample_id
common_name Red-legged pademelon
contextual_data_submission_date
coord_uncertainty_metres
country Australia
custodian Mark Eldridge
data_custodian Mark Eldridge
data_generated 2021-03-03
data_type Illumina FASTQ
dataset_url
date_of_transfer 2021-02-11
ddrad_data no
ddrad_dataset_ids NA
death_date
description Novaseq 6000 A00548_0147_LBroady_52647_Marsupial_gDNA
dna_conc_ng_ul 0.5
dna_extracted_by Liz Broady
dna_extraction_date 2020-09-24
dna_extraction_method salting out
dna_treatment 6 biorupter cycles
exon_capture_data yes
exon_capture_dataset_ids 52647.0
experimental_design Nimblegen Exon Capture, marsupial probes V2, dual indexed
facility brf
facility_sample_id 364448_BHYCGCDRXX_GCCTACG
family Macropodidae
file
flowcell_id BHYCGCDRXX
folder_name A00548_0147_LBroady_52647_Marsupial_gDNA
genome_data no
genome_dataset_ids NA
genus Thylogale
habitat
identified_by unknown
institution_name Australian Museum
latitude -28.55
library_comments qPCR results indicate that the target capture and enrichment was successful
library_location EBL main freezer
library_ng_ul 78.0
library_pcr_cycles 12.0
library_pcr_reps 2.0
library_prep_date 2021-01-11
library_prep_method Meyer and Kircher protocol
library_prepared_by Liz Broady
library_status Ready for sequencing
library_type Exon Capture
life_stage
location_generalisation
location_text Wilsons Creek Road, Wilsons Creek, Northern NSW
longitude 153.43
n_libraries_pooled 288
omg_project Marsupial phylogenetics
order Diprotodontia
p5_library_index_id P5_indexing16
p5_library_index_sequence TAATGCG
p5_library_oligo_sequence AATGATACGGCGACCACCGAGATCTACACcgcattaACACTCTTTCCCTACACGACGCTCTT
p7_library_index_id P7_indexing67
p7_library_index_sequence GCCTACG
p7_library_oligo_sequence CAAGCAGAAGACGGCATACGAGATcgtaggcGTGACTGGAGTTCAGACGTGT
phylum Chordata
prior_genetics
sample_quality unknown
sample_submission_date 2021-02-11
sequence_length 100bp PE
sequencing_facility BRF
sequencing_platform Illumina NovaSeq SP 200 cycle
sex
software_version unknown
source_population
species stigmatica
species_name Thylogale stigmatica
state_or_region New South Wales
subspecies_or_variant wilcoxi South
taxon_id 926686
taxonomic_group marsupial
ticket BPAOPS-1032
tissue_collection Mammalogy
tissue_number EBU 47438
tissue_preservation unknown
tissue_type unknown
trace_lab no
type_status
voucher_id
voucher_number AM M.38916.001
voucher_or_tissue_number AM M.38916.001
wild_captive unknown