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OMG 10x Raw 102.100.100/40068 10X_HJJCWALXX

102.100.100/52870 Petrogale penicillata, ANWC M16835 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 illumina-10x
access_rights NA
ala_species_name
ala_specimen_url NA
ancillary_notes Multiple extractions for this specimen | Wild caught, died in captivity at Macquarie University | voucher at ANWC
archive_ingestion_date 2017-08-17
associated_media NA
barcode_id NA
base_url https://downloads-qcif.bioplatforms.com/bpa/omg_staging/10x_raw/BPAOPS-283/
birth_date unknown
bpa_dataset_id 102.100.100/40127
bpa_library_id 102.100.100/52870
bpa_sample_id 102.100.100/40068
bpa_work_order 40004
class Mammalia
collection_date 1987-06-15
collection_method cage trap
collector Robert L Close | Mark Eldridge
collector_sample_id S766, X66
common_name Brush-tailed rock-wallaby
contextual_data_submission_date
coord_uncertainty_metres unknown
country Australia
custodian Mark Eldridge | Australian Museum
data_custodian Janine Deakin | Sally Potter
data_generated 2017-08-17
data_type Illumina FASTQ
dataset_url https://data.bioplatforms.com/dataset/bpa-omg-10x-raw-102_100_100_40066-10x_hjjcwalxx
date_of_transfer 2017-08-07
ddrad_data no
ddrad_dataset_ids NA
death_date 1987-06-15
description 10X Genomics- 102.100.100/40066
dna_conc_ng_ul 21.1
dna_extracted_by Sally Potter
dna_extraction_date 2017-02-13
dna_extraction_method Qiagen genomic tip
dna_treatment >50kb size selection
exon_capture_data no
exon_capture_dataset_ids NA
experimental_design 10X Chromium, 2 lanes HiSeq Xten
facility_sample_id unknown
family Macropodidae
file
flow_id 10X_HJJCWALXX
flowcell_id 10X_HJJCWALXX
folder_name 40066_OMG_UNSW_10X_HJJCWALXX
genome_data yes
genome_dataset_ids 40127.0
genus Petrogale
habitat unknown
identified_by Robert L Close | Mark Eldridge
institution_name Australian Museum
latitude -33.82
library_comments Data portal has wrong BPA_sample_ID
library_index_id NA
library_index_sequence NA
library_location Ramaciotti
library_ng_ul unknown
library_oligo_sequence NA
library_pcr_cycles NA
library_pcr_reps NA
library_prep_date
library_prep_method 10X Chromium
library_prepared_by Ramaciotti
library_status Sequenced
library_type genome linked read
life_stage adult organism
location_generalisation
location_text Jenolan Caves
longitude 150.03
n_libraries_pooled 1
omg_project Whole genomes
order Diprotodontia
phylum Chordata
prior_genetics CytB Genbank accession JQ042125.1 | ND2 Genbank accession JQ042148.1 | CO1 Genbank accession JQ042171.1 | BRCA1 Genbank accession JQ42194.1 | Omega globin Genbank accession JQ042217.1 | SRA accession SRX2512313 | PMID 11742554 | PMID 22122943 | PMID 24772286 | PMID 8830099 | PMID 28265284 | DOI: 10.1071/ZO01034 | DOI:10.1071/ZO00078 | DOI:10.1644/1545-1542(2002)083<0437:MGAOTN>2.0.CO;2 | DOI:10.1071/WR03030 |
sample_quality good
sample_submission_date 2017-08-07
sequence_length 150bp PE
sequencing_facility Ramaciotti
sequencing_platform Illumina HiSeq Xten
sex male
software_version Illumina bcl2fastq 2.16.0
source_population Jenolan Caves
species penicillata
species_name Petrogale penicillata
state_or_region New South Wales
subspecies_or_variant cESU
taxon_id 54088
taxonomic_group marsupial
ticket BPAOPS-283
tissue_collection EBU
tissue_number EBU35579
tissue_preservation frozen
tissue_type liver
trace_lab no
type_status unknown
voucher_id
voucher_number ANWC M16835
voucher_or_tissue_number ANWC M16835
wild_captive semi_captive