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	Value Type	description	Network Comparison Type	Interaction Map	Filtered	red	green	network_comparison

Results: HTML CSV LaTeX

Showing element 886 to 935 of 16578 in total

Value Type  : Ranked
Filtered  : 1

Rank	Hugo	description	Network Comparison Type	Interaction Map	red	green	network_comparison
222	CASK	peripheral plasma membrane protein cask (ec 2.7.1.-) (hcask) (calcium/calmodulin-dependent serine protein kinase) (lin-2 homolog). [swissprot;acc:o14936]	Subtracted	Low confidence	212.056	202.524	9.532
	MYH7B	dj756n5.1.1 (continues in em:al133324 as dj1161h23.3) (fragment). [sptrembl;acc:q9h430]	Divided	High confidence	112	126	1.125
	UBE2E1	ubiquitin-conjugating enzyme e2 e1 (ec 6.3.2.19) (ubiquitin-protein ligase e1) (ubiquitin carrier protein e1) (ubch6). [swissprot;acc:p51965]		Low confidence	203.935	214.089	1.04979
223	GTF3C3	general transcription factor iiic, polypeptide 3, 102kda; general transcription factor iiic, polypeptide 3 (102kd); transcription factor iiic, 102 kd. [refseq;acc:nm_012086]			217.228	206.926
	MYH13	myosin heavy chain, skeletal muscle, extraocular (myhc-eo). [swissprot;acc:q9ukx3]		High confidence	112	126	1.125
	SIM1	single-minded homolog 1. [swissprot;acc:p81133]	Subtracted	Low confidence	212.056	202.524	9.532
	SRR	serine racemase (ec 5.1.1.-). [swissprot;acc:q9gzt4]		High confidence	242.153	266.673	24.52
224	NFYC	nuclear transcription factor y subunit gamma (nf-y protein chain c) (nuclear factor yc) (nf-yc) (ccaat-binding transcription factor subunit c) (cbf-c) (transactivator hsm-1/2). [swissprot;acc:q13952]		Low confidence	209.649	200.129	9.52
	RPL34	60s ribosomal protein l34. [swissprot;acc:p49207]		High confidence	242.153	266.673	24.52
	SLC15A2	oligopeptide transporter, kidney isoform (peptide transporter 2) (kidney h+/peptide cotransporter) (solute carrier family 15, member 2). [swissprot;acc:q16348]	Divided		185.969	165.623	1.12285
	UBE2E4P	ubiquitin-conjugating enzyme e2e 3; ubiquitin carrier protein; ubiquitin-protein ligase. [refseq;acc:nm_006357]		Low confidence	203.933	214.059	1.04965
225	ANKRD7	ankyrin repeat domain protein 7 (testis-specific protein tsa806). [swissprot;acc:q92527]	Subtracted		216.855	207.34	9.515
	SEC61A2	protein transport protein sec61 alpha subunit isoform 2 (sec61 alpha- 2). [swissprot;acc:q9y2r3]		High confidence	242.153	266.673	24.52
	SLC15A1	oligopeptide transporter, small intestine isoform (peptide transporter 1) (intestinal h+/peptide cotransporter) (solute carrier family 15, member 1). [swissprot;acc:p46059]	Divided	Low confidence	201.41	191.974	1.04915
	SNRPD2	small nuclear ribonucleoprotein sm d2 (snrnp core protein d2) (sm-d2). [swissprot;acc:p43330]		High confidence	226.471	201.769	1.12243
226	ANKRD19	ba526d8.2 (novel protein similar to kiaa1074). [sptrembl;acc:q9h560]	Subtracted	Low confidence	216.845	207.333	9.512
	COMP	cartilage oligomeric matrix protein precursor (comp). [swissprot;acc:p49747]	Divided	High confidence	239.991	269.238	1.12187
	LEF1	lymphoid enhancer binding factor 1 (lef-1) (t cell-specific transcription factor 1-alpha) (tcf1-alpha). [swissprot;acc:q9uju2]		Low confidence	208.289	198.538	1.04911
	SEC61A1	protein transport protein sec61 alpha subunit isoform 1 (sec61 alpha- 1). [swissprot;acc:p38378]	Subtracted	High confidence	242.153	266.673	24.52
227	ANKRD30A	breast cancer antigen ny-br-1. [refseq;acc:nm_052997]		Low confidence	216.842	207.332	9.51
	METAP1	methionine aminopeptidase 1 (ec 3.4.11.18) (metap 1) (map 1) (peptidase m 1). [swissprot;acc:p53582]		High confidence	244.126	268.604	24.478
	TENC1	c1 domain-containing phosphatase and tensin-like protein isoform 2; putative protein tyrosine phosphatase; c1 domain-containing phosphatase and tensin-like protein; tensin 2. [refseq;acc:nm_015319]	Divided	Low confidence	216.404	206.277	1.04909
	THBS3	thrombospondin 3 precursor. [swissprot;acc:p49746]		High confidence	239.99	269.234	1.12186
228	METAP2	methionine aminopeptidase 2 (ec 3.4.11.18) (metap 2) (peptidase m 2) (initiation factor 2 associated 67 kda glycoprotein) (p67) (p67eif2). [swissprot;acc:p50579]	Subtracted		244.126	268.604	24.478
	RPS6KC1	ribosomal protein s6 kinase, 52kda, polypeptide 1; ribosomal protein s6 kinase, 52kd, polypeptide 1. [refseq;acc:nm_012424]		Low confidence	189.45	179.944	9.506
	SH2D3C	sh2 domain containing 3c; novel sh2-containing protein 3; sh2 domain-containing 3c; likely ortholog of mouse cas/hef1-associated signal transducer. [refseq;acc:nm_005489]	Divided	High confidence	226.411	202.088	1.12036
	SNRPA	u1 small nuclear ribonucleoprotein a (u1 snrnp a protein). [swissprot;acc:p09012]		Low confidence	202.727	193.31	1.04871
229	no value	sodium/hydrogen exchanger 6 (na(+)/h(+) exchanger 6) (nhe-6). [swissprot;acc:q92581]	Subtracted		216.546	207.063	9.483
	BCAR3	breast cancer antiestrogen resistance 3. [refseq;acc:nm_003567]	Divided	High confidence	226.401	202.094	1.12028
	RPL3L	60s ribosomal protein l3-like. [swissprot;acc:q92901]	Subtracted		242.195	266.663	24.468
	TLR2	toll-like receptor 2 precursor (toll/interleukin 1 receptor-like protein 4). [swissprot;acc:o60603]	Divided	Low confidence	207.926	198.276	1.04867
230	CCDC22	jm1 protein. [refseq;acc:nm_014008]			216.308	206.292	1.04855
	CSRP1	cysteine-rich protein 1 (crp1) (crp). [swissprot;acc:p21291]		High confidence	239.35	267.915	1.11934
	EIF1	protein translation factor sui1 homolog (sui1iso1). [swissprot;acc:p41567]	Subtracted		242.694	267.017	24.323
	LEO1	senescence downregulated leo1-like. [refseq;acc:nm_138792]		Low confidence	216.546	207.063	9.483
231	SH2D3C	sh2 domain containing 3c; novel sh2-containing protein 3; sh2 domain-containing 3c; likely ortholog of mouse cas/hef1-associated signal transducer. [refseq;acc:nm_005489]		High confidence	226.411	202.088	24.323
	SHCBP1	likely ortholog of mouse shc sh2-domain binding protein 1. [refseq;acc:nm_024745]	Divided		239.336	267.881	1.11927
	SLC9A7	solute carrier family 9, member 7; nonselective sodium potassium/proton exchanger; sodium/hydrogen exchanger 7. [refseq;acc:nm_032591]	Subtracted	Low confidence	216.546	207.063	9.483
	TIMM23	mitochondrial import inner membrane translocase subunit tim23. [swissprot;acc:o14925]	Divided		220.722	210.645	1.04784
232	BCAR3	breast cancer antiestrogen resistance 3. [refseq;acc:nm_003567]	Subtracted	High confidence	226.401	202.094	24.307
	CSRP2	smooth muscle cell lim protein (cysteine-rich protein 2) (crp2) (lim-only protein 5). [swissprot;acc:q16527]	Divided		239.336	267.879	1.11926
	CYP51A1	cytochrome p450 51a1 (ec 1.14.13.70) (cypli) (p450li) (sterol 14-alpha demethylase) (lanosterol 14-alpha demethylase) (ldm) (p450-14dm). [swissprot;acc:q16850]	Subtracted	Low confidence	208.851	199.38	9.471
	NFYA	ccaat-binding transcription factor subunit b (cbf-b) (nf-y protein chain a) (nf-ya) (caat-box dna binding protein subunit a). [swissprot;acc:p23511]	Divided		214.032	204.284	1.04772
233	no value	60s ribosomal protein l7. [swissprot;acc:p18124]	Subtracted	High confidence	235.727	259.984	24.257
	CSRP3	lim domain protein, cardiac (muscle lim protein) (cysteine-rich protein 3) (crp3). [swissprot;acc:p50461]	Divided		239.32	267.842	1.11918
	NFYC	nuclear transcription factor y subunit gamma (nf-y protein chain c) (nuclear factor yc) (nf-yc) (ccaat-binding transcription factor subunit c) (cbf-c) (transactivator hsm-1/2). [swissprot;acc:q13952]		Low confidence	209.649	200.129	1.04757
	SLC15A1	oligopeptide transporter, small intestine isoform (peptide transporter 1) (intestinal h+/peptide cotransporter) (solute carrier family 15, member 1). [swissprot;acc:p46059]	Subtracted		201.41	191.974	9.436
234	CHRAC1	chromatin accessibility complex protein 1 (chrac-1) (chrac-15) (huchrac15) (dna polymerase epsilon subunit p15). [swissprot;acc:q9nrg0]	Divided	High confidence	287.41	256.835	1.11905
	CYP51A1	cytochrome p450 51a1 (ec 1.14.13.70) (cypli) (p450li) (sterol 14-alpha demethylase) (lanosterol 14-alpha demethylase) (ldm) (p450-14dm). [swissprot;acc:q16850]		Low confidence	208.851	199.38	1.0475
	DUOX2	dual oxidase 2 precursor; dual oxidase-like domains 2; nicotinamide adenine dinucleotide phosphate oxidase; flavoprotein nadph oxidase; nadph thyroid oxidase 2; nadh/nadph thyroid oxidase p138-tox; nadph oxidase/peroxidase duox2. [refseq;acc:nm_014080]	Subtracted		210.504	201.086	9.418

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.