Submission Details

Submission IDS00037
Submission Date2022-03-21 00:00:00
Submission Statusreviewing
SubmitterWilliam Lees
Submitter AddressBirkbeck College, University of London, Malet Street, London
SpeciesHuman
EthnicityUN

Inferred Sequences

The inferred novel alleles from each genotype that are submitted for review. This table lists all inferences put forward by the submitter. Where IARC has affirmed a sequence based on an inference, the corresponding sequence record will be listed in the Published column. Inferences for which no published sequence is shown have not been affirmed.

SequenceSubjectGenotypePublished
 IGHV4-59*01_G267AS36P1_I39_S1_ogrdb_report
 IGHV3-43D*04_G4AS10P1_I10_S1_ogrdb_reportA02558
 IGHV1-69*06_G240AS45P1_I48_S1_ogrdb_reportA02559
 IGHV4-30-4*01_A70G_A107GS38P1_I41_S1_ogrdb_reportA02562
 IGHV4-39*01_G315AS57P1_I60_S1_ogrdb_reportA02561

Genotypes

Each genotype that has been inferred, along with the descriptive name of the inference tool and settings that were used.

Genotype NameSubject IDLocusSequence TypeGenotype FilenameTool/Setting Name
 P1_I39_S1_ogrdb_reportS36IGHVP1_I39_S1_ogrdb_report.csvP1_Sequence_protocol
 P1_I10_S1_ogrdb_reportS10IGHVP1_I10_S1_ogrdb_report.csvP1_Sequence_protocol
 P1_I48_S1_ogrdb_reportS45IGHVP1_I48_S1_ogrdb_report.csvP1_Sequence_protocol
 P1_I41_S1_ogrdb_reportS38IGHVP1_I41_S1_ogrdb_report.csvP1_Sequence_protocol
 P1_I60_S1_ogrdb_reportS57IGHVP1_I60_S1_ogrdbstats.csvP1_Sequence_protocol

Acknowledgements

Individuals who should be acknowledged as contributing to the inferences listed in this submission.

No Items

Repertoire Details

Details of the repertoire from which the inferences are based. This corresponds, for example, to an NIH Project or an ENA study.

RepositoryNCBI SRA
Accession NumberPRJEB26509
Project/Study TitleIllumina MiSeq paired end sequencing
Dataset URLhttps://www.ncbi.nlm.nih.gov/sra/?term=PRJEB26509
MiAIRR Compliant?No
MiAIRR URL
Sequencing PlatformMiSeq 2x300
Read LengthFull
Primers Overlapping?Yes

Repertoire Publications

Publications associated with this study.

No Items

Sequences of the PCR primers used in the study.

Forward primers

As the protocol used was 5’ RACE, there is only one primer set.

Primer NamePrimer Sequence
Human-IGHMGAATTCTCACAGGAGACGAGG
Human-IGHDTGTCTGCACCCTGATATGATGG
Human-IGHAGGGTGCTGYMGAGGCTCAG
Human-IGHETTGCAGCAGCGGGTCAAGG
Human-IGHGCCAGGGGGAAGACSGATG
Human-IGKGACAGATGGTGCAGCCACAG
Human-IGLAGGGYGGGAACAGAGTGAC

Inference Tools and Settings

Details of the inference tools and settings used to infer novel alleles. Each combination of tool and setting is listed here, and provided with a descriptive name.

Tool/Settings NameTool NameTool Version
 P1_Sequence_protocolTIgGER1.0.0

Notes

IGHV4-59*01_g267a imported to OGRDB from VDJbase with the following notes:

IGHV3-43D*04_g4a imported to OGRDB from VDJbase with the following notes:

IGHV1-69*06_g240a imported to OGRDB from VDJbase with the following notes:

IGHV4-30-4*01_a70g_a107g imported to OGRDB from VDJbase with the following notes:

Supplementary Files
 P1_I39_S1_ogrdb_plots.pdf
 P1_I10_S1_ogrdb_plots.pdf
 P1_I48_S1_ogrdb_plots.pdf
 P1_I41_S1_ogrdb_plots.pdf
 P1_I60_S1_ogrdbplot.pdf