OGRDB

Submission Details


Submission ID	S00044
Submission Date	2024-02-06 00:00:00
Submission Status	reviewing
Submitter	William Lees
Submitter Address	Birkbeck College, University of London, Malet Street, London
Species	Homo sapiens
Ethnicity	UN

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.

	Sequence	Subject	Genotype	Published
	IGKV3-15*01_G107A	S12	P1_I12_S1_ogrdb_report	A03369

Genotypes

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

	Genotype Name	Subject ID	Locus	Sequence Type	Genotype Filename	Tool/Setting Name
	P1_I12_S1_ogrdb_report	S12	IGK	V	P1_I12_S1_ogrdb_report.csv	TIgGER

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.


Repository	NCBI SRA
Accession Number	PRJEB26509
Project/Study Title	Illumina MiSeq paired end sequencing
Dataset URL	https://www.ncbi.nlm.nih.gov/sra/?term=PRJEB26509
MiAIRR Compliant?	No
MiAIRR URL
Sequencing Platform	MiSeq 2x300
Read Length	300x300
Primers Overlapping?	Yes

Repertoire Publications

Publications associated with this study.

PubMed ID	Title	Authors
30733445	Mosaic deletion patterns of the human antibody heavy chain gene locus shown by Bayesian haplotyping.	Gidoni M, Snir O, Peres A, Polak P, Lindeman I, Mikocziova I, Sarna VK, Lundin KEA, Clouser C, Vigneault F, Collins AM, Sollid LM, Yaari G

PCR Primers

Sequences of the PCR primers used in the study.

3' Primers

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

Primer Name	Primer Sequence
Human-IGHM	GAATTCTCACAGGAGACGAGG
Human-IGHD	TGTCTGCACCCTGATATGATGG
Human-IGHA	GGGTGCTGYMGAGGCTCAG
Human-IGHE	TTGCAGCAGCGGGTCAAGG
Human-IGHG	CCAGGGGGAAGACSGATG
Human-IGL	AGGGYGGGAACAGAGTGAC

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 Name	Tool Name	Tool Version
	TIgGER	TIgGER	1.0.0

Notes

IGKV3-15*01_g107a submitted from VDJbase

Attachments

	Supplementary Files
	P1_I12_S1_ogrdb_plots.pdf