Christmas Island Rat, Phylogenomics, exon capture, toe pad
Dataset size is: 171.21 MiB
Data and Resources
-
55246_H53KCAFX2_GGATCAA_S4_L004_... Metadata Only FASTQ
-
55246_H53KCAFX2_GGATCAA_S4_L001_... Metadata Only FASTQ
-
55246_H53KCAFX2_GGATCAA_S4_L004_... Metadata Only FASTQ
-
55246_H53KCAFX2_GGATCAA_S4_L003_... Metadata Only FASTQ
-
55246_H53KCAFX2_GGATCAA_S4_L002_... Metadata Only FASTQ
-
55246_H53KCAFX2_GGATCAA_S4_L001_... Metadata Only FASTQ
-
55246_H53KCAFX2_GGATCAA_S4_L003_... Metadata Only FASTQ
-
55246_H53KCAFX2_GGATCAA_S4_L002_... Metadata Only FASTQ
-
OMG_library_metadata_52625_CORRE... Metadata Only XLSX
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 | 2021-04-06 |
| Access Control Mode | date |
| Sequence Data Type | illumina-exoncapture |
| access_rights | no restrictions |
| ala_specimen_url | NA |
| ancillary_notes | NA |
| archive_ingestion_date | 2020-04-06 |
| associated_media | NA |
| barcode_id | NA |
| base_url | https://downloads-qcif.bioplatforms.com/bpa/omg_staging/exon_capture/brf/BPAOPS-895/ |
| birth_date | unknown |
| bpa_dataset_id | 102.100.100/52625 |
| bpa_library_id | 102.100.100/55246 |
| bpa_sample_id | 102.100.100/56521 |
| bpa_work_order | 40056 |
| class | Mammalia |
| collection_date | 1897-11-30 |
| collection_method | unknown |
| collector | unknown |
| collector_sample_id | NA |
| common_name | Christmas Island Rat |
| coord_uncertainty_metres | 10000.0 |
| country | Australia |
| custodian | Mark Eldridge | Australian Museum |
| data_custodian | Kevin Rowe |
| data_generated | 2020-04-06 |
| data_type | Illumina FASTQ |
| dataset_url | (ingested) |
| date_of_transfer | 2020-04-06 |
| ddrad_data | no |
| ddrad_dataset_ids | NA |
| death_date | unknown |
| description | Nextseq500 150PE - exon capture marsupial |
| dna_conc_ng_ul | 1.53 |
| dna_extracted_by | Kevin C Rowe |
| dna_extraction_date | 2019-07-29 |
| dna_extraction_method | Phenol Chloroform Isoamyl |
| dna_treatment | 0 bioruptor cycles |
| exon_capture_data | yes |
| exon_capture_dataset_ids | 52625.0 |
| experimental_design | Nimblegen Exon Capture – dual index |
| facility | brf |
| facility_sample_id | 55246_H53KCAFX2_GGATCAA |
| family | Muridae |
| file | 55246_H53KCAFX2_GGATCAA_S4_L001_R1_001.fastq.gz | 55246_H53KCAFX2_GGATCAA_S4_L001_R2_001.fastq.gz | 55246_H53KCAFX2_GGATCAA_S4_L002_R1_001.fastq.gz | 55246_H53KCAFX2_GGATCAA_S4_L002_R2_001.fastq.gz |
| flowcell_id | H53KCAFX2 |
| folder_name | NB501086_0362_AMacDonald_OzMammals_Rodent_gDNA_exon_capture |
| genome_data | no |
| genome_dataset_ids | NA |
| genus | Rattus |
| habitat | unknown |
| identified_by | Sandy Ingleby |
| institution_name | Australian Museum |
| latitude | -10.43 |
| library_comments | library ng/µL for 200-800 bp range |
| library_location | ANU EBL |
| library_ng_ul | 6.66089936 |
| library_pcr_cycles | 15.0 |
| 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 | Christmas Island, Flying Fish Cove |
| longitude | 105.67 |
| n_libraries_pooled | 60 |
| omg_project | Phylogenomics |
| order | Rodentia |
| p5_library_index_id | 04 |
| p5_library_index_sequence | GGATCAA |
| p5_library_oligo_sequence | AATGATACGGCGACCACCGAGATCTACACttgatccACACTCTTTCCCTACACGACGCTCTT |
| p7_library_index_id | 04 |
| p7_library_index_sequence | GGATCAA |
| p7_library_oligo_sequence | CAAGCAGAAGACGGCATACGAGATttgatccGTGACTGGAGTTCAGACGTGT |
| phylum | Chordata |
| prior_genetics | unknown |
| sample_quality | highly degraded |
| sample_submission_date | 2020-04-06 |
| sequence_length | 150bp PE |
| sequencing_facility | BRF |
| sequencing_platform | Illumina NextSeq mid output 300 cycle |
| sex | male |
| software_version | unknown |
| source_population | unknown |
| species | macleari |
| species_name | Rattus macleari |
| state_or_region | Western Australia |
| subspecies_or_variant | NA |
| taxon_id | 10114 |
| taxonomic_group | rodent |
| ticket | BPAOPS-895 |
| tissue_collection | Mammalogy |
| tissue_number | AM M.21676 |
| tissue_preservation | dried |
| tissue_type | toe pad |
| trace_lab | no |
| type_status | unknown |
| voucher_number | AM M.21676 |
| voucher_or_tissue_number | AM M.21676 |
| wild_captive | wild |