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

Navigation/Query Panel:
Click on the attribute name to hide/unhide it. The green arrows can be used to shift columns left/right. Exact word match is written as =..., regular expressions can be matched with ~.... To select all values larger or equal than use >.... This would be <... for values smaller or equal than. To select all values within a specific range use [...,...].

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

Results: HTML CSV LaTeX

Showing element 1580 to 1629 of 3228 in total

Value Type  : Ranked
Network Comparison Type  : Divided
Interaction Map  : High confidence
Filtered  : 1

Rank	Hugo	description	green	red	network_comparison
1580	CCNB2	g2/mitotic-specific cyclin b2. [swissprot;acc:o95067]	170.769	168.018	1.01637
1581	CDK3	cell division protein kinase 3 (ec 2.7.1.-). [swissprot;acc:q00526]	170.753	168.002
1582	CCNB1	g2/mitotic-specific cyclin b1. [swissprot;acc:p14635]	170.844	168.098	1.01634
1583	CDK2	cell division protein kinase 2 (ec 2.7.1.-) (p33 protein kinase). [swissprot;acc:p24941]	170.837	168.091
1584	PGLS	6-phosphogluconolactonase (ec 3.1.1.31) (6pgl). [swissprot;acc:o95336]	220.432	216.891	1.01633
1585	CDC2	cell division control protein 2 homolog (ec 2.7.1.-) (p34 protein kinase) (cyclin-dependent kinase 1) (cdk1). [swissprot;acc:p06493]	170.888	168.145	1.01631
1586	AP1B1	adapter-related protein complex 1 beta 1 subunit (beta-adaptin 1) (adaptor protein complex ap-1 beta-1 subunit) (golgi adaptor ha1/ap1 adaptin beta subunit) (clathrin assembly protein complex 1 beta large chain). [swissprot;acc:q10567]	225.79	222.166
1587	C20orf4	protein c20orf4 (protein cgi-23) (pro0225). [swissprot;acc:q9y312]	216.598	220.129	1.0163
1588	RNF25	ring finger protein 25 (ec 6.3.2.-). [swissprot;acc:q96bh1]	180.725	177.834	1.01626
1589	VARS	valyl-trna synthetase 2 (ec 6.1.1.9) (valine--trna ligase 2) (valrs 2) (g7a). [swissprot;acc:p26640]	227.219	223.589	1.01624
1590	TYMS	thymidylate synthase (ec 2.1.1.45) (ts) (tsase). [swissprot;acc:p04818]	228.769	225.119	1.01621
1591	no value	dihydrofolate reductase (ec 1.5.1.3). [swissprot;acc:p00374]
1592	SDF2	stromal cell-derived factor 2 precursor (sdf-2). [swissprot;acc:q99470]
1593	SDF2L1	stromal cell-derived factor 2-like protein 1 precursor (sdf2 like protein 1) (pwp1-interacting protein 8). [swissprot;acc:q9hcn8]
1594	JPH4	adapter-related protein complex 1 gamma 2 subunit (gamma2-adaptin) (adaptor protein complex ap-1 gamma-2 subunit) (g2ad). [swissprot;acc:o75843]	225.731	222.133	1.0162
1595	no value	adapter-related protein complex 1 sigma 1b subunit (sigma-adaptin 1b) (adaptor protein complex ap-1 sigma-1b subunit) (golgi adaptor ha1/ap1 adaptin sigma-1b subunit) (clathrin assembly protein complex 1 sigma- 1b small chain) (sigma 1b subunit of ap-1 clathrin) (dc22). [swissprot;acc:p56377]		222.134	1.01619
1596	AP1G1	adapter-related protein complex 1 gamma 1 subunit (gamma-adaptin) (adaptor protein complex ap-1 gamma-1 subunit) (golgi adaptor ha1/ap1 adaptin gamma-1 subunit) (clathrin assembly protein complex 1 gamma-1 large chain). [swissprot;acc:o43747]
1597	AP1S3	adapter-related protein complex 1 sigma 1c subunit (sigma-adaptin 1c) (adaptor protein complex ap-1 sigma-1c subunit) (golgi adaptor ha1/ap1 adaptin sigma-1c subunit) (clathrin assembly protein complex 1 sigma- 1c small chain) (sigma 1c subunit of ap-1 clathrin). [swissprot;acc:q96pc3]
1598	AP1S1	adapter-related protein complex 1 sigma 1a subunit (sigma-adaptin 1a) (adaptor protein complex ap-1 sigma-1a subunit) (golgi adaptor ha1/ap1 adaptin sigma-1a subunit) (clathrin assembly protein complex 1 sigma- 1a small chain) (clathrin coat assembly protein ap19) (ha1 19 kda subunit) (sigma 1a subunit of ap-1 clathrin). [swissprot;acc:q00382]
1599	DTNBP1	dystrobrevin binding protein 1; dysbindin. [refseq;acc:nm_032122]	214.404	217.871	1.01617
1600	AP2B1	adapter-related protein complex 2 beta 1 subunit (beta-adaptin) (plasma membrane adaptor ha2/ap2 adaptin beta subunit) (clathrin assembly protein complex 2 beta large chain) (ap105b). [swissprot;acc:p21851]	225.675	222.103	1.01608
1601	PMM2	phosphomannomutase 2 (ec 5.4.2.8) (pmm 2). [swissprot;acc:o15305]	213.842	217.268	1.01602
1602	PMM1	phosphomannomutase 1 (ec 5.4.2.8) (pmm 1) (pmmh-22). [swissprot;acc:q92871]	213.914	217.334	1.01599
1603	no value	heat shock factor binding protein 1. [swissprot;acc:o75506]	213.22	216.62	1.01595
1604	CLK2	protein kinase clk2 (ec 2.7.1.-) (cdc-like kinase 2). [swissprot;acc:p49760]	211.614	214.984	1.01593
1605	FOXA1	hepatocyte nuclear factor 3-alpha (hnf-3a) (forkhead box protein a1). [swissprot;acc:p55317]	213.916	217.322	1.01592
1606	APOA1BP	apolipoprotein a-i binding protein; apoa-i binding protein. [refseq;acc:nm_144772]	204.662	207.916	1.0159
1607	CLK3	protein kinase clk3 (ec 2.7.1.-) (cdc-like kinase 3). [swissprot;acc:p49761]	211.622	214.982	1.01588
1608	TMEM189	ubiquitin-conjugating enzyme e2 variant 1 isoform b; dna-binding protein. [refseq;acc:nm_003349]	204.867	208.106	1.01581
1609	UGP2	utp--glucose-1-phosphate uridylyltransferase 2 (ec 2.7.7.9) (udp- glucose pyrophosphorylase 2) (udpgp 2) (ugpase 2). [swissprot;acc:q16851]	204.876	208.113	1.0158
1610	UBE2V2	ubiquitin-conjugating enzyme e2 variant 2; 1 alpha,25-dihydroxyvitamin d3-inducible; enterocyte differentiation promoting factor; methyl methanesulfonate sensitive 2, s. cerevisiae, homolog of. [refseq;acc:nm_003350]	204.886	208.122	1.01579
1611	CEP70	p10-binding protein. [refseq;acc:nm_024491]	217.877	221.313	1.01577
1612	no value	enthoprotin; epsin 4; clathrin interacting protein localized in the trans-golgi region. [refseq;acc:nm_014666]	224.902	221.426	1.0157
1613	HTATIP2	hiv-1 tat interactive protein 2, 30kda; tat-interacting protein (30kd); hiv-1 tat interactive protein 2, 30 kda; hiv-1 tat interactive protein 2, 30 kd. [refseq;acc:nm_006410]	185.241	182.378
1614	FOXA2	hepatocyte nuclear factor 3-beta (hnf-3b) (forkhead box protein a2). [swissprot;acc:q9y261]	213.897	217.233	1.0156
1615	POLE2	dna polymerase epsilon subunit b (ec 2.7.7.7) (dna polymerase ii subunit b). [swissprot;acc:p56282]	242.596	246.38
1616	NAGS	n-acetylglutamate synthase. [refseq;acc:nm_153006]	226.611	223.179	1.01538
1617	SHMT1	serine hydroxymethyltransferase, cytosolic (ec 2.1.2.1) (serine methylase) (glycine hydroxymethyltransferase) (shmt). [swissprot;acc:p34896]	217.699	221.045	1.01537
1618	TCEA2	transcription elongation factor a protein 2 (transcription elongation factor s-ii protein 2) (testis-specific s-ii) (transcription elongation factor tfiis.l). [swissprot;acc:q15560]	231.246	227.768	1.01527
1619	no value	transcription elongation factor a protein 1 (transcription elongation factor s-ii protein 1) (transcription elongation factor tfiis.o). [swissprot;acc:p23193]
1620	GTF2B	transcription initiation factor iib (general transcription factor tfiib) (s300-ii). [swissprot;acc:q00403]	225.185	228.611	1.01521
1621	ZNHIT3	thyroid receptor interacting protein 3 (trip-3) (fragment). [swissprot;acc:q15649]
1622	NHP2L1	nhp2-like protein 1 (high mobility group-like nuclear protein 2 homolog 1) ([u4/u6.u5] tri-snrnp 15.5 kda protein) (otk27). [swissprot;acc:p55769]
1623	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]
1624	PDCD11	rrp5 protein homolog (programmed cell death protein 11). [swissprot;acc:q14690]	227.194	230.643	1.01518
1625	RPUSD2	c18b11 homolog (44.9kd). [refseq;acc:nm_152260]	214.2	217.446	1.01515
1626	TMBIM4	z-protein (protein cgi-119) (s1r protein). [swissprot;acc:q9hc24]
1627	TMBIM1	pp1201 protein. [refseq;acc:nm_022152]
1628	FAIM2	lifeguard; kiaa0950 protein. [refseq;acc:nm_012306]
1629	no value	sterol regulatory element binding protein-2 (srebp-2) (sterol regulatory element-binding transcription factor 2). [swissprot;acc:q12772]

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.