Common Eastern Froglet, Reference genome, Illumina-HiC, heart

Myobatrachidae, Crinia signifera, A4129, frog, Project Lead: Tiffany Kosch

Dataset size is: 86.41 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:10:ausarg-consortium-members
Access Control Date 2023-12-29
Access Control Mode date
Sequence Data Type illumina-hic
access_rights No restrictions
ala_specimen_url NA
analysis_software Bcl2Fastq
ancillary_notes NA
associated_media NA
barcode_id NA
base_url https://downloads-qcif.bioplatforms.com/bpa/ausarg_staging/genomics-hi-c/BPAOPS-1538/20231215_AusARG_BRF_222VJYLT4/20231215_AusARG_BRF_351901_222VJYLT4/
bioplatforms_dataset_id multiple (11x)
bioplatforms_library_id multiple (11x)
bioplatforms_sample_id multiple (11x)
certainty medium-high, testes-like structures
class Amphibia
collection_date 2023-10-04
collection_method Collected from wild by hand
collector Tiffany Kosch | Melissa Hernandez Poveda | University of Melbourne | Ben Scheele | Australian National University
collector_sample_id crsi_2
common_name Common Eastern Froglet
country Australia
data_context Reference genome
data_custodian Tiffany Kosch
data_type Illumina-HiC
dataset_id 102.100.100/351901
date_of_transfer 2023-12-19
date_of_transfer_to_archive 2023-12-22
death_date 2023-10-04
description HiC
dna_treatment FA crosllinking restriction enzymes and sonication
experimental_design Arima HiC 2.0 single index
facility BRF
facility_project_code NA
facility_sample_id 456747_AusARG_BRF_222VJYLT4_CAAGGTGA
family Myobatrachidae
file_type fastq.gz
flowcell_id 222VJYLT4
flowcell_type NovaSeq X 25B
folder_name 20231215_AusARG_BRF_222VJYLT4
genotypic_sex male
genus Crinia
habitat Alpine Sphagnum Bogs and Associated Fens Ecological Community
identified_by Ben Scheele
insert_size_range ~900bp
institution_name University of Melbourne
library_comments Concentration and size was assesd by Bioanalyzer and Qubit
library_construction_protocol Arima HiC 2.0
library_id 456747
library_index_id index_1
library_index_seq CAAGGTGA
library_layout paired-end
library_location Freezer at BRF
library_ng_ul 5.9
library_oligo_sequence GATCGGAAGAGCACACGTCTGAACTCCAGTCACCAAGGTGA(AT)CTCGTATGCCGTCTTCTGCTTG
library_pcr_cycles 6
library_pcr_reps 1
library_prep_date 2023-11-20
library_prepared_by Max Nekrasov
library_selection Restriction Digest
library_source GENOMIC
library_strategy Hi-C
library_type Illumina-HiC
lifestage adult
location_text Snowy Flats, Namadgi National Park
material_conc_ng_ul NA
material_extracted_by BRF
material_extraction_method NA
material_extraction_type DNA
metadata_revision_date 2024-11-15
metadata_revision_filename AusARG_Metadata_master_QCIF_20241115_FORDATAPORTAL.xlsx
method_of_determination dissection
n_libraries_pooled 11
order Anura
phenotypic_sex male
phylum Chordata
prior_genetics NA
project_aim Reference genome
sample_custodian Tiffany Kosch
sample_id 102.100.100/458258
sample_quality fresh frozen
scientific_name Common eastern froglet (Crinia signifera), Eungella Leaf-tailed Gecko (Phyllurus nephtys), Southern ornate nursery frog (Cophixalus australis), Gehyra sp. x8
sequencing_facility BRF
sequencing_kit_chemistry_version NovaSeq X series 25B 300 cycles
sequencing_model Illumina NovaSeq X
sequencing_platform ILLUMINA
source_population NA
species signifera
specimen_id A4129
specimen_id_description ANWC
state_or_region Australia Capital Territory
subspecies NA
taxon_id 326986
taxonomic_group frog
ticket BPAOPS-1538
tissue_number crsi_2_heart
tissue_preservation flash_frozen
tissue_type heart
type_status NA
voucher_or_tissue_number A4129
wild_captive wild-caught
work_order 13072