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Table 1 HLA-Cw4 dataset used in this study.

From: In silico characterization of immunogenic epitopes presented by HLA-Cw*0401

No.

Category

Source

Peptide

IC50 (nM)

Ref.

1

Training Set

Cw3 consensus

FAMPNFQTL

651

24

2

Training Set

Cw6 consensus

IPFPIVRYL

>30000

24

3

Training Set

Cw7 consensus

KYPDFVDAL

2.4

24

4

Training Set

Cw4 consensus

QYDDAVYKL

18

24

5

Training Set

Histone H3.3

RYRPGTVAL

>30000

24

6

Training Set

Unknown Cw6 natural ligand

YQFTGIKKY

>30000

24

7

Test Set

Transcripton factor SUPT4H 56–64

SFDGIIAMM

Binder

10

8

Test Set

Transducin-like 3 120–128

AFDPTSTLL

Binder

10

9

Test Set

UBE3B variant 1 742–750

VFDPALNLF

Binder

10

10

Test Set

XP_173235 3–11

LFDITGQDF

Binder

10

11

Test Set

8 59–67

VYDTNPAKF

Binder

10

12

Test Set

Acyl-CoA synthetase 4 82–90

LFDHAVSKF

Binder

10

13

Test Set

Adenosylhomocyteinehydrolase 566–574

SFDAHLTEL

Binder

10

14

Test Set

ART-1 Adenocarcinoma antigen 21–29

SFDLLPREF

Binder

10

15

Test Set

ATP-binding cassette, sub-family F, member 3 500–508

YYDPKHVIF

Binder

10

16

Test Set

Block of proliferation 1 639–647

SYDSKLVWF

Binder

10

17

Test Set

BM-015 144–152

HFDPEVVQI

Binder

10

18

Test Set

CDC45 541–549

HFDLSVIEL

Binder

10

19

Test Set

Cholesterol acyltransferase 72–80

HFDDFVTNL

Binder

10

20

Test Set

Chromosome 20 open reading frame 40 318–326

FFDNISSEL

Binder

10

21

Test Set

Elongation factor 2 265–273

YFDPANGKF

Binder

10

22

Test Set

Epithelial cell transforming oncogene 21–29

IFDSKVTEI

Binder

10

23

Test Set

Ethanolamine kinase EKI1 132–141

HWDPQEVTL

Binder

10

24

Test Set

Eukaryotic translation initiation factor 3, Su 6 interacting protein 478–486

FLDLTEGEF

Binder

10

25

Test Set

Fatty acid synthetase 544–552

TFDDIVHSF

Binder

10

26

Test Set

FK506 binding protein 9 303–311

VFDIHVIDF

Binder

10

27

Test Set

Glutamine:fructose-6-phosphate amidotransferase (GFAT) 345–353

NFDDYTVNL

Binder

10

28

Test Set

Tousled-like kinase 456–464

AFDLTEQRY

Binder

10

29

Test Set

Transcription factor IIE 144–152

LFDPMTGTF

Binder

10

30

Test Set

HSP 70 kDa 1A 179–205

IFDLGGGTF

Binder

10

31

Test Set

HSPC198 19–27

SYDLFVNSF

Binder

10

32

Test Set

HSP J2 156–164

SFDTGFTSF

Binder

10

33

Test Set

Hypothetical protein FLJ00365 80–88

YFDAIPVTM

Binder

10

34

Test Set

Hypothetical protein FLJ11220 373–381

YLPDFLDYF

Binder

10

35

Test Set

Hypothetical protein FLJ20343 415–423

RFDEAYIYM

Binder

10

36

Test Set

Insuline degrading enzyme IDE 150–158

YFDVSHEHL

Binder

10

37

Test Set

Integrin alpha-V (Vitronectin) 224–232

KYDPNVYSI

Binder

10

38

Test Set

KCIP-1 186–194

AFDEAIAEL

Binder

10

39

Test Set

KIAA0461 721–729

SMDPLPVFL

Binder

10

40

Test Set

KIAA1463 444–452

FYDERIVVV

Binder

10

41

Test Set

KIAA1921 350–358

VYDGKIYTL

Binder

10

42

Test Set

Metalloproteinase 10 331–339

FWPSLPSYL

Binder

10

43

Test Set

Methionine-tRNA synthetase 2 (mitochondrial) 58–66

YYDEKVVKL

Binder

10

44

Test Set

Mucin-5B 168–176

TFDGTSYTF

Binder

10

45

Test Set

Myosin phosphatase target subunit 1 37–45

KFDDGAVFL

Binder

10

46

Test Set

Nuclear autoantigenic sperm protein 599–607

QYDEAVAQF

Binder

10

47

Test Set

Nucleoporin NUP358 261–269

SFDSALQSV

Binder

10

48

Test Set

P621 70–78

VFDKTLAEL

Binder

10

49

Test Set

Phosphate carrier precursor 331–339

IYDSVKVYF

Binder

10

50

Test Set

PRO2242 61–69

YFDPQYFEF

Binder

10

51

Test Set

Protein phosphatase 6 102–110

KWPDRITLL

Binder

10

52

Test Set

Putative prostate tumor suppressor 165–173

TFDLQRIGF

Binder

10

53

Test Set

Rac1 168–176

VFDEAIRAV

Binder

10

54

Test Set

RNA Helicase A 697–705

VFDPVPVGV

Binder

10

55

Test Set

Similiar to KIAA1911 80–88

FWDGKIVLV

Binder

10

56

Test Set

Topoisomerase I 241–249

YYDGKVMKL

Binder

10

57

Test Set

Tensin 3 143–151

FYDDKVSAL

Binder

10

58

Test Set

HIV-1 (BRU) gp120 350–358

SFNCGGEFF

Binder

18

59

Test Set

HIV-1 (BRU) gag p24 307–315

QASQEVKNW

Binder

21

60

Test Set

Synthetic peptide

AYDDAVYKL

Binder

25

61

Test Set

Cw7 consensus

AYADFVYAY

>30000

24

62

Test Set

CKShs2

KYFDEHYEY

>30000

24

63

Test Set

Unknown Cw6 natural ligand

YRHDGGNVL

>30000

24

64

Test Set

Unknown Cw7 natural ligand

NKADVILKY

>30000

24