JSON

OMG Exon Capture Raw 102.100.100/364468 BHYCGCDRXX CAGGAGG

Antechinus agilis, NMV Z27333 Australia Victoria

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 102.100.100/364468
bpa_sample_id 102.100.100/362297
bpa_work_order 40074
class Mammalia
collection_date 2013-11-22
collection_method unknown
collector unknown
collector_sample_id KCR2120
common_name Agile antechinus
contextual_data_submission_date
coord_uncertainty_metres
country Australia
custodian Kevin Rowe
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 321.0
dna_extracted_by Liz Broady
dna_extraction_date 2020-09-07
dna_extraction_method salting out
dna_treatment 16 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 364468_BHYCGCDRXX_CAGGAGG
family Dasyuridae
file
flowcell_id BHYCGCDRXX
folder_name A00548_0147_LBroady_52647_Marsupial_gDNA
genome_data no
genome_dataset_ids NA
genus Antechinus
habitat
identified_by unknown
institution_name Museums Victoria
latitude -36.817922
library_comments qPCR results indicate that the target capture and enrichment was successful
library_location EBL main freezer
library_ng_ul 68.2
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 Alpine National Park, Cobberas Trapline
longitude 148.14233
n_libraries_pooled 288
omg_project Marsupial phylogenetics
order Dasyuromorphia
p5_library_index_id P5_indexing20
p5_library_index_sequence CATGCTC
p5_library_oligo_sequence AATGATACGGCGACCACCGAGATCTACACgagcatgACACTCTTTCCCTACACGACGCTCTT
p7_library_index_id P7_indexing37
p7_library_index_sequence CAGGAGG
p7_library_oligo_sequence CAAGCAGAAGACGGCATACGAGATcctcctgGTGACTGGAGTTCAGACGTGT
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 Female
software_version unknown
source_population
species agilis
species_name Antechinus agilis
state_or_region Victoria
subspecies_or_variant
taxon_id 400481
taxonomic_group marsupial
ticket BPAOPS-1032
tissue_collection Mammalogy
tissue_number NMV Z27333
tissue_preservation ethanol
tissue_type Adrenal, Kidney, Spleen
trace_lab no
type_status
voucher_id
voucher_number check
voucher_or_tissue_number NMV Z27333
wild_captive unknown