Alexander Young ยท Source: patient-supplied JLF design workbook.
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| # | CANDIDATE NEOANTIGEN | GENE | CANDIDATE NEOANTIGEN AMINO ACID SEQUENCE WITH FLANKING RESIDUES | RESTRICTING HLA ALLELE | CANDIDATE NEOANTIGEN AMINO ACID SEQUENCE MW (CLIENT) |
|---|---|---|---|---|---|
| 1.0 | jlf-100-203.MT.381.SMAD4 | SMAD4 | QVGETFKVPSSCPIVTVDGYVDPSGEDRFCLGQLSNVHRTEAIERARLHIG | HLA-C*05:01 | 5585.205199999999 |
| 2.0 | jlf-100-203.MT.365.KIF1C | KIF1C | ARTVAATNMNETSSRSHAVFTIVFTLRCHDQLTGLDSEKVSKISLVDLAGS | HLA-A*02:01 | 5479.121499999999 |
| 3.0 | jlf-100-203.MT.318.GALK2 | GALK2 | TVSMVPADKLPSFLANVHKAYYQRSDGSLAPEKQSLFATKPGDGALVLLEA | HLA-C*03:04 | 5433.1522 |
| 4.0 | jlf-100-203.MT.204.KMT2E | KMT2E | KKRRFYQLLDSVYSETSTPTPSPYAPPTHTDITPMDPSFATPPRIKSDDET | HLA-C*03:04 | 5784.335000000002 |
| 5.0 | jlf-100-203.MT.75.SLC39A10 | SLC39A10 | LGDFAVLLKAGMTVKQAIVYNLLSAIMAYIGMLIGTAVGQYANNITLWIFA | HLA-A*02:01 | 5463.5201 |
| 6.0 | jlf-100-203.MT.30.PRRC2C | PRRC2C | KETDEVSNTKSSSQIPAQPSVAKVPNGKGPSFNQERGTSSHLPPPPKLLAQ | HLA-B*07:02 | 5367.8923 |
| 7.0 | jlf-100-203.MT.321.TLN2 | TLN2 | VTNVTSLLKTVKAVEDEATRGTRALQATIECIKQELTVFQSKDVPEKTSSP | HLA-A*02:01 | 5562.265200000001 |
| 8.0 | jlf-100-203.MT.298.BRCA2 | BRCA2 | KFVKGRQTPKHISESLGAEVDPDMSRSSSLATPPTLSSTVLIVRNEEASET | HLA-B*07:02 | 5485.056899999998 |
| 9.0 | jlf-100-203.MT.223.HNF4G | HNF4G | GSSTDINVKKIASIGDVCESMKQQLFVLVEWAKYIPAFCELPLDDQVALLR | HLA-A*02:01/DPA1*01:03-DPB1*02:01 | 5683.573199999998 |
| 10.0 | jlf-100-203.MT.197.LRCH4 | LRCH4 | PEAACQLVSLEGLSLYHNCLRCLNPVLGNLTALTYLNLSRNQLSLLPPYIC | HLA-B*07:02 | 5616.556699999999 |
| 11.0 | jlf-100-203.MT.247.CCDC6 | CCDC6 | KMAQYLEEERHMREENLRLQRKLQRRWREEKPSVDSSPRVSPA | HLA-C*05:01 | 5351.010800000002 |
| 12.0 | jlf-100-203.MT.20.NBPF15 | NBPF15 | QALLTPDEPDKSQGQDLQEQLAEGCKLTQHLVQKLSPENDNDDDEDVQVEV | HLA-A*02:01 | 5704.030000000002 |
| 13.0 | jlf-100-203.MT.220.FHIP2B | FHIP2B | SAPSDEASFPGKEALAAFLGWFDYCNHLITEAHTVVADALAKAVAENFFVE | HLA-C*05:01 | 5472.012500000002 |
| 14.0 | jlf-100-203.MT.102.WDFY1 | WDFY1 | ATFHEGKHNISHMSMDIARGLMVTCGTDRIIKIWDMTPVVGCSLATGFSPH | HLA-A*02:01 | 5571.4401 |
| 15.0 | jlf-100-203.MT.207.AASS | AASS | NRRAIHDKDYVKAGGILQEDISEACIILGVKRPPEEKLMSRKTYAFFSHTI | HLA-B*44:02/DQA1*01:02-DQB1*06:02 | 5846.697099999998 |
| 16.0 | jlf-100-203.MT.155.WWC1 | WWC1 | RFRLLLRMLEKRQMDRAEHKGELQTEKMMRAAAKDVHRLRGQSCKEPPEVQ | HLA-B*44:02 | 6133.150700000002 |
| 17.0 | jlf-100-203.MT.148.APC | APC | EAHEPGMDQDKNPMPAPVEHQICPAGVF | HLA-B*44:02 | 3045.384599999999 |
| 18.0 | jlf-100-203.MT.395.SMARCA4 | SMARCA4 | FLLSTRAGGLGLNLQSADTVIIFDSYWNPHQDLQAQDRAHRIGQQNEVRVL | HLA-C*05:01 | 5763.354700000002 |
| 19.0 | jlf-100-203.MT.34.ELF3 | ELF3 | RDLTSSSSDELSWIIELLEKDGMAFHEALDPGPFDQGSPFAQELLDDGQQA | HLA-B*44:02 | 5607.987000000001 |
| 20.0 | jlf-100-203.MT.150.APC | APC | RCTSVSSLDSFESRSIASSVQSEPCREW | HLA-B*44:02 | 3134.3704 |
| a The nomenclature convention for candiate neoantigens is JLF-100-YYY-MT.A.ZZZZ where YYY is the patient identifier, A is the mutation #, and ZZZZ is the gene name. Driver genes are noted with light green fill. | |||||
| b The minimal class I epitope is provided in red letters. The class II epitope is in bold font. For all SNVs or sequences that vary from the wildtype sequence, the AAs are underlined. Flanking residues are included to allow more flexibility for vaccine manufacture. | |||||
| c CS Bio will evaluate the candidate neoantigen sequence and propose several synthetic lone peptides for attempted manufacture. CS Bio will have to increase the number one of rows such that there is one row per SLP. | |||||
| d The SLP name is based on the Candidate Neoantigen name. |