Table 2. Expression data from DGE analysis of the 80 selected transcripts in whole-blood cells in IQ+ versus IQ− patients.

DGE-tag	IQ+	IQ−	P-value	Sequence i.d.	Cyt loc	Hugo name	Description	GO annotation
5′-CAAATGAGGAGTGCCAG-3′	0	541	1E−160	NM_001130523	1p13.2	CSDE1	Neuroblastoma RAS viral (v-ras) oncogene homolog	P:regulation of transcription, DNA-dependent
5′-TCCAAAGTAATGGAGAT-3′	0	247	1E−72	BC000301	1p34	HDAC1	Histone deacetylase 1	F:histone deacetylase activity
5′-ATCAGTGGCTTTGAATG-3′	0	239	3E−70	BC000331	1q21	PSMB4	Proteasome (prosome, macropain) subunit, β-type 4	P:small molecule metabolic process
5′-GAAGCCCCAGCTCAGCT-3′	842	3	1E−124	BC066343	2p12	IGKC	Immunoglobulin κ-constant	P:regulation of immune response
5′-ATATTTTAAATGTTAAG-3′	0	183	2E−53	BC047933	2p15	B3GNT2	UDP-GlcNAc: β-Gal-β-1,3-N-acetylglucosaminyltransferase 2	F:transferase activity, transferring glycosyl groups
5′-TTCATACACCTATCCCC-3′	432	27556	3E−118	BC001797	2p16.1	CCDC104	Coiled-coil domain-containing 104
5′-TTAACAACATTAAAAAC-3′	22	64	2E−06	NM_001139488	2p25.1-p24.1	RASGRP3	RAS guanyl releasing protein 3 (calcium and DAG-regulated)	F:Ras GTPase binding
5′-TCATTGTAATGATTTCA-3′	0	237	1.46E−69	BC014274	2q11.2	STARD7	StAR-related lipid transfer (START) domain containing 7
5′-GAAAAATGGTTGATGGA-3′	0	4692	3E−174	BC010054	3p22.2	RPSA	Ribosomal protein SA	P:mRNA metabolic process
5′-CGTGTTAATGGCTGTTC-3′	0	171	7E−50	BC000288	3q21	CNBP	CCHC-type zinc finger, nucleic acid-binding protein	P:positive regulation of transcription from RNA polymerase II promoter
5′-TCTTAATGAAGTTTGAA-3′	0	286	3E−84	CR612348	3q28	EIF4A2	Eukaryotic translation initiation factor 4A2	F:helicase activity
5′-ATGTCATCAAATGGGTG-3′	0	217	1E−63	NM_004068	3q28	AP2M1	Adaptor-related protein complex 2, mu 1 subunit	P:intracellular protein transport
5′-TGTGCTAAATGTGTTCG-3′	0	673	2E−200	BC070208	4q25	RPL34	Ribosomal protein L34	F:structural constituent of ribosome
5′-ATACTTTAATCAGAAGC-3′	0	186	2E−54	NM_001154	4q26-q28|4q27	ANXA5	Annexin A5	F:receptor tyrosine kinase binding
5′-TCTGCAATGAAGAGATT-3′	0	372	1E−109	BC005288	5q13.3	NSA2	NSA2 ribosome biogenesis homolog (S. cerevisiae)	P:rRNA processing
5′-TTACTAAATGGTGTTAC-3′	0	428	8E−127	NM_001746	5q35	CANX	Calnexin	P:protein secretion
5′-ACACTAAAATGGCAGAG-3′	0	191	8E−56	BC011676	6p21.1	NFKBIE	Nuclear factor of κ-light polypeptide gene enhancer in B-cells inhibitor, epsilon	P:D-serine transport
5′-TTGATTTCTTAGCTGAC-3′	425	1	6E−126	AF533900	6p21.3	HLA-DQA1	Major histocompatibility complex, class II, DQ-α 1	P:T-cell receptor-signaling pathway
5′-GCAGTTCTGACAGTGAC-3′	1616	1	1E−119	AK290388	6p21.3	HLA-DRB1	Major histocompatibility complex, class II, DR-β 1	F:peptide antigen binding
5′-TAGATAATGGCCATCAT-3′	0	372	5E−110	AK098772	6p21.33	TUBB	Tubulin-β	F:structural constituent of cytoskeleton
5′-GTCTTAAAGTGAGATTT-3′	4	16	4E−03	NM_000636	6q25.3	SOD2	Superoxide dismutase 2, mitochondrial	P:negative regulation of fat cell differentiation
5′-TACATCCGAATGCTAAA-3′	0	212	4E−62	NM_001128619	7q33	LUZP6	Myotrophin	P:positive regulation of macromolecule biosynthetic process
5′-AACAGAAGCAAATGATG-3′	0	396	3E−117	BG480804	8q13|8q13	SNHG6	Small nucleolar RNA host gene 6 (non-protein coding)
5′-ATCAAATGCAACCTCAC-3′	0	364	1E−107	NM_002467	8q24.21	MYC	V-myc myelocytomatosis viral oncogene homolog (avian)	F:sequence-specific DNA-binding transcription factor activity
5′-GACAATGCCAGCAAGAA-3′	0	165	4E−48	NM_001001973	10p15.1	ATP5C1	ATP synthase, H+ transporting, mitochondrial F1 complex, gamma polypeptide 1	P:small molecule metabolic process
5′-GCCATAAAATGGCTTTA-3′	0	745	5E−222	NM_002727	10q22.1	SRGN	Serglycin	P:mast cell secretory granule organization
5′-CTAAATATTCTTTCCTA-3′	22	55	6E−05	NM_005445	10q25	SMC3	Structural maintenance of chromosomes 3	P:chromosome organization
5′-GGGACGGCGCGGAGGAG-3′	29	51	4E−03	NM_030930	11q13	UNC93B1	Unc-93 homolog B1 (C. elegans)	P:toll-like receptor-3 signaling pathway
5′-GTACAGGCTTGGAGCTT-3′	85	32	3E−07	NM_012296	11q14.1	GAB2	GRB2-associated binding protein 2	P:phosphatidylinositol-mediated signaling
5′-GACTTTTCTGGGAAATG-3′	0	179	3E−52	Z49194	11q23.1	POU2AF1	POU class 2 associating factor 1	P:regulation of transcription, DNA-dependent
5′-AATAGGTCCAACCAGCT-3′	9081	577	5E−123	NM_001028	11q23.3	RPS25	Ribosomal protein S25	P:mRNA metabolic process
5′-CCAGGAGGAATGCCTGG-3′	0	243	2E−71	BC042163	11q24.1	HSPA8	Heat shock 70 kDa protein 8	F:ATPase activity, coupled
5′-TTTCTGTATGTTAATGA-3′	0	415	6E−123	NM_001013699	12p11.21	H3F3C	H3 histone, family 3C	F:DNA binding
5′-GAAATGATGAGTCAGAA-3′	0	250	3E−73	BM562920	12q12	PFDN5	Prefoldin subunit 5	P:cellular protein metabolic process
5′-GAAATGTAAGAGTGGAA-3′	0	357	1E−105	AK123458	12q13.12-q13.13	PCBP2	Poly(rC)-binding protein 2	F:RNA binding
5′-GTGCTGAATGGCTGAGG-3′	0	1162	9E−173	BC017455	12q13.2	MYL6	Myosin, light chain 6, alkali, smooth muscle and non-muscle	P:skeletal muscle tissue development
5′-TCACAAGCAAATGTGTC-3′	0	5532	9E−206	NM_001113203	12q23-q24.1	NACA	Nascent polypeptide-associated complex-α subunit	P:translation
5′-TTTCTGTGAAAATGTAT-3′	0	232	4E−68	NM_004592	12q24.33	SFSWAP	Splicing factor, suppressor of white-apricot homolog (Drosophila)	P:regulation of transcription, DNA-dependent
5′-CTGTTGATTGCTAAATG-3′	0	334	1E−98	AK126454	13q14.3	HNRNPA1L2	Heterogeneous nuclear ribonucleoprotein A1-like 2	F:RNA binding
5′-TCAAATGCATCCTCTAG-3′	0	702	4E−209	AK126950	14q11.2	HNRNPC	Heterogeneous nuclear ribonucleoprotein C (C1/C2)	F:nucleic acid binding
5′-GAGATCCGCAATGCTTA-3′	0	745	5E−222	NM_006263	14q11.2	PSME1	Proteasome (prosome, macropain) activator subunit 1 (PA28-α)	P:small molecule metabolic process
5′-GAGATGCCTTTGGTGCT-3′	17	3	1E−03	NM_005132	14q11.2-q12	REC8	REC8 homolog (yeast)	P:meiosis
5′-GAAATAAAGCACCCACC-3′	8003	739	1E−96	BC016381	14q32.33	IGHM	Immunoglobulin heavy constant gamma 1 (G1m marker)	F:antigen binding
5′-TTTAATACATAGGTGAT-3′	0	189	3E−55	NM_001014812	15q22.31	FAM96A	Family with sequence similarity 96, member A	F:molecular_function
5′-TAATGGTAACTTGGACT-3′	0	177	1E−51	NM_004255	15q24.1	COX5A	Cytochrome c oxidase subunit Va	F:metal ion binding
5′-TTTGTATTGCACAGATC-3′	29	49	6E−03	NM_144572	15q24.3-q25.1	TBC1D2B	TBC1 domain family, member 2B	F:phospholipid binding
5′-AGACCTGTAATAAAATA-3′	6	20	3E−03	NM_006565	16q21-q22.3	CTCF	CCCTC-binding factor (zinc finger protein)	P:regulation of histone methylation
5′-AAAAAGATAATGGAGAC-3′	0	215	5E−63	AK295346	18q21.32	SEC11C	SEC11 homolog C (S. cerevisiae)	P:cellular protein metabolic process
5′-GCCTTATCTGTTCCAGT-3′	33	9	1E−04	NM_002918	19p13.1	RFX1	Regulatory factor X, 1 (influences HLA class II expression)	F:RNA polymerase II distal enhancer sequence-specific DNA-binding transcription factor activity
5′-TGTTAATGTTACGATGT-3′	0	243	2E−71	AB209074	19p13.3	MKNK2	MAP kinase-interacting serine/threonine kinase 2	F:protein serine/threonine kinase activity
5′-CACGCAATGCTAGCTGC-3′	0	654	1E−194	AK095154	19p13.3	AES	Amino-terminal enhancer of split	P:response to interleukin-1
5′-CCCCCAATGCTGAGGCC-3′	0	684	1E−203	NM_007165	19p13.3-p13.2	SF3A2	Splicing factor 3a, subunit 2, 66 kDa	F:metal ion binding
5′-GCCCAGCTCAAATGCTA-3′	0	189	3E−55	AK308809	19q13.2	PSMD8	Proteasome (prosome, macropain) 26S subunit, non-ATPase, 8	P:proteolysis
5′-AAATGTTTGGCCTTAGT-3′	0	368	8E−109	NM_012068	19q13.3	ATF5	Activating transcription factor 5	F:sequence-specific DNA binding
5′-CCTTCGAGATCATACAC-3′	147	5856	2E−189	BG165682	19q13.4	RPS5	Ribosomal protein S5	P:mRNA metabolic process
5′-CCAGGAACAATGTCTCC-3′	0	309	4E−91	AK054634	20p11	SNX5	Sorting nexin 5	P:cell communication
5′-ACAAATCCTTGAATGTT-3′	0	290	1E−85	NM_000801	20p13	FKBP1A	FK506-binding protein 1A, 12 kDa	F:transforming growth factor-β-activated receptor activity
5′-AAGGAAGCAATGGTTCA-3′	0	163	3E−47	NM_006392	20p13	NOP56	NOP56 ribonucleoprotein homolog (yeast)	F:RNA binding
5′-TAAATAAATACATTCTT-3′	0	6	5E−03	NM_000484	21q21.2	APP	Amyloid-β (A4) precursor protein	P:axon cargo transport
5′-GACTTGGCCCAAAAGAA-3′	64	5	1E−14	NM_000819	21q22.11	GART	Phosphoribosylglycinamide formyltransferase, phosphoribosylglycinamide synthetase, phosphoribosylaminoimidazole synthetase	P:small molecule metabolic process
5′-GCTTCCTAAATGGCCCT-3′	0	6	500E−03	NM_000071	21q22.3	CBS	Cystathionine-β-synthase	P:cartilage development involved in endochondral bone morphogenesis
5′-CTCAGGAAATAAATGTG-3′	0	192	4E−56	BC005402	22cen-q12.3	UQCR10	Ubiquinol-cytochrome c reductase, complex III subunit X	P:small molecule metabolic process
5′-AACGCGGCCAATGTGGG-3′	0	623	4E−185	BC036909	22q11.23	LOC284889	Hypothetical LOC284889	F:phenylpyruvate tautomerase activity
5′-AAACTAGAAATGTCATC-3′	0	433	2E−128	AF230904	Xp22.1-p21.3	SH3KBP1	SH3-domain kinase-binding protein 1	P:regulation of cell shape
5′-CAATGTGTTATGTAGTG-3′	0	197	1E−57	NM_004541	Xq24	NDUFA1	NADH dehydrogenase (ubiquinone) 1-α subcomplex, 1, 7.5 kDa	F:NADH dehydrogenase (ubiquinone) activity
5′-GTTAATAACAAATGAAT-3′	0	35	2E−11	NM_006603	Xq25	STAG2	Stromal antigen 2	P:negative regulation of DNA endoreduplication
5′-TGAAGGATGCCAATGGC-3′	0	220	1E−64	NM_001008	Yp11.3	RPS4Y1	Ribosomal protein S4, Y-linked 1	P:mRNA metabolic process
5′-GAATCCAACTGCTTCGA-3′	3597	176	5E−105	AJ712551	—	—	Transcribed locus, moderately similar to NP_061929.2 NADH dehydrogenase (ubiquinone) 1-β subcomplex subunit 11, mitochondrial isoform 1 (Homo sapiens)	P:small molecule metabolic process
5′-CTGCTATACGAGAGAAT-3′	22	2699	2E−192	AV755966	—	—	Transcribed locus, strongly similar to XP_003086526.1 PREDICTED: 60S ribosomal protein L5-like isoform 3 (Mus musculus)	P:mRNA metabolic process
5′-AGGGCAGGGAATGTGTC-3′	0	175	4E−51	AW967735	—	—	Transcribed locus
5′-ACTTTTTCAAAAAAAAA-3′	5286	213	3E−159	BE877281	—	—	Transcribed locus, strongly similar to NP_001460.1 X-ray repair cross-complementing protein 6 (Homo sapiens)	F:helicase activity
5′-GGGACGGCGCGGAGGAG-3′	29	51	4E−03	BG469659	—	—	Transcribed locus, moderately similar to XP_001721426.3 PREDICTED: protein unc-93 homolog B1-like (Homo sapiens)	P:toll-like receptor 3-signaling pathway
5′-AATAAATGGATCTGTGA-3′	0	224	1E−65	BG498681	—	—	Transcribed locus, moderately similar to NP_004885.1 6.8 kDa mitochondrial proteolipid isoform 1 (Homo sapiens)
5′-CAAATGAGGAGTGCCAG-3′	0	541	1E−160	BG680089	—	—	Transcribed locus, strongly similar to XP_002729159.1 PREDICTED: cold shock domain-containing E1, RNA binding (Rattus norvegicus)
5′-TTTATTTAAGAAATGGA-3′	0	239	3E−70	BM541359	—	—	Transcribed locus, strongly similar to NP_001013208.1 UV excision repair protein RAD23 homolog A (Rattus norvegicus)
5′-CAATAAATGTTCTGGTT-3′	0	1496	6E−223	BM553029	—	—	CDNA clone IMAGE:6385453	F:metal ion binding
5′-TTTTTAATGTTGTCTGT-3′	0	233	2E−68	BU566862	—	—	Transcribed locus
5′-CTTCGGATGTCTTGGAG-3′	16	73	2E−10	NM_001007226	—	SPOP	Transcribed locus	F:ubiquitin protein ligase binding
5′-CCACCCCGAATGGCTCA-3′	0	771	8E−230	NM_001098576	—	—	Transcribed locus	P:apoptotic process
5′-AATACTTAAATGCCAAC-3′	0	399	4E−118	NM_006990	—	WASF2	MRNA adjacent to 3- end of integrated HPV16 (INT290)	P:lamellipodium assembly

The 17 bp DGE-tags are indicated in the first column. The 2nd and 3rd columns indicate the exact occurrences of the DGE-tags sequenced. The ‘0' value indicate that a DGE-tag was not identified in one of the 2 groups. Some GO (http://www.geneontology.org/) annotations are listed in the last column with ‘P:*' for Biological process and ‘F:*' for molecular function.