Mangrove Blue Eye, Reference genome, Illumina-HiC, fin

Pseudomugilidae, Pseudomugil halophilus, PH2423.G1, Fish, Project Lead: Michael Hammer

Dataset size is: 0.00 Bit

Log in or Register to access resource
 
 

 

Data and Resources

Please see the initiative Data Policy for attribution information.

Additional Info Show Blank Fields

Field Value
Resource Permissions organization_member
Access Control Date 2026-08-20
Access Control Mode date
Sequence Data Type illumina-hic
ancillary_notes NA
associated_media NA
base_url https://downloads-qcif.bioplatforms.com/bpa/fish_staging/genomics-hi-c/BPAOPS-1875/20250820-232K7NLT3-WO27005-WO14101/20250820_FISH_BRF_618632_232K7NLT3/
bioplatforms_dataset_id 102.100.100/618632
bioplatforms_library_id 102.100.100/616646
bioplatforms_project Australian Fish Genomics Initiative
bioplatforms_project_ncbi_umbrellabioproject_id PRJNA1098053
bioplatforms_sample_id 102.100.100/614641
ccg_jira_ticket BPAOPS-1875
class Actinopterygii
collection_date 2024-09-26
collection_method Seine net
collection_permit AEC 202414067
collector Peter Unmack, Matthew McGee
collector_sample_id PU24-23
common_name Mangrove Blue Eye
country Australia
data_context Reference genome
data_type Illumina-HiC
date_of_transfer 2025-08-20
date_of_transfer_to_archive 2025-08-25
death_date 2025-06-23
decimal_latitude_public -21.1632415545
decimal_longitude_public 149.1872618635
dna_treatment FA crosslinking
env_broad_scale marine biome [ENVO_00000447]
env_local_scale estuarine biome [ENVO_01000020]
env_medium ??
facility_project_code NA
facility_sample_id 616646_FISH_BRF_232K7NLT3_CTACAATG-GACTTGAC
family Pseudomugilidae
flowcell_id 232K7NLT3
flowcell_type NovaSeq X 10B
folder_name 20250820-232K7NLT3-WO27005-WO14101
genotypic_sex not determined
genus Pseudomugil
health_state healthy
identified_by Peter Unmack
insert_size_range ~600bp
latitude -21.1632415545
library_construction_protocol HiC Arima 2.0
library_id 616646
library_index_id Arima_14_F02
library_index_id_dual Arima_14_F02
library_index_seq CTACAATG
library_index_seq_dual GACTTGAC
library_layout Paired end
library_location BRF Freezer
library_ng_ul 1.0
library_oligo_sequence CAAGCAGAAGACGGCATACGAGATctacaatgCTGTCTCTTATACACATCTCCGAGCCCACGAGAC
library_oligo_sequence_dual AATGATACGGCGACCACCGAGATCTACACgacttgacTCGTCGGCAGCGTCAGATGTGTATAAGAGACAG
library_pcr_cycles 8
library_pcr_reps 1
library_prepared_by Max Nekrasov
library_selection Restriction digest
library_source GENOMIC
library_strategy HiC
library_type Illumina-HiC
lifestage adult
location_info_restricted no
location_text drain on north side of Mackay airport, off Bridge Road just above where the drain turns south
longitude 149.1872618635
material_extracted_by ANU-BRF
material_extraction_date 2025-06-23
material_extraction_type DNA
metadata_revision_date 2025-07-24
metadata_revision_filename 20250724_FISH_Sample_metadata_COMBINED-FOR-PORTAL_NOLATLON.xlsx
method_sex_determination obvious from external characters
n_libraries_pooled 1
order Ovalentaria
phenotypic_sex male
phylum Chordata
project_collaborators Peter Unmack, Matthew McGee
project_lead Michael Hammer
sample_collection_type University
sample_custodian Peter Unmack, Matthew McGee
sample_id PH2423.G1_fin
sample_id_description Peter Unmack field code
sample_quality high
sample_type tissue sample
scientific_name Pseudomugil halophilus
sequencing_facility BRF
sequencing_model NovaSeq X
sequencing_platform Illumina
sex_certainty 1.0
species halophilus
specimen_custodian Peter Unmack, Matthew McGee
specimen_id PH2423.G1
specimen_id_description Peter Unmack field code
state_or_region QLD
taxon_id 3240756
taxonomic_group Fish
ticket BPAOPS-1875
tissue fin
tissue_preservation Nitrogen
tissue_preservation_temperature -196.0
wild_captive wild
work_order 27005