Giant white-tailed rat, Phylogenomics, exon capture, liver
Dataset size is: 703.30 MiB
Data and Resources
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55170_H55FWAFX2_CAATATG_S22_L001... Metadata Only FASTQ
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55170_H55FWAFX2_CAATATG_S22_L004... Metadata Only FASTQ
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OMG_library_metadata_52624.xlsx Metadata Only XLSX
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55170_H55FWAFX2_CAATATG_S22_L003... Metadata Only FASTQ
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55170_H55FWAFX2_CAATATG_S22_L002... Metadata Only FASTQ
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55170_H55FWAFX2_CAATATG_S22_L001... Metadata Only FASTQ
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55170_H55FWAFX2_CAATATG_S22_L003... Metadata Only FASTQ
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55170_H55FWAFX2_CAATATG_S22_L004... Metadata Only FASTQ
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55170_H55FWAFX2_CAATATG_S22_L002... Metadata Only FASTQ
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 |
|---|---|
| Geospatial Coverage |
Dataset extentMap tiles & Data by OpenStreetMap, under CC BY SA.
|
| Resource Permissions | organization_member_after_embargo:archive_ingestion_date:365:omg-consortium-members |
| Access Control Date | 2021-04-01 |
| Access Control Mode | date |
| Sequence Data Type | illumina-exoncapture |
| access_rights | no restrictions |
| ala_specimen_url | NA |
| ancillary_notes | NA |
| archive_ingestion_date | 2020-04-01 |
| associated_media | NA |
| barcode_id | NA |
| base_url | https://downloads-qcif.bioplatforms.com/bpa/omg_staging/exon_capture/brf/BPAOPS-894/ |
| birth_date | unknown |
| bpa_dataset_id | 102.100.100/52624 |
| bpa_library_id | 102.100.100/55170 |
| bpa_sample_id | 102.100.100/42010 |
| bpa_work_order | 40056 |
| class | Mammalia |
| collection_date | 2006-08-30 |
| collection_method | unknown |
| collector | Steve Hamilton |
| collector_sample_id | NA |
| common_name | Giant white-tailed rat |
| coord_uncertainty_metres | unknown |
| country | Papua New Guinea |
| custodian | Mark Eldridge | Australian Museum |
| data_custodian | Kevin Rowe |
| data_generated | 2020-04-01 |
| data_type | Illumina FASTQ |
| dataset_url | (ingested) |
| date_of_transfer | 2020-04-01 |
| ddrad_data | no |
| ddrad_dataset_ids | NA |
| death_date | unknown |
| description | Nextseq500 150PE - exon capture marsupial |
| dna_conc_ng_ul | 5.9066666667 |
| dna_extracted_by | Amy Adams |
| dna_extraction_date | 2019-07-02 |
| dna_extraction_method | Qiagen DNEasy |
| dna_treatment | 10 bioruptor cycles |
| exon_capture_data | yes |
| exon_capture_dataset_ids | 52624.0 |
| experimental_design | Nimblegen Exon Capture – single index |
| facility | brf |
| facility_sample_id | 55170_H55FWAFX2_CAATATG |
| family | Muridae |
| file | 55170_H55FWAFX2_CAATATG_S22_L001_R1_001.fastq.gz | 55170_H55FWAFX2_CAATATG_S22_L001_R2_001.fastq.gz | 55170_H55FWAFX2_CAATATG_S22_L002_R1_001.fastq.gz | 55170_H55FWAFX2_CAATATG_S22_L002_R2_001.fastq.gz |
| flowcell_id | H55FWAFX2 |
| folder_name | NB501086_0361_AMacDonald_OzMammals_Rodent_gDNA_exon_capture |
| genome_data | no |
| genome_dataset_ids | NA |
| genus | Uromys |
| habitat | unknown |
| identified_by | Steve Hamilton |
| institution_name | Australian Museum |
| library_comments | library ng/µL for 200-800 bp range |
| library_location | ANU EBL |
| library_ng_ul | 17.274157534 |
| library_pcr_cycles | 12.0 |
| library_pcr_reps | 2.0 |
| library_prep_date | 2019-09-27 |
| library_prep_method | Meyer and Kircher protocol |
| library_prepared_by | Kevin Rowe |
| library_status | Data available |
| library_type | exon capture |
| life_stage | not determined |
| location_generalisation | 1km |
| location_text | Mibini |
| n_libraries_pooled | 94 |
| omg_project | Phylogenomics |
| order | Rodentia |
| p5_library_index_id | NA |
| p5_library_index_sequence | NA |
| p5_library_oligo_sequence | NA |
| p7_library_index_id | 24.0 |
| p7_library_index_sequence | CAATATG |
| p7_library_oligo_sequence | CAAGCAGAAGACGGCATACGAGATcatattgGTGACTGGAGTTCAGACGTGT |
| phylum | Chordata |
| prior_genetics | unknown |
| sample_quality | good |
| sample_submission_date | 2020-04-01 |
| sequence_length | 150bp PE |
| sequencing_facility | BRF |
| sequencing_platform | Illumina NextSeq mid output 300 cycle |
| sex | female |
| software_version | unknown |
| source_population | unknown |
| species | caudimaculatus |
| species_name | Uromys caudimaculatus |
| state_or_region | Western Province |
| subspecies_or_variant | NA |
| taxon_id | 36800 |
| taxonomic_group | rodent |
| ticket | BPAOPS-894 |
| tissue_collection | Mammalogy |
| tissue_number | AM M.49883 |
| tissue_preservation | ethanol | frozen |
| tissue_type | liver |
| trace_lab | no |
| type_status | unknown |
| voucher_number | AM M.49883 |
| voucher_or_tissue_number | AM M.49883 |
| wild_captive | wild |