MK5 Microarray Data

These are the micro-array results of a differential gene expression microarray experiments and the subsequent analysis steps performed on them. The up/down- regulation ratio was obtained by measuring WT cells against MK5 activated cells. See material and methods for technical information as well as the data usage policy.

Proteome Analysis

Below the proteome analysis is presented. The analysis methods are presented in the paper Propagating Differential Gene Expression in Protein Interaction Networks. If you are interested in the most reliable results choose the

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Network Comparison Type	Rank	description	Gene	Value Type	Hugo	Interaction Map	Filtered	red	green	network_comparison

Results: HTML CSV LaTeX

Showing element 1262 to 1311 of 16578 in total

Network Comparison Type  : Divided
Value Type  : Ranked
Filtered  : 1

Rank	description	Hugo	Interaction Map	red	green	network_comparison
631	similar to expressed sequence aa415817. [sptrembl;acc:q8n4q9]	PDXDC1	High confidence	214.256	202.141	1.05993
632	dj1099d15.1 (putative dnaj protein). [sptrembl;acc:q9h4j9]	no value	Low confidence	204.242	198.448	1.0292
	homeobox protein hox-d9 (hox-4c) (hox-5.2). [swissprot;acc:p28356]	HOXD9	High confidence	214.254	202.166	1.05979
633	alanyl-trna synthetase (ec 6.1.1.7) (alanine--trna ligase) (alars). [swissprot;acc:p49588]	AARS		234.106	248.104
	pp1201 protein. [refseq;acc:nm_022152]	TMBIM1	Low confidence	203.734	197.956	1.02919
634	dead-box protein abstrakt homolog. [swissprot;acc:q9ujv9]	no value	High confidence	226.523	213.786	1.05958
	tsc22-related inducible leucine zipper protein 2 (tsc-22-like protein thg-1). [swissprot;acc:q9y3q8]	TSC22D4	Low confidence	203.726	197.955	1.02915
635	60s ribosomal protein l37 (g1.16). [swissprot;acc:p02403]	RPL37	High confidence	228.639	242.258	1.05957
	bardet-biedl syndrome 7 protein isoform a; bbs2-like 1. [refseq;acc:nm_176824]	BBS7	Low confidence	207.763	201.882	1.02913
636	probable rna-binding protein kiaa0682. [swissprot;acc:q9y4c8]	RBM19		206.001	200.193	1.02901
	splicing factor, arginine/serine-rich 1 (pre-mrna splicing factor sf2, p33 subunit) (alternative splicing factor asf-1). [swissprot;acc:q07955]	SFRS1	High confidence	228.639	242.258	1.05957
637	1-acyl-sn-glycerol-3-phosphate acyltransferase gamma (ec 2.3.1.51) (1- agp acyltransferase 3) (1-agpat 3) (lysophosphatidic acid acyltransferase-gamma) (lpaat-gamma) (1-acylglycerol-3-phosphate o- acyltransferase 3). [swissprot;acc:q9nrz7]	AGPAT3	Low confidence	192.166	186.751	1.029
	amidophosphoribosyltransferase precursor (ec 2.4.2.14) (glutamine phosphoribosylpyrophosphate amidotransferase) (atase) (gpat). [swissprot;acc:q06203]	PPAT	High confidence	228.639	242.258	1.05957
638	nuclear fragile x mental retardation protein interacting protein 1; nuclear fragile x mental retardation intercating protein 1; nuclear fragile x mental retardation protein-interacting protein 1. [refseq;acc:nm_012345]	NUFIP1	Low confidence	203.825	198.081	1.029
	sorting nexin 17. [swissprot;acc:q15036]	SNX17	High confidence	228.639	242.258	1.05957
639	nucleoporin-like protein rip (hiv-1 rev-binding protein) (rev interacting protein) (rev/rex activation domain-binding protein). [swissprot;acc:p52594]	HRB		217.67	230.596	1.05938
	putative n6-dna-methyltransferase (ec 2.1.1.-) (protein pred28) (m.hsahemk2p). [swissprot;acc:q9y5n5]	N6AMT1	Low confidence	204.933	199.164	1.02897
640	intersectin 1 (sh3 domain-containing protein 1a) (sh3p17). [swissprot;acc:q15811]	no value	High confidence	217.67	230.596	1.05938
	megf6 (fragment). [sptrembl;acc:o75095]	MEGF6	Low confidence	207.235	201.402	1.02896
641	pram-1 protein; pml-rara target gene encoding an adaptor molecule-1. [refseq;acc:nm_032152]	PRAM1	High confidence	217.67	230.596	1.05938
	rabaptin, rab gtpase binding effector protein 1; rabaptin-5; neurocrescin. [refseq;acc:nm_004703]	RABEP1	Low confidence	198.493	192.907	1.02896
642	cullin homolog 2 (cul-2). [swissprot;acc:q13617]	CUL2		203.883	198.148	1.02894
	intersectin 2 (sh3 domain-containing protein 1b) (sh3p18) (sh3p18-like wasp associated protein). [swissprot;acc:q9nzm3]	no value	High confidence	217.67	230.596	1.05938
643	hemk protein homolog (ec 2.1.1.-) (m.hsahemkp). [swissprot;acc:q9y5r4]	HEMK1	Low confidence	203.104	197.399	1.0289
	hiv-1 rev binding protein-like; rev/rex activation domain binding protein-related. [refseq;acc:nm_006076]	HRBL	High confidence	217.67	230.596	1.05938
644	cgthba protein (-14 gene protein). [swissprot;acc:q12980]	C16orf35
	ptb domain adaptor protein ced-6; engulfment adapter protein. [refseq;acc:nm_016315]	GULP1	Low confidence	203.911	198.193	1.02885
645	hiv tat specific factor 1; cofactor required for tat activation of hiv-1 transcription. [refseq;acc:nm_014500]	HTATSF1	High confidence	217.67	230.596	1.05938
	protein disulfide isomerase a2 precursor (ec 5.3.4.1) (pdip). [swissprot;acc:q13087]	PDIA2	Low confidence	204.488	198.765	1.02879
646	short coiled-coil protein; short coiled coil protein. [refseq;acc:nm_032547]	SCOC	High confidence	216.731	229.549	1.05914
	transcription factor btf3 homolog 1. [swissprot;acc:q13890]	BTF3L1	Low confidence	204.634	198.914	1.02876
647	brefeldin a-inhibited guanine nucleotide-exchange protein 1 (brefeldin a-inhibited gep 1) (p200 arf-gep1) (p200 arf guanine nucleotide exchange factor). [swissprot;acc:q9y6d6]	ARFGEF1		203.293	197.621	1.0287
	dynein light chain 2. [refseq;acc:nm_080677]	DYNLL2	High confidence	216.731	229.549	1.05914
648	aldehyde dehydrogenase 7 (ec 1.2.1.5). [swissprot;acc:p43353]	ALDH3B1	Low confidence	210.325	216.359	1.02869
	methionyl-trna synthetase (ec 6.1.1.10) (methionine--trna ligase) (metrs). [swissprot;acc:p56192]	MARS	High confidence	218.227	206.078	1.05895
649	brefeldin a-inhibited guanine nucleotide-exchange protein 2 (brefeldin a-inhibited gep 2). [swissprot;acc:q9y6d5]	ARFGEF2	Low confidence	203.283	197.617	1.02867
	eukaryotic translation initiation factor 4e (eif-4e) (eif4e) (mrna cap-binding protein) (eif-4f 25 kda subunit). [swissprot;acc:p06730]	EIF4E	High confidence	233.725	220.751	1.05877
650	similar to s. cerevisiae ssm4. [refseq;acc:nm_005885]	MARCH6	Low confidence	207.662	201.876	1.02866
	u6 snrna-associated sm-like protein lsm7. [swissprot;acc:q9uk45]	no value	High confidence	228.986	216.276	1.05877
651	bai1-associated protein 3; bai-associated protein 3. [refseq;acc:nm_003933]	BAIAP3		233.725	220.751
	large proline-rich protein bat3 (hla-b-associated transcript 3) (g3). [swissprot;acc:p46379]	no value	Low confidence	207.662	201.876	1.02866
652	tgf beta-inducible nuclear protein 1; hairy cell leukemia protein 1. [refseq;acc:nm_014886]		High confidence	248.994	235.255	1.0584
	zinc finger protein t86. [swissprot;acc:o00488]	ZNF593	Low confidence	205.897	200.163	1.02865
653	dihydroorotate dehydrogenase, mitochondrial precursor (ec 1.3.3.1) (dihydroorotate oxidase) (dhodehase) (fragment). [swissprot;acc:q02127]	DHODH		203.975	198.304	1.0286
	dok-like protein. [refseq;acc:nm_024872]	no value	High confidence	216.504	204.622	1.05807
654	docking protein 2 (p56(dok-2)) (downstream of tyrosine kinase 2). [swissprot;acc:o60496]	DOK2
	zinc finger homeobox protein 1b (smad interacting protein 1) (smadip1) (hrihfb2411). [swissprot;acc:o60315]	ZEB2	Low confidence	205.995	200.27	1.02859
655	docking protein 1 (p62(dok)) (downstream of tyrosine kinase 1) (pp62). [swissprot;acc:q99704]	DOK1	High confidence	216.504	204.622	1.05807
	transcription factor 8 (nil-2-a zinc finger protein) (negative regulator of il2). [swissprot;acc:p37275]	ZEB1	Low confidence	205.995	200.27	1.02859
656	integrin beta-2 precursor (cell surface adhesion glycoproteins lfa- 1/cr3/p150,95 beta-subunit) (cd18) (complement receptor c3 beta- subunit). [swissprot;acc:p05107]	ITGB2		206.339	200.608	1.02857

Legend:
- Rank is the rank after comparing the two networks
- Gene is the ensembl human gene identifier measured by 1 or more probes on the microarray
- Hugo is the HGNC identifier if it exists
- Value Type describes how the microarray measurement was processed. Ranked indicates that we sorted all measurements and use the rank as red and green value. Measured is the normal measurement. Squared and Rooted are the square and square root respecitcely. This might be valueable to compensate for non linear light distributions.
- Network Comparison Type describes whether we divided the red and green types or whether we sutractcted them
- Interaction Map specifies whether we used only the hig hconfidence protein-protein interactions or also included the low confidence interactions.
- Filtered specifies whether we only included the high confidence microarry measurements or not.