A	1	06-10-08_Hennighausen_1PK_Mouse430_2_4038WT	GSP-EG003.2 Hennighausen
	A	2	06-10-08_Hennighausen_2PK_Mouse430_2_4060WT	GSP-EG003.2 Hennighausen
	A	3	06-10-08_Hennighausen_3PK_Mouse430_2_4063WT	GSP-EG003.2 Hennighausen
	B	4	06-10-08_Hennighausen_4PK_Mouse430_2_4035KO	GSP-EG003.2 Hennighausen
	B	5	06-10-08_Hennighausen_5PK_Mouse430_2_4036KO	GSP-EG003.2 Hennighausen
	B	6	06-10-08_Hennighausen_6PK_Mouse430_2_4042KO	GSP-EG003.2 Hennighausen
The input data set contained 45101 genes
The filtered output data set contains 19 genes
43442 gene rows removed by Include where <b>A-B T-test p-value (two tailed)</b> <= 0.05 
1640 gene rows removed by Include where <b>A-B Mean Difference</b> <= -1 

A	A	A	B	B	B
06-10-08_Hennighausen_1PK_Mouse430_2_4038WT GSP-EG003.2 Hennighausen	06-10-08_Hennighausen_2PK_Mouse430_2_4060WT GSP-EG003.2 Hennighausen	06-10-08_Hennighausen_3PK_Mouse430_2_4063WT GSP-EG003.2 Hennighausen	06-10-08_Hennighausen_4PK_Mouse430_2_4035KO GSP-EG003.2 Hennighausen	06-10-08_Hennighausen_5PK_Mouse430_2_4036KO GSP-EG003.2 Hennighausen	06-10-08_Hennighausen_6PK_Mouse430_2_4042KO GSP-EG003.2 Hennighausen	A-B p-Value	A-B Mean Difference	A Mean	B Mean	Well ID	Feature ID	Map	mgB37_Probe Chr:Start-Stop	mgB37_Probe Cytoband	mgB37_RefSeq Chr:Start-Stop	mgB37_RefSeq Cytoband	Annotation_Src	UniGene	RefSeq	Refseqs_Hit	geneIDS_Hit	Entrez GeneID	Locus Tag	Gene	Description	BioCarta  Pathways	KEGG Pathways	Gene Ontology Terms	GO Tier2 Component	GO Tier3 Component	GO Tier2 Function	GO Tier3 Function	GO Tier2 Process	GO Tier3 Process
1091.3115	612.3186	635.9214	1565.4321	2320.3607	1921.4254	0.019383957	-1.34592	9.55423	10.90015	1327963	1416273_at	12 56.0 cM	chr12:112692639-112692973	12 F1	chr12:112683139-112693229	12 F1	RSQ	Mm.255332	NM_009396	1	1	21928		  Tnfaip2	tumor necrosis factor, alpha-induced protein 2 (Tnfaip2), mRNA.			angiogenesis;; cell differentiation;; multicellular organismal development					anatomical structure formation;; cellular process;; developmental process;; multicellular organismal process	anatomical structure development;; anatomical structure formation involved in morphogenesis;; anatomical structure morphogenesis;; cellular developmental process;; multicellular organismal development
74.1940	72.3079	66.3027	182.2095	154.0949	160.2428	0.00034890631	-1.22031	6.14677	7.36708	1327998	1416318_at	13 12.0 cM	chr13:32934621-32937204	13 A3.2	chr13:32933960-32943054	13 A3.2	RSQ	Mm.20144	NM_025429	1	1	66222	RP23-427P14.4	  Serpinb1a	serine (or cysteine) peptidase inhibitor, clade B, member 1a (Serpinb1a), mRNA.			cytoplasm;; endopeptidase inhibitor activity;; regulation of protein catabolic process;; serine-type endopeptidase inhibitor activity	cell;; cell part	cell part;; intracellular;; intracellular part	enzyme regulator activity	enzyme inhibitor activity	biological regulation;; metabolic process;; regulation of biological process	catabolic process;; macromolecule metabolic process;; primary metabolic process;; regulation of biological process;; regulation of metabolic process
269.9078	781.6517	228.4423	2008.4111	1945.6615	2428.3396	0.040945566	-2.54042	8.50746	11.04788	1329660	1418370_at	14 10.0 cM	chr14:32023339-32024836	14 B	chr14:32021497-32024897	14 B	RSQ	Mm.439921	NM_009393	1	1	21924		  Tnnc1	troponin C, cardiac/slow skeletal (Tnnc1), mRNA.		Calcium signaling pathway;; Cardiac muscle contraction CLASS Environmental Information Processing; Signal Transduction; Calcium signaling pathway [PATH:mmu04020] Cellular Processes; Circulatory System; Cardiac muscle contraction [PATH:mmu04260]	actin filament binding;; calcium ion binding;; regulation of ATPase activity;; regulation of muscle filament sliding speed			binding	ion binding;; protein binding	biological regulation;; cellular process;; establishment of localization;; localization;; multicellular organismal process;; regulation of biological process	actin filament-based process;; cellular localization;; establishment of localization;; establishment of localization in cell;; regulation of biological process;; regulation of biological quality;; regulation of cellular process;; regulation of localization;; regulation of molecular function;; regulation of multicellular organismal process;; system process;; transport
30.1154	38.2075	40.1069	111.3767	89.7235	88.2856	0.0011928135	-1.41894	5.16466	6.58361	1330250	1419086_at	5	chr5:44370129-44370679	5 B3	chr5:44370098-44373001	5 B3	RSQ	Mm.46053	NM_008009	1	1	14181		  Fgfbp1	fibroblast growth factor binding protein 1 (Fgfbp1), mRNA.			extracellular region;; growth factor binding;; membrane;; plasma membrane	cell;; cell part;; extracellular region	cell part;; membrane	binding	protein binding		
178.8438	211.0753	231.5755	587.5316	395.1282	487.1988	0.0054222097	-1.23119	7.68650	8.91769	1331506	1420884_at	9	chr9:53698088-53701597	9 A5.3	chr9:53698057-53701656	9 A5.3	RSQ	Mm.29132	NM_025540	1	1	66402		  Sln	sarcolipin (Sln), mRNA.			enzyme regulator activity;; integral to membrane;; membrane;; sarcoplasmic reticulum	cell;; cell part;; organelle	cell part;; intracellular;; intracellular organelle;; intracellular part;; membrane;; membrane part;; membrane-bounded organelle	enzyme regulator activity			
113.1034	81.5462	77.9860	162.8186	218.5802	179.4852	0.0093021397	-1.05022	6.48540	7.53562	1332186	1421830_at	4 47.6 cM	chr4:101139016-101139266	4 C6	chr4:101092363-101139600	4 C6	RSQ	Mm.42040	NM_009647	2	2	11639	RP23-301M3.3	  Ak3l1	adenylate kinase 3-like 1 (Ak3l1), nuclear gene encoding mitochondrial protein, mRNA.		Metabolic pathways CLASS Metabolism; Nucleotide Metabolism; Purine metabolism [PATH:mmu00230];; Purine metabolism	adenylate kinase activity;; ATP binding;; GTP binding;; kinase activity;; mitochondrion;; nucleobase, nucleoside, nucleotide and nucleic acid metabolic process;; nucleobase, nucleoside, nucleotide kinase activity;; nucleotide binding;; nucleotide kinase activity;; phosphotransferase activity, phosphate group as acceptor;; transferase activity	cell;; cell part;; organelle	cell part;; intracellular;; intracellular organelle;; intracellular part;; membrane-bounded organelle	binding;; catalytic activity	nucleoside binding;; nucleotide binding;; transferase activity	cellular process;; metabolic process	cellular metabolic process;; nitrogen compound metabolic process;; primary metabolic process
517.6892	585.7949	674.0960	1349.6060	1406.0643	1441.9590	0.0052749455	-1.24753	9.20233	10.44986	1332719	1422558_at	10 43.0 cM	chr10:79721002-79722530	10 C1	chr10:79720895-79723713	10 C1	RSQ	Mm.7329	NM_010255	1	1	14431		  Gamt	guanidinoacetate methyltransferase (Gamt), mRNA.		Arginine and proline metabolism;; Glycine, serine and threonine metabolism;; Metabolic pathways CLASS Metabolism; Amino Acid Metabolism; Glycine, serine and threonine metabolism [PATH:mmu00260] Metabolism; Amino Acid Metabolism; Arginine and proline metabolism [PATH:mmu00330]	creatine biosynthetic process;; guanidinoacetate N-methyltransferase activity;; methyltransferase activity;; organ morphogenesis;; regulation of multicellular organism growth;; spermatogenesis;; transferase activity			catalytic activity	transferase activity	biological regulation;; cellular process;; developmental process;; growth;; metabolic process;; multicellular organismal process;; regulation of biological process;; reproduction;; reproductive process	anatomical structure development;; anatomical structure morphogenesis;; biosynthetic process;; cellular metabolic process;; gamete generation;; multicellular organism growth;; multicellular organismal development;; nitrogen compound metabolic process;; primary metabolic process;; regulation of biological process;; regulation of growth;; regulation of multicellular organismal process;; reproductive process;; sexual reproduction
1112.3910	1549.3411	1482.3400	3852.3579	2425.2815	2524.0403	0.018573107	-1.06881	10.41685	11.48566	1335990	1427201_at	14	chr14:31692621-31694325	14 B	chr14:31692442-31694796	14 B	RSQ	Mm.220895	NM_181390	1	1	66175		  Mustn1	musculoskeletal, embryonic nuclear protein 1 (Mustn1), mRNA.			nucleus	cell;; cell part;; organelle	cell part;; intracellular;; intracellular organelle;; intracellular part;; membrane-bounded organelle				
1937.2358	1153.9852	1051.9975	2594.0235	3370.5477	2549.9669	0.040723537	-1.08163	10.37704	11.45867	1347930	1438855_x_at	12 56.0 cM	chr12:112692993-112693192	12 F1			IPA							  Tnfaip2	tumor necrosis factor, alpha-induced protein 2									
98.3841	328.7075	154.5816	769.0408	813.4041	721.9121	0.049555307	-2.16573	7.41775	9.58347	1348252	1448554_s_at	14 20.0 cM	chr14:55590223-55591731	14 C3	chr14:55589524-55613386	14 C3	RSQ	Mm.457983	NM_080728	2	2	140781		  Myh7	myosin, heavy polypeptide 7, cardiac muscle, beta (Myh7), mRNA.		Cardiac muscle contraction;; Tight junction CLASS Cellular Processes; Cell Communication; Tight junction [PATH:mmu04530] Cellular Processes; Circulatory System; Cardiac muscle contraction [PATH:mmu04260]	actin binding;; ATP binding;; calmodulin binding;; cytoplasm;; motor activity;; myofibril;; myosin complex;; nucleotide binding;; striated muscle contraction;; striated muscle thick filament	cell;; cell part;; macromolecular complex;; organelle;; organelle part	cell part;; intracellular;; intracellular organelle;; intracellular organelle part;; intracellular part;; non-membrane-bounded organelle;; organelle part;; protein complex	binding;; catalytic activity	hydrolase activity;; nucleoside binding;; nucleotide binding;; protein binding	multicellular organismal process	system process
35.0984	23.1433	29.4871	67.2878	68.1489	56.9569	0.010746921	-1.14894	4.84929	5.99823	1339138	1448680_at	12 51.0 cM	chr12:105133323-105135281	12 E	chr12:105133135-105143160	12 E	RSQ	Mm.439694	NM_009245	2	2	20702		  Serpina1c	serine (or cysteine) peptidase inhibitor, clade A, member 1C (Serpina1c), mRNA.			endopeptidase inhibitor activity;; extracellular region;; protein amino acid N-linked glycosylation;; protein binding;; response to cytokine stimulus;; response to peptide hormone stimulus;; serine-type endopeptidase inhibitor activity	extracellular region		binding;; enzyme regulator activity	enzyme inhibitor activity;; protein binding	cellular process;; metabolic process;; response to stimulus	biosynthetic process;; cellular metabolic process;; macromolecule metabolic process;; primary metabolic process;; response to chemical stimulus;; response to endogenous stimulus
249.1013	748.7493	300.0638	1856.5197	1897.4333	2285.0254	0.035580778	-2.38939	8.57935	10.96874	1340138	1449997_at	3 F1	chr3:89892969-89896013	3 F1			UGA	Mm.240839				59069		  Tpm3	Tropomyosin 3, gamma, mRNA (cDNA clone MGC:36031 IMAGE:4502880)		Cardiac muscle contraction;; Pathways in cancer;; Thyroid cancer CLASS Cellular Processes; Circulatory System; Cardiac muscle contraction [PATH:mmu04260] Human Diseases; Cancers; Pathways in cancer [PATH:mmu05200] Human Diseases; Cancers; Thyroid Cancer [PATH:mmu05216]	actin binding;; cleavage furrow;; cortical cytoskeleton;; cytoplasm;; cytoskeleton;; filamentous actin;; growth cone;; neuron projection;; podosome	cell;; cell part;; macromolecular complex;; organelle;; organelle part	cell division site;; cell division site part;; cell part;; cell projection;; intracellular;; intracellular organelle;; intracellular organelle part;; intracellular part;; non-membrane-bounded organelle;; organelle part;; protein complex;; site of polarized growth	binding	protein binding		
218.2075	134.3381	114.9569	315.7167	362.3709	375.1926	0.040083447	-1.22369	7.22808	8.45177	1348663	1450387_s_at	4 47.6 cM	chr4:101139123-101139504	4 C6	chr4:101092363-101139600	4 C6	RSQ	Mm.42040	NM_009647	2	2	11639	RP23-301M3.3	  Ak3l1	adenylate kinase 3-like 1 (Ak3l1), nuclear gene encoding mitochondrial protein, mRNA.		Metabolic pathways CLASS Metabolism; Nucleotide Metabolism; Purine metabolism [PATH:mmu00230];; Purine metabolism	adenylate kinase activity;; ATP binding;; GTP binding;; kinase activity;; mitochondrion;; nucleobase, nucleoside, nucleotide and nucleic acid metabolic process;; nucleobase, nucleoside, nucleotide kinase activity;; nucleotide binding;; nucleotide kinase activity;; phosphotransferase activity, phosphate group as acceptor;; transferase activity	cell;; cell part;; organelle	cell part;; intracellular;; intracellular organelle;; intracellular part;; membrane-bounded organelle	binding;; catalytic activity	nucleoside binding;; nucleotide binding;; transferase activity	cellular process;; metabolic process	cellular metabolic process;; nitrogen compound metabolic process;; primary metabolic process
146.8151	436.8152	198.0208	1158.1453	1100.0280	1474.7292	0.028790526	-2.40297	7.86608	10.26905	1348770	1450813_a_at	1 60.0 cM			chr1:137696087-137707566	1 E4	RSQ	Mm.44379	NM_001112702	2	1	21952		  Tnni1	troponin I, skeletal, slow 1 (Tnni1), transcript variant 2, mRNA.			actin binding;; ventricular cardiac muscle morphogenesis			binding	protein binding	developmental process;; multicellular organismal process	anatomical structure development;; anatomical structure morphogenesis;; multicellular organismal development
563.5964	511.8688	736.6675	1215.0369	1560.5489	1229.2415	0.0053308228	-1.15172	9.22101	10.37272	1343080	1460700_at	11 60.5 cM	chr11:100748149-100748711	11 D	chr11:100748123-100800825	11 D	RSQ	Mm.249934	NM_011486	3	1	20848	RP23-279L23.5	  Stat3	signal transducer and activator of transcription 3 (Stat3), transcript variant 3, mRNA.	EGF Signaling Pathway;; Erk1/Erk2 Mapk Signaling pathway;; IL 6 signaling pathway;; IL22 Soluble Receptor Signaling Pathway;; PDGF Signaling Pathway;; Role of ERBB2 in Signal Transduction and Oncology;; Signaling of Hepatocyte Growth Factor Receptor;; Stat3 Signaling Pathway;; TPO Signaling Pathway	Acute myeloid leukemia CLASS Environmental Information Processing; Signal Transduction; Jak-STAT signaling pathway [PATH:mmu04630] Cellular Processes; Endocrine System; Adipocytokine signaling pathway [PATH:mmu04920] Cellular Processes; Immune System; Chemokine signaling pathway [PATH:mmu04062] Human Diseases; Cancers; Pathways in cancer [PATH:mmu05200];; Adipocytokine signaling pathway;; Chemokine signaling pathway;; Jak-STAT signaling pathway;; Pancreatic cancer;; Pathways in cancer	acute-phase response;; calcium ion binding;; cytokine-mediated signaling pathway;; cytoplasm;; DNA binding;; eating behavior;; eye photoreceptor cell differentiation;; glucose homeostasis;; JAK-STAT cascade involved in growth hormone signaling pathway;; nucleus;; plasma membrane;; positive regulation of transcription from RNA polymerase II promoter;; protein binding;; protein dimerization activity;; protein kinase binding;; regulation of multicellular organism growth;; regulation of transcription from RNA polymerase II promoter;; regulation of transcription, DNA-dependent;; sequence-specific DNA binding;; sexual reproduction;; signal transducer activity;; signal transduction;; temperature homeostasis;; transcription;; transcription activator activity;; transcription factor activity;; transcription from RNA polymerase II promoter	cell;; cell part;; organelle	cell part;; intracellular;; intracellular organelle;; intracellular part;; membrane;; membrane-bounded organelle	binding;; molecular transducer activity;; transcription regulator activity	ion binding;; nucleic acid binding;; protein binding;; signal transducer activity;; transcription activator activity;; transcription factor activity	biological regulation;; cellular process;; developmental process;; growth;; metabolic process;; multicellular organismal process;; positive regulation of biological process;; regulation of biological process;; reproduction;; response to stimulus	anatomical structure development;; anatomical structure morphogenesis;; behavior;; biosynthetic process;; cell communication;; cellular developmental process;; cellular metabolic process;; cellular response to stimulus;; macromolecule metabolic process;; multicellular organism growth;; multicellular organismal development;; nitrogen compound metabolic process;; positive regulation of biological process;; positive regulation of cellular process;; positive regulation of metabolic process;; primary metabolic process;; regulation of biological process;; regulation of biological quality;; regulation of cellular process;; regulation of growth;; regulation of metabolic process;; regulation of multicellular organismal process;; response to chemical stimulus;; response to endogenous stimulus;; response to external stimulus;; response to stress;; sexual reproduction;; temperature homeostasis
208.0928	181.2786	169.2994	576.1519	675.4474	1166.6011	0.016057694	-2.05051	7.53553	9.58603	1370826	1428420_a_at	12	chr12:112667670-112669350	12 F1	chr12:112655640-112669394	12 F1	RSQ	Mm.248640	NM_028807	1	1	74190		  1200009I06Rik	RIKEN cDNA 1200009I06 gene (1200009I06Rik), mRNA.									
210.8462	215.7630	218.0549	459.4518	757.4940	561.2626	0.020322115	-1.43316	7.74730	9.18046	1365310	1453119_at	2	chr2:19581695-19582189	2 A3			UGA	Mm.470264						  	Transcribed locus									
195.5695	138.2218	161.4077	393.0408	457.7161	322.8464	0.0037471724	-1.24487	7.35232	8.59718	1367914	1457102_at	18	chr18:68501510-68501988	18 E2			UGA	Mm.95774						  	Transcribed locus									
31.6866	34.7647	32.0440	106.5041	232.3178	226.1078	0.021004874	-2.43608	5.03578	7.47186	1368821	1458115_at	8	chr8:64401070-64401578	8 B3.1			UGA	Mm.440931						  	Transcribed locus