Provenance: ipa1.ireceptor.org

  • 2021-03-03
    • DeKosky et al., Study ID PRJNA260556 - Metadata and sequence data for this study have been removed from IPA1. The data is still available in the AIRR Data Commons, as the data was stored on both IPA1 and VDJServer.
  • 2021-02-04
    • All studies: Study title (study_title) was updated for all studies to include the last name of the first author to facilitate searching. Field Study Contact was added (emerging AIRR field) that lists a contact person for each study was added. Lab name and Lab address were updated for consistency.
  • 2020-08-25
    • PRJNA368623: An error in the study title and publication link as corrected, updated study_title to "Stereotyped antibody responses target posttranslationally modified gluten in celiac disease" and the pub_id to "PMID: 28878138"
    • PRJEB8745 and PRJNA275625 - updated study_type to "Animal Study" and the ontology ID to "NCIT:C93130" as per the AIRR recommendations. This was formally a Case/Control study but the Ontology reserves this study type for human subjects only.
  • 2020-06-04
  • 2020-01-16
    • For the following studies, the software_versions incorrectly recorded that the repertoire was annotated with igblast v1.8.0 when the annotation was done with IMGT/V-QUEST (either v3.4.17, v3.4.15, v3.4.13, v3.4.11, v3.4.8, v3.4.3). The software_versions for the following studies were updated to fix this problem:
      • Tipton et al., Study ID PRJNA280743
      • Chang et al., Study ID PRJEB9332
      • Palanichamy et al., Study ID PRJNA248411
      • Bashford-Rogers et al., Study ID PRJEB1289
      • Michaeli et al., Study ID PRJNA206548
      • Kwong et al., Study ID PRJNA188191
      • Boyd et al., Study ID SRP001460
      • Valdes-Aleman et al., Study ID PRJNA275625
      • Collins et al., Study ID PRJEB8745
      • DeKosky et al., Study ID PRJNA260556
      • Omri Snir et al., Study ID PRJNA368623
  • 2019-10-16
    • AIRR TSV downloads that occurred before 2019-10-16 would have contained a correct Junction NT Length (AIRR field junction_length) but the junction NT sequence (AIRR field junction) would have been returned as a empty string in the AIRR TSV download file. This problem has been fixed. The problem would have occurred for all studies. Note that the AA junction (AIRR field junction_aa) and AA junction length (AIRR filed junction_aa_length) were returned correctly.
  • 2019-07-29
    • paired_reads_assembly: Changed to follow AIRR Community naming conventions- was previously paired_read_assembly for all studies
  • 2019-06-11
  • 2019-04-22 to 2019-04-30
    • IPA1 down due to hardware problem with our service provider, data was not available during this time period.
  • 2019-02-10:
  • 2019-02-15:
    • pcr_target_locus: Changed to follow new AIRR Community controlled vocabulary- all studies
    • complete_sequences: Changed to display whether full VDJ was captured- all studies
  • 2019-01-31:
  • 2019-01-22:
    • Removed line breaks from all string fields- all studies
  • 2019-01-15:
    • study_id: Removed spaces from the end of study_id- all studies
  • 2019-01-03:
    • ir_min_age: Changed NA to -1- all studies
    • ir_max_age: Changed NA to 999- all studies
  • 2018-12-04:
    • age_event: Capitalized "Sample collection"- all studies
    • strain_name: Capitalized "BALB/c"- all studies
    • disease_diagnosis: Changed to adhere to controlled MiAIRR vocabulary- all studies
    • tissue: Changed to adhere to controlled MiAIRR vocabulary- all studies; Capitalized
    • collection_time_event: Filled out for all possible entries; Capitalized
    • cell_subset: Filled out for all possible entries; Capitalized
    • single_cell: Filled out as a boolean, True or False- all studies
    • pcr_target_locus: Changed to adhere to controlled MiAIRR vocabulary- all studies
    • forward_pcr_primer_target_location: Changed to adhere to controlled MiAIRR vocabulary- all studies
    • reverse_pcr_primer_target_location: Changed to adhere to controlled MiAIRR vocabulary- all studies
    • ir_germline_database: Filled out for all possible entries- all studies
    • single_or_paired: Changed to lowercase- all studies
    • regions_included_in_sequence: Filled out for all possible entries- all studies
  • 2018-12-04: Data provenance tracking initiated on ipa.ireceptor.org.
  • 2018-07-12: The iReceptor Public Archive repository is now online.