1. Probeset IDGene SymbolGene Titlep-valueFold-Change 202411_atIFI27interferon, alpha-inducible protein 274.25E-4180.6469 204533_atCXCL10chemokine (C-X-C motif) ligand 103.57E-2323.4859 214038_atCCL8chemokine (C-C motif) ligand 81.45E-2920.0103 203153_atIFIT1interferon-induced protein with tetratricopeptide repeats 12.42E-2719.5124 200986_atSERPING1serpin peptidase inhibitor, clade G (C1 inhibitor), member 14.94E-3217.6595 216598_s_atCCL2chemokine (C-C motif) ligand 22.72E-2715.1213 205483_s_atISG15ISG15 ubiquitin-like modifier2.46E-3612.8609 204439_atIFI44Linterferon-induced protein 44-like3.70E-2811.462 204747_atIFIT3interferon-induced protein with tetratricopeptide repeats 33.38E-2411.001 219607_s_atMS4A4Amembrane-spanning 4-domains, subfamily A, member 43.08E-2710.8395 219863_atHERC5hect domain and RLD 59.52E-349.83 202086_atMX1 myxovirus (influenza virus) resistance 1, interferon-inducible protein p78 (mouse)5.36E-409.23324 219211_atUSP18ubiquitin specific peptidase 186.37E-397.77166 205552_s_atOAS12',5'-oligoadenylate synthetase 1, 40/46kDa9.16E-367.49197 218400_atOAS32'-5'-oligoadenylate synthetase 3, 100kDa1.01E-327.43024 219209_atIFIH1interferon induced with helicase C domain 11.91E-306.8618 208436_s_atIRF7interferon regulatory factor 74.07E-326.82139 210797_s_atOASL2'-5'-oligoadenylate synthetase-like7.67E-366.73076 44673_atSIGLEC1sialic acid binding Ig-like lectin 1, sialoadhesin1.34E-326.06186 214453_s_atIFI44interferon-induced protein 444.20E-295.94045 202688_atTNFSF10tumor necrosis factor (ligand) superfamily, member 102.37E-225.78719 202270_atGBP1guanylate binding protein 1, interferon-inducible, 67kDa8.67E-225.70295 200923_atLGALS3BPlectin, galactoside-binding, soluble, 3 binding protein5.00E-305.61054 205569_atLAMP3lysosomal-associated membrane protein 37.01E-265.35503 211267_atHESX1HESX homeobox 19.21E-325.28545 202446_s_atPLSCR1phospholipid scramblase 12.19E-315.28338 204972_atOAS22'-5'-oligoadenylate synthetase 2, 69/71kDa1.35E-395.24842 206513_atAIM2absent in melanoma 21.08E-305.24565 218943_s_atDDX58DEAD (Asp-Glu-Ala-Asp) box polypeptide 581.37E-225.12333 204415_atIFI6interferon, alpha-inducible protein 62.33E-255.09775 204994_atMX2myxovirus (influenza virus) resistance 2 (mouse)4.22E-274.81494 202145_atLY6Elymphocyte antigen 6 complex, locus E7.32E-364.76284 212185_x_atMT2Ametallothionein 2A4.11E-374.57922 216950_s_at FCGR1A /// FCGR1C Fc fragment of IgG, high affinity Ia, receptor (CD64) /// Fc fragment of IgG, high affi1.50E-164.50688 212203_x_atIFITM3interferon induced transmembrane protein 3 (1-8U)3.31E-314.41877 221345_atFFAR2free fatty acid receptor 22.05E-114.23988 206133_atXAF1XIAP associated factor 17.99E-224.20088 220146_atTLR7toll-like receptor 72.16E-274.1895 217933_s_atLAP3leucine aminopeptidase 31.49E-284.1109 219684_atRTP4receptor (chemosensory) transporter protein 42.17E-274.03045 206632_s_atAPOBEC3B apolipoprotein B mRNA editing enzyme, catalytic polypeptide- like 3B2.07E-083.68803 205241_atSCO2SCO cytochrome oxidase deficient homolog 2 (yeast)5.65E-233.68642 214290_s_at HIST2H2AA3 /// HIST2H2AA4histone cluster 2, H2aa3 /// histone cluster 2, H2aa41.08E-233.68222 204187_atGMPRguanosine monophosphate reductase5.33E-303.6787 208581_x_atMT1Xmetallothionein 1X2.00E-323.65284 203595_s_atIFIT5interferon-induced protein with tetratricopeptide repeats 51.40E-233.6498 206111_atRNASE2 ribonuclease, RNase A family, 2 (liver, eosinophil-derived neurotoxin)2.12E-183.60474 Table S1. List of genes significantly changed in Early Acute vs convalescent phase (HG-focus platform)

2. Table S1 continued 212657_s_atIL1RNinterleukin 1 receptor antagonist3.00E-103.60285 202087_s_atCTSL1cathepsin L11.46E-263.58725 201841_s_atHSPB1heat shock 27kDa protein 18.74E-143.567 202953_atC1QBcomplement component 1, q subcomponent, B chain2.06E-203.5624 210397_atDEFB1defensin, beta 15.85E-253.52464 200629_atWARStryptophanyl-tRNA synthetase1.63E-183.45718 206881_s_atLILRA3 leukocyte immunoglobulin-like receptor, subfamily A (without TM domain), member 35.98E-213.45399 210029_atIDO1indoleamine 2,3-dioxygenase 15.96E-103.43581 218232_atC1QAcomplement component 1, q subcomponent, A chain4.63E-183.43166 206026_s_atTNFAIP6tumor necrosis factor, alpha-induced protein 63.90E-073.42839 209906_atC3AR1complement component 3a receptor 14.27E-233.42427 202708_s_atHIST2H2BEhistone cluster 2, H2be3.99E-153.41831 201649_atUBE2L6ubiquitin-conjugating enzyme E2L 64.13E-303.41115 210163_atCXCL11chemokine (C-X-C motif) ligand 115.21E-123.31328 201798_s_atMYOFmyoferlin4.61E-143.25514 219403_s_atHPSEheparanase1.15E-263.20446 33304_atISG20interferon stimulated exonuclease gene 20kDa2.17E-293.19432 206715_atTFECtranscription factor EC1.19E-143.16761 205098_atCCR1chemokine (C-C motif) receptor 19.69E-233.14306 204929_s_atVAMP5vesicle-associated membrane protein 5 (myobrevin)4.29E-193.09958 AFFX- HUMISGF3A/M979 35_MB_atSTAT1signal transducer and activator of transcription 1, 91kDa9.62E-193.06396 201315_x_atIFITM2interferon induced transmembrane protein 2 (1-8D)4.28E-233.03622 210772_atFPR2formyl peptide receptor 21.10E-132.97837 210146_x_atLILRB2 leukocyte immunoglobulin-like receptor, subfamily B (with TM and ITIM domains), member 6.62E-162.94571 AFFX- HUMISGF3A/M979 35_MA_atSTAT1signal transducer and activator of transcription 1, 91kDa7.98E-202.93379 209911_x_atHIST1H2BDhistone cluster 1, H2bd6.44E-192.93299 210152_atLILRB4 leukocyte immunoglobulin-like receptor, subfamily B (with TM and ITIM domains), member1.33E-312.92354 205692_s_atCD38CD38 molecule3.85E-122.9135 214022_s_atIFITM1interferon induced transmembrane protein 1 (9-27)4.64E-352.91109 202912_atADMadrenomedullin1.80E-102.90913 203964_atNMIN-myc (and STAT) interactor1.24E-282.86585 201761_atMTHFD2 methylenetetrahydrofolate dehydrogenase (NADP+ dependent) 2, methenyltetrahydrofolate c4.29E-292.86554 213348_atCDKN1Ccyclin-dependent kinase inhibitor 1C (p57, Kip2)4.02E-102.82932 204224_s_atGCH1GTP cyclohydrolase 12.68E-192.75518 201963_atACSL1acyl-CoA synthetase long-chain family member 13.51E-082.69167 206461_x_atMT1Hmetallothionein 1H5.74E-322.6756 204043_atTCN2transcobalamin II2.84E-272.63821 204204_atSLC31A2solute carrier family 31 (copper transporters), member 24.10E-162.61303 202284_s_atCDKN1Acyclin-dependent kinase inhibitor 1A (p21, Cip1)5.52E-182.61289 203610_s_atTRIM38tripartite motif-containing 389.81E-242.59734 AFFX- HUMISGF3A/M979 35_3_atSTAT1signal transducer and activator of transcription 1, 91kDa3.54E-212.58347 204961_s_at NCF1 /// NCF1B /// NCF1C neutrophil cytosolic factor 1 /// neutrophil cytosolic factor 1B pseudogene /// neutrop6.61E-152.57259 203771_s_atBLVRAbiliverdin reductase A3.74E-182.5695 207275_s_atACSL1acyl-CoA synthetase long-chain family member 12.61E-082.54575 200887_s_atSTAT1signal transducer and activator of transcription 1, 91kDa8.07E-222.53818 209616_s_atCES1carboxylesterase 11.30E-152.51623 212099_atRHOBras homolog gene family, member B1.20E-112.51615 219716_atAPOL6apolipoprotein L, 61.13E-252.51584 201015_s_atJUPjunction plakoglobin7.56E-262.51132 AFFX- HUMISGF3A/M979 35_5_atSTAT1signal transducer and activator of transcription 1, 91kDa2.83E-132.507 211138_s_atKMOkynurenine 3-monooxygenase (kynurenine 3-hydroxylase)9.88E-182.50287 209930_s_atNFE2nuclear factor (erythroid-derived 2), 45kDa1.31E-082.49666

3. 201999_s_atDYNLT1dynein, light chain, Tctex-type 12.03E-182.484 201669_s_atMARCKSmyristoylated alanine-rich protein kinase C substrate2.92E-102.45622 205992_s_atIL15interleukin 153.67E-172.45425 204249_s_atLMO2LIM domain only 2 (rhombotin-like 1)3.89E-132.45253 207500_atCASP5caspase 5, apoptosis-related cysteine peptidase2.06E-212.43834 206247_atMICBMHC class I polypeptide-related sequence B4.31E-282.43553 206332_s_atIFI16interferon, gamma-inducible protein 161.13E-242.43525 203574_atNFIL3nuclear factor, interleukin 3 regulated6.60E-102.41069 209213_atCBR1carbonyl reductase 12.46E-262.4045 202672_s_atATF3activating transcription factor 39.07E-072.39588 205568_atAQP9aquaporin 95.60E-072.3841 201995_atEXT1exostosin 11.61E-212.37967 201641_atBST2bone marrow stromal cell antigen 22.54E-162.37891 203820_s_atIGF2BP3insulin-like growth factor 2 mRNA binding protein 33.77E-222.36815 220005_atP2RY13purinergic receptor P2Y, G-protein coupled, 134.95E-082.3653 212681_atEPB41L3erythrocyte membrane protein band 4.1-like 31.03E-172.34804 201422_atIFI30interferon, gamma-inducible protein 302.43E-192.34404 202241_atTRIB1tribbles homolog 1 (Drosophila)2.52E-122.32823 210657_s_at4-Sepseptin 41.20E-182.32553 203504_s_atABCA1ATP-binding cassette, sub-family A (ABC1), member 16.43E-122.32228 218660_atDYSFdysferlin, limb girdle muscular dystrophy 2B (autosomal recessive)7.02E-162.29206 203236_s_atLGALS9lectin, galactoside-binding, soluble, 97.12E-212.29198 204211_x_atEIF2AK2eukaryotic translation initiation factor 2-alpha kinase 25.03E-252.27268 204834_atFGL2fibrinogen-like 21.05E-112.25572 209392_atENPP2ectonucleotide pyrophosphatase/phosphodiesterase 21.64E-142.24182 221211_s_atC21orf7chromosome 21 open reading frame 74.67E-062.23532 208886_atH1F0H1 histone family, member 04.01E-172.23344 211284_s_atGRNgranulin4.68E-132.23188 218231_atNAGKN-acetylglucosamine kinase5.86E-162.22834 117_atHSPA6heat shock 70kDa protein 6 (HSP70B')8.43E-132.22608 208546_x_atHIST1H2BHhistone cluster 1, H2bh7.58E-122.22424 207181_s_atCASP7caspase 7, apoptosis-related cysteine peptidase1.16E-242.22052 204804_atTRIM21tripartite motif-containing 211.48E-222.21503 211336_x_atLILRB1 leukocyte immunoglobulin-like receptor, subfamily B (with TM and ITIM domains), member1.43E-232.21496 204279_atPSMB9 proteasome (prosome, macropain) subunit, beta type, 9 (large multifunctional peptidase4.13E-262.21044 208012_x_atSP110SP110 nuclear body protein2.17E-232.20281 219788_atPILRApaired immunoglobin-like type 2 receptor alpha4.15E-092.20112 204326_x_atMT1Xmetallothionein 1X8.66E-222.18954 203454_s_atATOX1ATX1 antioxidant protein 1 homolog (yeast)2.71E-282.17611 201786_s_atADARadenosine deaminase, RNA-specific3.37E-242.17089 204858_s_atTYMPthymidine phosphorylase2.50E-122.16186 204780_s_atFASFas (TNF receptor superfamily, member 6)8.83E-152.15071 210176_atTLR1toll-like receptor 12.91E-102.14181 35254_atTRAFD1TRAF-type zinc finger domain containing 16.62E-232.1357 209761_s_atSP110SP110 nuclear body protein3.80E-142.12815 209457_atDUSP5dual specificity phosphatase 59.07E-092.11966 215071_s_atHIST1H2AChistone cluster 1, H2ac2.50E-062.11417 218559_s_atMAFBv-maf musculoaponeurotic fibrosarcoma oncogene homolog B (avian)1.35E-072.11283 219017_atETNK1ethanolamine kinase 15.47E-202.10483 200800_s_at HSPA1A /// HSPA1Bheat shock 70kDa protein 1A /// heat shock 70kDa protein 1B6.16E-062.10455 203275_atIRF2interferon regulatory factor 22.81E-192.06423 206491_s_atNAPAN-ethylmaleimide-sensitive factor attachment protein, alpha7.64E-262.06389 201200_atCREG1cellular repressor of E1A-stimulated genes 12.18E-152.05008 218589_atLPAR6lysophosphatidic acid receptor 61.96E-092.04513 214438_atHLXH2.0-like homeobox5.85E-112.04457 221485_atB4GALT5UDP-Gal:betaGlcNAc beta 1,4- galactosyltransferase, polypeptide 55.49E-132.03675 211429_s_atSERPINA1 serpin peptidase inhibitor, clade A (alpha-1 antiproteinase, antitrypsin), member 14.92E-092.0351 204232_atFCER1GFc fragment of IgE, high affinity I, receptor for; gamma polypeptide3.44E-122.03026 Table S1 continued

4. 205126_atVRK2vaccinia related kinase 21.00E-232.02927 205841_atJAK2Janus kinase 21.18E-162.02664 202068_s_atLDLRlow density lipoprotein receptor1.44E-082.01919 208121_s_atPTPROprotein tyrosine phosphatase, receptor type, O4.35E-152.01652 215001_s_atGLULglutamate-ammonia ligase3.59E-112.01579 205170_atSTAT2signal transducer and activator of transcription 2, 113kDa7.67E-182.00104 206150_atCD27CD27 molecule1.35E-12-2.00733 204352_atTRAF5TNF receptor-associated factor 51.72E-16-2.02117 202742_s_atPRKACBprotein kinase, cAMP-dependent, catalytic, beta3.33E-11-2.03093 203408_s_atSATB1SATB homeobox 18.74E-14-2.03308 205476_atCCL20chemokine (C-C motif) ligand 200.0142783-2.03348 212063_atCD44CD44 molecule (Indian blood group)1.83E-21-2.03663 217969_atC11orf2chromosome 11 open reading frame 24.69E-26-2.05737 200858_s_atRPS8ribosomal protein S88.84E-34-2.06794 201892_s_atIMPDH2IMP (inosine 5'-monophosphate) dehydrogenase 21.15E-21-2.07081 221234_s_atBACH2BTB and CNC homology 1, basic leucine zipper transcription factor 25.95E-15-2.0801 205419_atGPR183G protein-coupled receptor 1834.79E-10-2.10871 201812_s_at C4orf46 /// TOMM7 chromosome 4 open reading frame 46 /// translocase of outer mitochondrial membrane 7 ho1.06E-28-2.11501 200023_s_atEIF3Feukaryotic translation initiation factor 3, subunit F1.70E-23-2.15721 218237_s_atSLC38A1solute carrier family 38, member 17.13E-14-2.18536 204891_s_atLCKlymphocyte-specific protein tyrosine kinase1.95E-18-2.19003 217807_s_atGLTSCR2glioma tumor suppressor candidate region gene 22.02E-28-2.19398 212191_x_atRPL13ribosomal protein L137.93E-32-2.20729 205297_s_atCD79BCD79b molecule, immunoglobulin-associated beta4.75E-18-2.20819 213539_atCD3DCD3d molecule, delta (CD3-TCR complex)1.22E-16-2.20893 39729_atPRDX2peroxiredoxin 26.12E-14-2.21822 215332_s_atCD8BCD8b molecule4.69E-17-2.22944 200024_atRPS5ribosomal protein S51.49E-26-2.24355 205049_s_atCD79ACD79a molecule, immunoglobulin-associated alpha1.79E-16-2.24629 205590_atRASGRP1RAS guanyl releasing protein 1 (calcium and DAG-regulated)5.50E-16-2.25342 204102_s_atEEF2eukaryotic translation elongation factor 21.56E-21-2.2565 211506_s_atIL8interleukin 80.00828182-2.27685 201030_x_atLDHBlactate dehydrogenase B5.19E-24-2.30102 39318_atTCL1AT-cell leukemia/lymphoma 1A1.97E-12-2.31849 208754_s_atNAP1L1nucleosome assembly protein 1-like 16.27E-17-2.33462 203485_atRTN1reticulon 12.23E-17-2.3478 200888_s_atRPL23ribosomal protein L231.62E-33-2.35087 205987_atCD1CCD1c molecule8.86E-29-2.36105 206207_atCLCCharcot-Leyden crystal protein9.58E-06-2.39815 221476_s_atRPL15ribosomal protein L151.22E-33-2.40774 200036_s_atRPL10Aribosomal protein L10a3.01E-29-2.4101 200094_s_atEEF2eukaryotic translation elongation factor 21.57E-25-2.44031 221601_s_atFAIM3Fas apoptotic inhibitory molecule 35.05E-22-2.44406 200089_s_atRPL4ribosomal protein L44.69E-35-2.45334 212205_atH2AFVH2A histone family, member V6.27E-17-2.47128 214167_s_at RPLP0 /// RPLP0P6 ribosomal protein, large, P0 /// ribosomal protein, large, P0 pseudogene 61.83E-23-2.49084 211937_atEIF4Beukaryotic translation initiation factor 4B2.11E-28-2.49727 206337_atCCR7chemokine (C-C motif) receptor 71.90E-13-2.51372 219714_s_atCACNA2D3calcium channel, voltage-dependent, alpha 2/delta subunit 37.57E-22-2.52456 204777_s_atMALmal, T-cell differentiation protein1.33E-16-2.52602 207339_s_atLTBlymphotoxin beta (TNF superfamily, member 3)3.23E-15-2.53727 210116_atSH2D1ASH2 domain containing 1A1.71E-15-2.56103 206666_atGZMKgranzyme K (granzyme 3; tryptase II)8.17E-14-2.57579 208662_s_atTTC3tetratricopeptide repeat domain 31.67E-17-2.64275 208319_s_atRBM3RNA binding motif (RNP1, RRM) protein 31.33E-14-2.66446 205798_atIL7Rinterleukin 7 receptor2.82E-14-2.67722 202746_atITM2Aintegral membrane protein 2A2.81E-16-2.68452 200705_s_atEEF1B2eukaryotic translation elongation factor 1 beta 21.55E-32-2.70851 200937_s_atRPL5ribosomal protein L51.32E-34-2.73984 Table S1 continued

5. 210356_x_atMS4A1membrane-spanning 4-domains, subfamily A, member 14.62E-15-2.82757 206059_atZNF91zinc finger protein 911.78E-17-2.84753 200965_s_atABLIM1actin binding LIM protein 12.83E-18-2.86403 219528_s_atBCL11BB-cell CLL/lymphoma 11B (zinc finger protein)2.65E-18-2.94985 221558_s_atLEF1lymphoid enhancer-binding factor 12.18E-18-2.98776 214470_atKLRB1killer cell lectin-like receptor subfamily B, member 17.89E-21-3.23203 203413_atNELL2NEL-like 2 (chicken)4.36E-32-4.15378 Table S1 continued