JSON
OMG Genomics HiSeq Raw 102.100.100/40066 HHFC5ALXX
Data and Resources
Additional Info
| Field | Value |
|---|---|
| Geospatial Coverage |
Dataset extentMap tiles & Data by OpenStreetMap, under CC BY SA.
|
| Resource Permissions | organization_member |
| access_rights | NA |
| ala_species_name | |
| ala_specimen_url | NA |
| ancillary_notes | Wild caught, died in captivity at Macquarie University | voucher at ANWC |
| archive_ingestion_date | |
| associated_media | NA |
| barcode_id | NA |
| base_url | https://downloads-qcif.bioplatforms.com/bpa/omg_staging/genomics/raw/ramaciotti/BPAOPS-213/ |
| birth_date | unknown |
| bpa_dataset_id | 102.100.100/40126 |
| bpa_library_id | 102.100.100/52869 |
| bpa_sample_id | 102.100.100/40066 |
| bpa_work_order | |
| 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 |
| conservation_sample | no |
| conservation_status | NA |
| contextual_data_submission_date | |
| coord_uncertainty_metres | unknown |
| country | Australia |
| custodian | Mark Eldridge |
| data_custodian | Janine Deakin | Sally Potter |
| data_generated | |
| data_type | |
| dataset_url | |
| date_of_transfer | |
| death_date | 1987-06-15 |
| description | |
| dna_conc_ng_ul | 89.2 |
| dna_extracted_by | Sally Potter |
| dna_extraction_date | 2017-02-20 |
| dna_extraction_method | Bioline kit |
| dna_treatment | NA |
| experimental_design | 2 lanes HiSeq XTen (150bp PE) |
| facility_sample_id | FR07935831 |
| family | Macropodidae |
| flow_id | HHFC5ALXX |
| flowcell_id | HHFC5ALXX |
| folder_name | |
| genome_sample | yes |
| genome_status | data available |
| genus | Petrogale |
| habitat | unknown |
| identified_by | Robert L Close | Mark Eldridge |
| institution_name | Australian Museum |
| latitude | 150.03 |
| library_comments | NA |
| 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 | TruSeq DNA PCR-Free |
| library_prepared_by | Ramaciotti |
| library_status | Data available |
| library_type | genome short read |
| life_stage | adult organism |
| location_generalisation | |
| location_text | Jenolan Caves |
| longitude | -33.82 |
| n_libraries_pooled | 1.0 |
| omg_project | Whole genomes |
| order | Diprotodontia |
| phylogenomic_sample | no |
| phylogenomic_status | NA |
| 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 | |
| sequence_length | 150bp PE |
| sequencing_facility | UNSW/Kinghorn |
| 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 | NA |
| taxon_id | |
| taxonomic_group | marsupial |
| ticket | ramaciotti |
| tissue_collection | EBU |
| tissue_number | EBU35579 |
| tissue_preservation | frozen |
| tissue_type | liver |
| trace_lab | no |
| type_status | |
| voucher_number | ANWC M16835 |
| voucher_or_tissue_number | EBU35579 |
| wild_captive | semi_captive |