Nightcap oak, Reference genome, Pacbio HiFi
Dataset size is: 45.23 GiB
Data and Resources
This data is made available openly under a Creative Commons Attribution license.
Please see the initiative
Data Policy
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Additional Info Show Blank Fields
| Field | Value |
|---|---|
| Resource Permissions | organization_member_after_embargo:date_of_transfer_to_archive:365:tsi-consortium-members |
| Access Control Date | 2022-11-04 |
| Access Control Mode | date |
| Sequence Data Type | pacbio-hifi |
| analysis_software | SMRT Link Analysis |
| analysis_software_version | 10.1.0.119588 |
| base_url | https://downloads-qcif.bioplatforms.com/bpa/tsi_staging/pacbio-hifi/BPAOPS-1160/2021113_TSI_CAGRF21087817_DA106723/358492_TSI_AGRF_DA106723_HiFi_metadata/ |
| cell_postion | A01 |
| class | Magnoliopsida |
| collection_date | 2021-05-31 |
| collector | Samantha Yap |
| common_name | Nightcap oak |
| country | Australia |
| data_context | Reference genome |
| data_custodian | Agnelo Furtado, UQ |
| data_type | Pacbio HiFi |
| dataset_id | 102.100.100/358754 |
| date_of_transfer | 2021-11-04 |
| date_of_transfer_to_archive | 2021-11-04 |
| dna_treatment | SHEARING |
| experimental_design | NA |
| facility_project_code | QAGRF21087817 |
| facility_sample_id | 358492.0 |
| family | Proteaceae |
| file_type | BAM |
| flowcell_id | DA106723 |
| flowcell_type | SMRT Cell 8M |
| folder_name | 2021113_TSI_CAGRF21087817_DA106723 |
| genus | Eidothea |
| insert_size_range | 11278.0 |
| institution_name | QAAFI, The University of Queensland |
| library_comments | Library Sequenced |
| library_construction_protocol | Preparing HiFi SMRTbell® Libraries using SMRTbell Express Template Prep Kit 2.0 |
| library_id | 102.100.100/358492 |
| library_index_id | NA |
| library_index_sequence | NA |
| library_layout | NA |
| library_location | AGRF |
| library_ng_ul | 15.6 |
| library_oligo_sequence | NA |
| library_pcr_cycles | NA |
| library_pcr_reps | NA |
| library_prepared_by | Trent Peters |
| library_selection | size fractionation |
| library_source | GENOMIC |
| library_strategy | Preparing HiFi SMRTbell® Libraries using SMRTbell Express Template Prep Kit 2.0 |
| library_type | WGS |
| location_text | Information of the individual at Sydney Botanical Garden: Accession number: AA 20010147/1 AUS: New South Wales, North Coast, Nightcap Range., 28 33 S | 153 20 E Collector: Robert Kooyman Collected date: 12/12/2005 |
| material_conc_ng_ul | 50.0 |
| material_extracted_by | Agnelo Furtado |
| material_extraction_date | 2021-06-22 |
| material_extraction_method | CTAB Furtado, A. (2014) DNA Extraction from Vegetative Tissue for Next-Generation Sequencing. In: Cereal Genomicsvol. 1099 (Henry, R. J. and Furtado, A., eds.), pp. 1-5: Humana Press. |
| metadata_revision_date | 2023-11-30 |
| metadata_revision_filename | 20231130_Sample_metadata_COMBINED-FOR-PORTAL_NOLATLON.xlsx |
| movie_length | 30HRS |
| n_libraries_pooled | 1.0 |
| order | Proteales |
| phylum | Streptophyta |
| sample_custodian | Robert Henry, QAAFI |
| sample_id | 102.100.100/356397 |
| sample_quality | Some DNA degradation and some impurity |
| sample_type | Genomic DNA |
| scientific_name | Eidothea hardeniana |
| scientific_name_authorship | Weston & Kooyman 2002 |
| scientific_name_note | P.H.Weston & Kooyman, Telopea 9(4): 826 (2002). |
| sequencing_facility | AGRF |
| sequencing_kit_chemistry_version | Sequel II Sequencing Plate 2.0 |
| sequencing_model | PacBio Sequel II |
| sequencing_platform | PACBIO_SMRT |
| species | hardeniana |
| specimen_id | QAAFIEhard1 |
| specimen_id_description | QAAFI, The University of Queensland |
| state_or_region | New South Wales |
| taxon_id | 298684.0 |
| taxonomic_group | Plant |
| ticket | BPAOPS-1160 |
| tissue_collection | Sydney Botanical Gardens |
| tissue_collection_type | Leaf |
| work_order | 14016 |