AIDS

Aids immune by Chris Carter is licensed under a Creative Commons Attribution-NonCommercial-ShareAlike 3.0 Unported License.

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This is a progression from a previous paper posted at Natureprecedings a facsimile of which is available here.

The AIDS virus expresses proteins containing short contiguous amino acid segments of 5 amino acids or more (viral matches or vatches) that are identical to those of many human proteins related to the immmune defense network.

The equivalent viral vatches are often immunogenic, and antibodies to the virus will also target their human counterparts, in effect knocking out the immune system by targeting a large number of its components. Highly immunogenic vatches will create antibodies that tag cells containing these human counterparts for destruction.

AIDS would thus apear to be an autoimmune disorder that specifically targets the immune system itself. suggesting that it may be resolved by immunosuppressant therapy, antibody adsorption and related therapies.

This is by no means a unique phenomenon, and applies to many common viruses, many of which are incorporated into the human genome (See this page for further details)

HIV-1 BLAST versus human proteome RESULTS

HIV1 BLAST vs Human proteome RESULTS

Filter query Immune

BLAST Query		Filter	Human Proteins homologous to AIDS viral proteins
HIV-1 WHOLE GENOME		None RESULTS	AGPAT1 ALG8 ASXL3 ATRN BIK BIRC7 BRI3BP BST1 BTN2A2 CCDC39 CDH3 CHD9 CKAP5 CLASP2 CNBP CNPY3 CTSA DCBLD2 DCHC1 DNPEP DSF2 DSG3 DSPP E2F4 ELOVL1 ERPL1 ERVK2 ERVK5 ERVK6 EYS FAT3 FLRT2 FXR2 GABBR2 GANC GDPD2 GHDC GOLGA2B HTRC5B KAZALD1 ING3 JPH3 KBTBD11 KLHDC5 KLRAQ1 KRTAP4-6 LCN8 LDLR LRP8 MAGI1 MBOAT7 MLC1 MOCOS NAA15 NAF1 NAPIL3 NCRNA00238 NOTCH4 NUMA1 NYNRIN OBSCN OTOF PAQR6 PKD1L1 PLEK PLXNA1 POK7 POK17 POLERTNK2 RIPK3 SCAF1 SLFNL1 SLAMF7 SLC27A3 SHQ1 SMARCAL1 SRRM2 STEAP2 STRC STRCP1 SUN2 SYNE2 TMEM53 TMEM229A TMUB1 TNRC18 TTBK1 UBXN8 VWA3B ZCCH8 ZCCHC10 ZCCHC13 ZDHHC11B ZHDC CHANNELS ACCN4 SCN9A CYTOKINES AND RELATED CIAPIN1 CXCL16 IL18RAP IL21R LTBP3 TGFB1 TRAF6 DNA REPAIR RAD50 HLA; IMMUNOGLOBULIN RECEPTORS AND RELATED CD300A HLA-A HLA-B HLA-C HLA-F HLA-H IGSF1 LILRB1 LILRB2 MICA SEMA4B SHBG INTEGRINS AND ADHESION CELSR2 ITGA5 ITGB4 PDCHAC2 PCDHGA12 SIGNALLING PLA2G2E PLA2G10 PLA2G15 PLBD1 PTPRE SH3TC1 HAEMATOPOESIS AND WHITE BLOOD CELL LENG8 MLL4 MLLT3 NKTR GROWTH FACTORS AND RELATED EFNA4 FSHB GDF7 GDF10 NRG2 LYSOSOME ATP6V0C PROTEASE AND RELATED ADAM15 ADAM33 TRANSPORTERS ABCA1 ABCC2 SLC2A13 SLC6A5 SLC22A23 SLC24A3 SLC27A3 SLC27A5 VAMP4 OLFACTORY AND TASTE RECEPTORS OR4E2 OR13A1 OR56A4 TAS2R12 VN1R1 UNKNOWNS C1orf101 C13orf36 C14orf49 FAM90A1 FLJ33534 LOC646513 LOC283174 LOC645277 LOC645277 LOC652460 LOC100288963 LOC100287975 LOC100292541 LOC100288650 LOC100293879 LOC100133479 LOC100289316 LOC100134067 LOC100286959 LOC100131738 LOC100288635
Autoimmunity in AIDS	Diseases related toHIV-1
It would seem that HIV-1 has been responsible for the construction of most of the major components of the immune system. Is it any wonder that the AIDS virus attacks the immune system ?
		immune RESULTS	A2M ABP1 ADAD1 ADK AKAP9 ARHGAP31 AOC3 ATCAY ATRN ATP6AP1 ATP6V0A2 ATXN2 BAZ2A B3GNT3 BRAF BRCA1 BRD2 BTN3A2 CA12 CADM3 CBLB CCDC110 CCNDBP1 CDCP1 CEBPD CHUK CNTN2 CRNN CTAG1B CYLD DLL1 DOK4 DSG4 DTX4 EEF2K EFHD2 ELMO1 EMR3 ENAH EPB41L2 EPB41L3 ERAP2 ERV3 ERVWE1 FAS FASTK FDG2 FLOT1 FLOT2 FOXN1 FRMD4B GBE1 GMAP6 GIMAP6 GIMAP8 GLB1 GLIPR1 GNPTABTNC HBA1 HDC HECTD1 HPIBP3 HRG IFIH1 KARS KDM4B KDM5D KTELC1 LANCL2 LAMP3 LPIN2 LRBA LRRC19 MAGEC1 MAVS MBD4 MDFIC MPL MYBBP1A NFX1 NHEJ1 NLRC5 NLRP3 NLRP6 NLRP14 NLRX1 PACS1 PAX PEG10 PGLYRP2 PHF20 PLEK2 RAET1E RBMXL1 REL RNASEH2B RNF25 RNF103 RNF135 SAMHD1 SCHIP1 SEMA7A SMEK1 SRSF7 STIM1 SUN2 4 SCAMP3 SH2D2A SMEK2 STRN TBX21 TLN2 TOM1 TOP2B TREX1 TSGA10 TXLNG ULBP1 UNC5B UNC93B1 VSTM1 WAS ZBP1 ZFAT ZMIZ1 ZP3 ZP4 CCBP2 CCL4L2 CCRL2 CCR5 CCR9 CISH CKLF CXCL5 CXCL9 CXCR4 FAM19A1 IFNK IL1R1 IL1RL2 IL1RN IL2RB IL4R IL10RB IL13RA1 IL19 IL22RA1 IL25 IL27RA IL28A IL28RA IL4I1 IRAK3 IRF3 IRGC PPBP TNFRSF9 TNFRSF10D TNFSF4 TNFSF11 TNFSF12-TNFSF13 TNFSF13 TNFSF14 TNIP2 C3 C3P1 C4A C4B C5 C1S CFP C5 C6 C7 C8A CR1 CR2 CLUAP1 LOC100294156 CD5 CD8B CD22 CD28 CD33 CD38 CD44 CD80 CD86 CD96 CD163L1 CD200R1 CD300LB CD300LD FCAMR FCGR1A FCGR1B FCGR1C FCGR2A FCGR2B FCGR2C FCGR3B FCRL1 FCRL2 FCRL3 FCRL6 F3 CIITA HLA-B HLA-C HLA-DRB1 HLA-DRB3 HLA-DRB4 HLA-DRB5 HLA-DQB1 HLA-E HLA-F HM13 HMHA1 IGHG1 IGHG2 IGHG4 LAIR1 LILRA5 OSCAR PILRA PILRB RFX4 TCIRG1 DEF6 DEFA1 DEFB4A GZMB PRF1 DNAJC2 HSPA1B HSPA4L HSPA6 HSPD1 HNRNPA0 HNRNPL HNRPLL ICAM1 ICAM2 ITGAX ITGAL LGALS9 CEACAM1 CLEC1A CLEC2A CLEC1B CLEC4C CLEC4E CLEC7A CLEC16A MADCAM1 SIGLEC5 SIGLEC9 SIGLEC10 SIGLEC11 SIGLEC15 INPP5D INPPL1 PIK3CD PPP1R1B SMAD1 IKBKG NFIA NFKBIA JAK2 JAK3 PDE4C PDE7A SIRPG GAB3 RASGRF2 PPP4R1 PPP6R3 SH3GL2 SH2B3 MAP2K7 PLCG2 RGS1 FYN SKAP1 MAP3K8 FYB ACTR1B ANKRD36 EMR2 KIF21A KPNA1 KRT16 LMNB2 MAP1A MAP6 MUC4 MUC16 MYLK MYO1D MYO5A TPPP3 ABCA7 SLC5A11 SLC9A4 SLC17A5 LY96 LYPD3 MICB CNR2 CRHR1 CRHR2 FPR3 GPR18 GPR61 GPR65 GPR182 NPR1 OPRM1 P2RY13 P2RY14 PTGER4 SIPR4 GPS2 TLR1 TLR2 TLR3 TLR4 TLR8 TLR9 TLR10 MATK RIPK2 TYK2 MARCH1 MARCH4 MARCH6 MARCH7 NFATC1 NFATC2 NFAT5 SSX1 SSX4 SSX7 CACNA1C CLCA1 HVCN1 KCNA3 MS4A1 ORAI1 ADAM8 CAPN10 CARD9 CASP10 DPP8 MASP1 MMEL1 MMP16 PSMB7 SERPINB9 SPINK5 TRIM5 TRIM21 TRIM22 TRIM25 RBP3 RARG SRCRB4D IDO2 OAS1 OAS2 TMEM131 TMEM173 POL3RA POL3RB POLR3C POLQ REV3L UBASH3A UQCRC1 C14orf181 C20orf114 FAM19A3 FAM20B KIAA1524 KIAA1109 LOC100133511
HIV-1	env	None	DACH2 MATN2 ITFG3 CD229 MLL3 COL6A2 LOC57710 TJP1 POU2F1 ZMYM2 PCF11 SETX SLC16A2 SCAP CRB2 OTOG KIAA1279 ROBO1 SIRT1 ETV5 INTS5 GALNS KCNAB1 TCRD
see paper	gag		CNBP POP1
	gag-pol		GBGT1 NUMA1 TOPORS RBM4
	gp120		PLXND IL31RA USP9X TMEM161A
	nef		PLEC MAGED1 USP37 CD32 FCGR2B FCGBP PTPRN2 FAT3 PLAGL2 ARHGAP20 LY75
	rev		CD14 FLJ54826 B4E2R1 CCDC129 DOCK8 ALX1 ALX4 PITX1 PITX3 GCFC1 HMCN2 LMBR1 LMBRD2
	tat		CD3EAP CD226 CHD2 MGAT4B RREB1 MAP3K10: RIN3 CIAPIN1 GRIP2 KIF3B SMR3A RNF151
	vif		CORIN FBXO40 PLXNB1 TBC1D15
	vpr		OBSCN PDX1 PCIF1 RET FLJ76670 TRAF7 ITK PRSS16
	vpu		YBX2 ATP6V0A2 TCF25 ATP6VOC FLJ57916 PRAF2 COL7A1 TNFAIP8L3 PIWIL1 HLA-F HLA-B HLA-H HLA-C IL8 SLC1A3 GK5

For the BLASTs of the individual HIV-1 proteins:

The figures below show the antigenicity of several HIV-1 AIDS vatches as predicted by the BepiPred server : Most of the human targets belong to various components of the human immune network ; An immunogenicity index of >0.35 is considered as the cut-off point for epitope production.

For the BLASTs of the individual HIV-1 proteins, matches were concentrated in the following classesand compartments (see paper for details and references)


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Back to BLASTS

Viral insertions

EXAMPLES of mechanisms of action.

PolygenicBlog on the relations between genes, risk factors and autoimmunity

Please cite these papers and this site if using these data. Thank you