Scientific

MK5 Microarray Data

Affected Genes - Ontology Breakdown - Gene Enrichment - Proteome Analysis

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.

MK5 Proteome Analysis

Table 3: Type II network, divided ranks. This table presents the output of the simulation of a type-II network in which we relied on the high confidence interactions and micro-array results. The output of the micro-array was then ranked and these ranks used as input into the network simulation. After performing two such simulations (one for the MK5 off and one for the MK5 on microarray output), we divided the ranks and sorted the results accordingly. The output of this technique is a collection of proteins that cluster naturally together.

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

Results: HTML CSV LaTeX

Showing element 851 to 900 of 7460 in total

Value Type

: Ranked
Interaction Map

: High confidence

Rank	description	Network Comparison Type	Filtered	red	green	network_comparison
213	pallidin; pallid (mouse) homolog, pallidin. [refseq;acc:nm_012388]	Divided	1	210.693	186.95	1.127
213	protein disulfide isomerase precursor (pdi) (ec 5.3.4.1) (prolyl 4- hydroxylase beta subunit) (cellular thyroid hormone binding protein) (p55). [swissprot;acc:p07237]		0	9379.47	8436.39	1.11179
214	lag1 longevity assurance homolog 2 isoform 1; l3 pigment; tumor metastasis-suppressor. [refseq;acc:nm_022075]		1	191.644	170.192	1.12605
	mitochondrial ribosomal protein l4 isoform a. [refseq;acc:nm_015956]	Subtracted	1	241.282	266.12	24.838
	probable glutamyl-trna(gln) amidotransferase subunit b, mitochondrial precursor (ec 6.3.5.-) (glu-adt subunit b) (cytochrome oxidase assembly factor pet112 homolog). [swissprot;acc:o75879]	Divided	0	7621.99	8473.85	1.11176
	tyrosinase-related gene segment, exon 5 (fragment). [sptrembl;acc:q15677]	Subtracted	0	14898.9	16041.6	1142.7
215	eukaryotic translation initiation factor 4 gamma (eif-4-gamma) (eif- 4g) (eif4g) (p220). [swissprot;acc:q04637]	Subtracted	1	237.292	212.457	24.835
	myosin heavy chain, cardiac muscle alpha isoform (myhc-alpha). [swissprot;acc:p13533]	Divided	1	112	126	1.125
	myosin vi. [swissprot;acc:q9um54]	Divided	0	10121.5	11250.5	1.11154
	sorcin (22 kda protein) (cp-22) (v19). [swissprot;acc:p30626]	Subtracted		7955.61	6817.49	1138.12
216	high mobility group protein 1 (hmg-1). [swissprot;acc:p09429]	Subtracted		5677.96	4546.87	1131.09
	maleylacetoacetate isomerase (ec 5.2.1.2) (maai) (glutathione s- transferase zeta 1) (ec 2.5.1.18) (gstz1-1). [swissprot;acc:o43708]	Divided		10559.7	11732	1.11102
	myosin heavy chain, skeletal muscle, fetal (myosin heavy chain iib) (myhc-iib). [swissprot;acc:q9y623]	Divided	1	112	126	1.125
	small nuclear ribonucleoprotein sm d2 (snrnp core protein d2) (sm-d2). [swissprot;acc:p43330]	Subtracted		226.471	201.769	24.702
217	60s ribosomal protein l26. [swissprot;acc:q02877]	Subtracted		242.326	267.008	24.682
	baculoviral iap repeat-containing protein 5 (apoptosis inhibitor survivin) (apoptosis inhibitor 4). [swissprot;acc:o15392]	Divided	0	7101.79	6406.18	1.10858
	dj579f20.1 (high-mobility group (nonhistone chromosomal) protein 1-like 1). [sptrembl;acc:q9nqj4]	Subtracted	0	5677.89	4547.43	1130.46
	myosin heavy chain, skeletal muscle, perinatal (myhc-perinatal). [swissprot;acc:p13535]	Divided	1	112	126	1.125
218	60s ribosomal protein l35. [swissprot;acc:p42766]	Subtracted	1	242.333	266.999	24.666
	high mobility group protein 1-like 10 (hmg-1l10). [swissprot;acc:q9ugv6]	Subtracted	0	5677.86	4547.66	1130.2
	lim domain binding 1; carboxy terminal lim domain protein 2; lim domain-binding factor-1. [refseq;acc:nm_003893]	Divided	0	19355	17469.2	1.10795
	myosin heavy chain, skeletal muscle, adult 2 (myosin heavy chain iia) (myhc-iia). [swissprot;acc:q9ukx2]	Divided	1	112	126	1.125
219	40s ribosomal protein s15 (rig protein). [swissprot;acc:p11174]	Subtracted		242.339	266.986	24.647
	myosin heavy chain, fast skeletal muscle, embryonic (muscle embryonic myosin heavy chain) (smhce). [swissprot;acc:p11055]	Divided		112	126	1.125
	myosin vi. [swissprot;acc:q9um54]	Subtracted	0	10121.5	11250.5	1129
	succinate dehydrogenase [ubiquinone] flavoprotein subunit, mitochondrial precursor (ec 1.3.5.1) (fp) (flavoprotein subunit of complex ii). [swissprot;acc:p31040]	Divided	0	12196.2	11009.7	1.10777
220	mitochondrial ribosomal protein l2. [refseq;acc:nm_015950]	Subtracted	1	242.339	266.986	24.647
	myosin heavy chain, skeletal muscle, adult 1 (myosin heavy chain iix/d) (myhc-iix/d). [swissprot;acc:p12882]	Divided	1	112	126	1.125
	neurocalcin delta. [swissprot;acc:p29554]	Divided	0	13973.6	15473.5	1.10734
	nuclear autoantigen sp-100 (speckled 100 kda) (nuclear dot-associated sp100 protein) (lysp100b). [swissprot;acc:p23497]	Subtracted		5677.58	4549.85	1127.73
221	estrogen-related receptor gamma (estrogen receptor related protein 3) (err gamma-2). [swissprot;acc:o75454]	Divided		12190.3	13497.2	1.10721
	high mobility group protein 4-like (hmg-4l). [swissprot;acc:q9uj13]	Subtracted		5677.45	4550.87	1126.58
	myosin heavy chain, cardiac muscle beta isoform (myhc-beta). [swissprot;acc:p12883]	Divided	1	112	126	1.125
	protein translation factor sui1 homolog gc20. [swissprot;acc:o60739]	Subtracted	1	242.627	267.151	24.524
222	40s ribosomal protein s15 (rig protein). [swissprot;acc:p11174]	Divided	0	12183	11013.2	1.10622
	60s ribosomal protein l14 (cag-isl 7). [swissprot;acc:p50914]	Subtracted	1	242.153	266.673	24.52
	dj756n5.1.1 (continues in em:al133324 as dj1161h23.3) (fragment). [sptrembl;acc:q9h430]	Divided	1	112	126	1.125
	segment polarity protein dishevelled homolog dvl-1 (dishevelled-1) (dsh homolog 1). [swissprot;acc:o14640]	Subtracted	0	5673.33	6797.56	1124.23
223	maguk p55 subfamily member 2 (mpp2 protein) (discs, large homolog 2). [swissprot;acc:q14168]	Subtracted	0	14257.4	13134.5	1122.9
	myosin heavy chain, skeletal muscle, extraocular (myhc-eo). [swissprot;acc:q9ukx3]	Divided	1	112	126	1.125
	pnas-18. [sptrembl;acc:q9bzu3]	Divided	0	12602.7	13939.6	1.10608
	serine racemase (ec 5.1.1.-). [swissprot;acc:q9gzt4]	Subtracted	1	242.153	266.673	24.52
224	5,6-dihydroxyindole-2-carboxylic acid oxidase precursor (ec 1.14.18.-) (dhica oxidase) (tyrosinase-related protein 1) (trp-1) (trp1) (trp) (catalase b) (glycoprotein-75) (melanoma antigen gp75). [swissprot;acc:p17643]		0	14930.6	16053	1122.4
	60s ribosomal protein l34. [swissprot;acc:p49207]		1	242.153	266.673	24.52
	atp-dependent clp protease atp-binding subunit clpx-like, mitochondrial precursor. [swissprot;acc:o76031]	Divided	0	9815.6	8889.93	1.10413
	oligopeptide transporter, kidney isoform (peptide transporter 2) (kidney h+/peptide cotransporter) (solute carrier family 15, member 2). [swissprot;acc:q16348]		1	185.969	165.623	1.12285
225	40s ribosomal protein s29. [swissprot;acc:p30054]		0	11035.3	9997.71	1.10378
	protein transport protein sec61 alpha subunit isoform 2 (sec61 alpha- 2). [swissprot;acc:q9y2r3]	Subtracted	1	242.153	266.673	24.52
	rna-binding protein nova-1 (neuro-oncological ventral antigen 1) (onconeural ventral antigen-1) (paraneoplastic ri antigen) (ventral neuron-specific protein 1). [swissprot;acc:p51513]	Subtracted	0	8407.67	9516.92	1109.25
	small nuclear ribonucleoprotein sm d2 (snrnp core protein d2) (sm-d2). [swissprot;acc:p43330]	Divided	1	226.471	201.769	1.12243

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
- 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.

- http://analysis.yellowcouch.org/