Submission ID | S00010 |
Submission Date | 2019-11-15 00:00:00 |
Submission Status | reviewing |
Submitter | Davide Bagnara |
Submitter Address | davide.bagnara@edu.unige.it |
Species | Homo sapiens |
Ethnicity | UN |
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 | |
---|---|---|---|---|
IGHV1-69*14_S5279 | B12 | B12 | A00045 | |
IGHV4-61*01_S7407 | B12 | B12 | A00046 | |
IGHV2-70*04_S4496 | B16 | B16 | A00051 |
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 | |
---|---|---|---|---|---|---|
B12 | B12 | IGH | V | SRR5408027_B12_ogrdb_report.csv | IgDiscover | |
B16 | B16 | IGH | V | SRR5408024_B16_ogrdb_report.csv | IgDiscover |
Individuals who should be acknowledged as contributing to the inferences listed in this submission.
Name | Institution | ORCID ID |
---|---|---|
Martin Corcoran | Department of Microbiology, Tumor and Cell Biology, Biomedicum, Karolinska Institute, Stockholm Sweden. |
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 | PRJNA381394 |
Project/Study Title | Ig-seq_method |
Dataset URL | https://www.ncbi.nlm.nih.gov/bioproject/PRJNA381394 |
MiAIRR Compliant? | No |
MiAIRR URL | |
Sequencing Platform | Miseq |
Read Length | R1=325 R2=285 |
Primers Overlapping? | Yes |
Publications associated with this study.
PubMed ID | Title | Authors |
---|---|---|
28959265 | Novel Method for High-Throughput Full-Length IGHV-D-J Sequencing of the Immune Repertoire from Bulk B-Cells with Single-Cell Resolution. | Vergani S, Korsunsky I, Mazzarello AN, Ferrer G, Chiorazzi N, Bagnara D |
Sequences of the PCR primers used in the study.
reverse primers on the CH region (IgM, IgG, IgA) used for PCR amplification
Primer Name | Primer Sequence |
---|---|
HCA-n2m | GGGAAGACCTTGGGGCTGGT |
HCM-n2m | AAAGGGTTGGGGCGGATGC |
HCG-n2m | GGAAGACCGATGGGCCCTT |
Primer Name | Primer Sequence |
---|---|
L3_VH1* | GCGTCAGATGTGTATAAGAGACAGNNNNNNNNNNNNNNNCAACTACAGGTGCCCACTCC |
L3_VH1-46 | GCGTCAGATGTGTATAAGAGACAGNNNNNNNNNNNNNNTAGCTCCAGGTGCTCACTCC |
L3_VH1-69 | GCGTCAGATGTGTATAAGAGACAGNNNNNNNNNNNNNNNNCAGCYACAGGTGTCCASTCC |
L3_VH1-2 | GCGTCAGATGTGTATAAGAGACAGNNNNNNNNNNNNNNNCMACAGGWGCCCACTCC |
L3_VH1-45 | GCGTCAGATGTGTATAAGAGACAGNNNNNNNNNNNNNNAGCCACAGATGCCTACTCC |
L3_VH1-24 | GCGTCAGATGTGTATAAGAGACAGNNNNNNNNNNNNNCTACAGGCACCCACGCC |
L3_VH2 | GCGTCAGATGTGTATAAGAGACAGNNNNNNNNNNNNNNCCKTCCTGGGTCTTRTCC |
L3_VH2-70*09 | GCGTCAGATGTGTATAAGAGACAGNNNNNNNNNNNNNNNCCTTCATGGGTCTTGTCT |
L3_VH3* | GCGTCAGATGTGTATAAGAGACAGNNNNNNNNNNNNNNNTTWAAAGGTGTCCAGTGTGARG |
L3_VH3-30/33/11 | GCGTCAGATGTGTATAAGAGACAGNNNNNNNNNNNNNWTAARAGGTGTCCAGTGTCAGG |
L3_VH4 | GCGTCAGATGTGTATAAGAGACAGNNNNNNNNNNNNNNNCCAGATGGGTCCTGYCC |
L3_VH5-51 | GCGTCAGATGTGTATAAGAGACAGNNNNNNNNNNNNNNNTTCTCCAAGGAGTCTGTKCC |
L3_VH6-1 | GCGTCAGATGTGTATAAGAGACAGNNNNNNNNNNNNNNNCCATGGGGTGTCCTGTCA |