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

Results: HTML CSV LaTeX

Showing element 2558 to 2607 of 16578 in total

Value Type  : Ranked
Filtered  : 1

Rank	Hugo	description	Network Comparison Type	Interaction Map	red	green	network_comparison
640	no value	intersectin 1 (sh3 domain-containing protein 1a) (sh3p17). [swissprot;acc:q15811]	Divided	High confidence	217.67	230.596	1.05938
	MEGF6	megf6 (fragment). [sptrembl;acc:o75095]		Low confidence	207.235	201.402	1.02896
	ZFAND6	protein associated with prk1. [refseq;acc:nm_019006]	Subtracted		184.361	178.613	5.748
641	no value	dj1099d15.1 (putative dnaj protein). [sptrembl;acc:q9h4j9]		High confidence	244.842	232.577	12.265
	NUFIP1	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]		Low confidence	203.825	198.081	5.744
	PRAM1	pram-1 protein; pml-rara target gene encoding an adaptor molecule-1. [refseq;acc:nm_032152]	Divided	High confidence	217.67	230.596	1.05938
	RABEP1	rabaptin, rab gtpase binding effector protein 1; rabaptin-5; neurocrescin. [refseq;acc:nm_004703]		Low confidence	198.493	192.907	1.02896
642	no value	intersectin 2 (sh3 domain-containing protein 1b) (sh3p18) (sh3p18-like wasp associated protein). [swissprot;acc:q9nzm3]		High confidence	217.67	230.596	1.05938
	CUL2	cullin homolog 2 (cul-2). [swissprot;acc:q13617]		Low confidence	203.883	198.148	1.02894
			Subtracted				5.735
	LSM4	u6 snrna-associated sm-like protein lsm4 (glycine-rich protein) (grp). [swissprot;acc:q9y4z0]		High confidence	228.944	216.745	12.199
643	HEMK1	hemk protein homolog (ec 2.1.1.-) (m.hsahemkp). [swissprot;acc:q9y5r4]	Divided	Low confidence	203.104	197.399	1.0289
	HRBL	hiv-1 rev binding protein-like; rev/rex activation domain binding protein-related. [refseq;acc:nm_006076]		High confidence	217.67	230.596	1.05938
	MARS	methionyl-trna synthetase (ec 6.1.1.10) (methionine--trna ligase) (metrs). [swissprot;acc:p56192]	Subtracted		218.227	206.078	12.149
	ZNF593	zinc finger protein t86. [swissprot;acc:o00488]		Low confidence	205.897	200.163	5.734
644	C16orf35	cgthba protein (-14 gene protein). [swissprot;acc:q12980]	Divided	High confidence	217.67	230.596	1.05938
	CASK	peripheral plasma membrane protein cask (ec 2.7.1.-) (hcask) (calcium/calmodulin-dependent serine protein kinase) (lin-2 homolog). [swissprot;acc:o14936]	Subtracted		226.497	214.355	12.142
	GULP1	ptb domain adaptor protein ced-6; engulfment adapter protein. [refseq;acc:nm_016315]	Divided	Low confidence	203.911	198.193	1.02885
	ITGB7	integrin beta-7 precursor. [swissprot;acc:p26010]	Subtracted		206.341	200.609	5.732
645	HIF3A	hypoxia-inducible factor-3 alpha isoform a; inhibitory pas domain protein. [refseq;acc:nm_152794]		High confidence	226.497	214.355	12.142
	HTATSF1	hiv tat specific factor 1; cofactor required for tat activation of hiv-1 transcription. [refseq;acc:nm_014500]	Divided		217.67	230.596	1.05938
	ITGB3	integrin beta-3 precursor (platelet membrane glycoprotein iiia) (gpiiia) (cd61 antigen). [swissprot;acc:p05106]	Subtracted	Low confidence	206.342	200.61	5.732
	PDIA2	protein disulfide isomerase a2 precursor (ec 5.3.4.1) (pdip). [swissprot;acc:q13087]	Divided		204.488	198.765	1.02879
646	BTF3L1	transcription factor btf3 homolog 1. [swissprot;acc:q13890]			204.634	198.914	1.02876
	ITGB2	integrin beta-2 precursor (cell surface adhesion glycoproteins lfa- 1/cr3/p150,95 beta-subunit) (cd18) (complement receptor c3 beta- subunit). [swissprot;acc:p05107]	Subtracted		206.339	200.608	5.731
	SCOC	short coiled-coil protein; short coiled coil protein. [refseq;acc:nm_032547]	Divided	High confidence	216.731	229.549	1.05914
	SIM1	single-minded homolog 1. [swissprot;acc:p81133]	Subtracted		226.497	214.355	12.142
647	ARFGEF1	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]	Divided	Low confidence	203.293	197.621	1.0287
	DYNLL2	dynein light chain 2. [refseq;acc:nm_080677]		High confidence	216.731	229.549	1.05914
	HOXA10	homeobox protein hox-a10 (hox-1h) (hox-1.8) (pl). [swissprot;acc:p31260]	Subtracted		214.257	202.125	12.132
	ZEB2	zinc finger homeobox protein 1b (smad interacting protein 1) (smadip1) (hrihfb2411). [swissprot;acc:o60315]		Low confidence	205.995	200.27	5.725
648	ALDH3B1	aldehyde dehydrogenase 7 (ec 1.2.1.5). [swissprot;acc:p43353]	Divided		210.325	216.359	1.02869
	HOXB9	homeobox protein hox-b9 (hox-2e) (hox-2.5). [swissprot;acc:p17482]	Subtracted	High confidence	214.257	202.132	12.125
	MARS	methionyl-trna synthetase (ec 6.1.1.10) (methionine--trna ligase) (metrs). [swissprot;acc:p56192]	Divided		218.227	206.078	1.05895
	ZEB1	transcription factor 8 (nil-2-a zinc finger protein) (negative regulator of il2). [swissprot;acc:p37275]	Subtracted	Low confidence	205.995	200.27	5.725
649	ARFGEF2	brefeldin a-inhibited guanine nucleotide-exchange protein 2 (brefeldin a-inhibited gep 2). [swissprot;acc:q9y6d5]	Divided		203.283	197.617	1.02867
	EIF4E	eukaryotic translation initiation factor 4e (eif-4e) (eif4e) (mrna cap-binding protein) (eif-4f 25 kda subunit). [swissprot;acc:p06730]		High confidence	233.725	220.751	1.05877
	HOXA9	homeobox protein hox-a9 (hox-1g). [swissprot;acc:p31269]	Subtracted		214.257	202.132	12.125
	PDIA2	protein disulfide isomerase a2 precursor (ec 5.3.4.1) (pdip). [swissprot;acc:q13087]		Low confidence	204.488	198.765	5.723
650	no value	u6 snrna-associated sm-like protein lsm7. [swissprot;acc:q9uk45]	Divided	High confidence	228.986	216.276	1.05877
	BTF3L1	transcription factor btf3 homolog 1. [swissprot;acc:q13890]	Subtracted	Low confidence	204.634	198.914	5.72
	HOXC9	homeobox protein hox-c9 (hox-3b). [swissprot;acc:p31274]		High confidence	214.257	202.135	12.122
	MARCH6	similar to s. cerevisiae ssm4. [refseq;acc:nm_005885]	Divided	Low confidence	207.662	201.876	1.02866
651	no value	large proline-rich protein bat3 (hla-b-associated transcript 3) (g3). [swissprot;acc:p46379]
	BAIAP3	bai1-associated protein 3; bai-associated protein 3. [refseq;acc:nm_003933]		High confidence	233.725	220.751	1.05877
	GABRG3	gamma-aminobutyric-acid receptor gamma-3 subunit precursor (gaba(a) receptor). [swissprot;acc:q99928]	Subtracted		214.256	202.139	12.117
	ITGA6	integrin alpha-6 precursor (vla-6) (cd49f). [swissprot;acc:p23229]		Low confidence	206.321	200.601	5.72
652	no value	tgf beta-inducible nuclear protein 1; hairy cell leukemia protein 1. [refseq;acc:nm_014886]	Divided	High confidence	248.994	235.255	1.0584
	FOXG1	forkhead box protein g1c (forkhead-related protein fkhl3) (hfk3) (fragment). [swissprot;acc:q14488]	Subtracted		214.256	202.139	12.117
	ITGA7	integrin alpha-7 precursor. [swissprot;acc:q13683]		Low confidence	206.32	200.601	5.719

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.