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.

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	Filtered	Interaction Map	red	green	network_comparison

Results: HTML CSV LaTeX

Showing element 401 to 450 of 3730 in total

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

Rank	description	Filtered	red	green	network_comparison
201	maspin precursor (protease inhibitor 5). [swissprot;acc:p36952]	0	16853	15123	1.1144
	splicing factor 4 isoform b; rna-binding protein. [refseq;acc:nm_021164]	1	240.133	211.382	1.13601
202	serpin b11. [swissprot;acc:q96p15]	0	16853	15123	1.1144
	short transient receptor potential channel 4 (trpc4) (trp-related protein 4) (htrp-4) (htrp4). [swissprot;acc:q9ubn4]	1	201.478	228.784	1.13553
203	cytoplasmic antiproteinase 2 (cap2) (cap-2) (protease inhibitor 8) (serpin b8). [swissprot;acc:p50452]	0	16853	15123	1.1144
	ebp50-pdz interactor of 64 kda (epi64 protein). [swissprot;acc:q9bxi6]	1	201.515	228.752	1.13516
204	dipeptidyl peptidase 8 isoform 2; dipeptidyl peptidase 8. [refseq;acc:nm_017743]	0	15081.8	16802.1	1.11406
	short transient receptor potential channel 5 (trpc5) (htrp-5) (htrp5). [swissprot;acc:q9ul62]	1	201.515	228.752	1.13516
205	60s ribosomal protein l23a. [swissprot;acc:p29316]	0	11844.9	10636.3	1.11363
	luc7-like 2; cgi-74 protein; cgi-59 protein. [refseq;acc:nm_016019]	1	228.1	200.968	1.13501
206	hepatitis c virus core-binding protein 6; cervical cancer oncogene 3. [refseq;acc:nm_023934]	0	7479	6716	1.11361
	luc7-like; sarcoplasmic reticulum protein luc7b1. [refseq;acc:nm_018032]	1	228.085	201.006	1.13472
207	dc11 protein. [refseq;acc:nm_020186]	0	7479	6716	1.11361
	presenilin 2 (ps-2) (stm-2) (e5-1) (ad3lp) (ad5). [swissprot;acc:p49810]	1	285.684	252.234	1.13261
208	c367g8.3 (novel protein similar to rpl23a (60s ribosomal protein l23a)) (60s ribosomal protein l23a like). [sptrembl;acc:q9br02]	0	11846.3	10638.4	1.11354
	s-phase kinase-associated protein 1a (cyclin a/cdk2-associated protein p19) (p19a) (p19skp1) (rna polymerase ii elongation factor-like protein) (organ of corti protein 2) (ocp-ii protein) (ocp-2) (transcription elongation factor b) (siii). [swissprot;acc:p34991]	1	285.684	252.234	1.13261
209	f-box protein fbw7 isoform 2; archipelago, drosophila, homolog of; f-box protein fbw7; f-box protein sel-10; homolog of c elegans sel-10. [refseq;acc:nm_018315]
	small nuclear ribonucleoprotein e (snrnp-e) (sm protein e) (sm-e) (sme). [swissprot;acc:p08578]	0	775	696	1.11351
210	cullin homolog 2 (cul-2). [swissprot;acc:q13617]	1	285.684	252.234	1.13261
	mms19-like (met18 homolog, s. cerevisiae); homolog of yeast mms19; mms19 (met18 s. cerevisiae)-like. [refseq;acc:nm_022362]	0	17144.8	15405.6	1.11289
211	presenilin 1 (ps-1) (s182 protein). [swissprot;acc:p49768]	1	285.684	252.234	1.13261
	ribosomal protein s6 kinase-like 1. [refseq;acc:nm_031464]	0	10367	9320.25	1.11231
212	cullin homolog 1 (cul-1). [swissprot;acc:q13616]	1	285.684	252.234	1.13261
	metabotropic glutamate receptor 3 precursor (mglur3). [swissprot;acc:q14832]	0	18241.7	16405	1.11196
213	pallidin; pallid (mouse) homolog, pallidin. [refseq;acc:nm_012388]	1	210.693	186.95	1.127
	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
	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]	0	7621.99	8473.85	1.11176
215	myosin heavy chain, cardiac muscle alpha isoform (myhc-alpha). [swissprot;acc:p13533]	1	112	126	1.125
	myosin vi. [swissprot;acc:q9um54]	0	10121.5	11250.5	1.11154
216	maleylacetoacetate isomerase (ec 5.2.1.2) (maai) (glutathione s- transferase zeta 1) (ec 2.5.1.18) (gstz1-1). [swissprot;acc:o43708]		10559.7	11732	1.11102
	myosin heavy chain, skeletal muscle, fetal (myosin heavy chain iib) (myhc-iib). [swissprot;acc:q9y623]	1	112	126	1.125
217	baculoviral iap repeat-containing protein 5 (apoptosis inhibitor survivin) (apoptosis inhibitor 4). [swissprot;acc:o15392]	0	7101.79	6406.18	1.10858
	myosin heavy chain, skeletal muscle, perinatal (myhc-perinatal). [swissprot;acc:p13535]	1	112	126	1.125
218	lim domain binding 1; carboxy terminal lim domain protein 2; lim domain-binding factor-1. [refseq;acc:nm_003893]	0	19355	17469.2	1.10795
	myosin heavy chain, skeletal muscle, adult 2 (myosin heavy chain iia) (myhc-iia). [swissprot;acc:q9ukx2]	1	112	126	1.125
219	myosin heavy chain, fast skeletal muscle, embryonic (muscle embryonic myosin heavy chain) (smhce). [swissprot;acc:p11055]
	succinate dehydrogenase [ubiquinone] flavoprotein subunit, mitochondrial precursor (ec 1.3.5.1) (fp) (flavoprotein subunit of complex ii). [swissprot;acc:p31040]	0	12196.2	11009.7	1.10777
220	myosin heavy chain, skeletal muscle, adult 1 (myosin heavy chain iix/d) (myhc-iix/d). [swissprot;acc:p12882]	1	112	126	1.125
	neurocalcin delta. [swissprot;acc:p29554]	0	13973.6	15473.5	1.10734
221	estrogen-related receptor gamma (estrogen receptor related protein 3) (err gamma-2). [swissprot;acc:o75454]		12190.3	13497.2	1.10721
	myosin heavy chain, cardiac muscle beta isoform (myhc-beta). [swissprot;acc:p12883]	1	112	126	1.125
222	40s ribosomal protein s15 (rig protein). [swissprot;acc:p11174]	0	12183	11013.2	1.10622
	dj756n5.1.1 (continues in em:al133324 as dj1161h23.3) (fragment). [sptrembl;acc:q9h430]	1	112	126	1.125
223	myosin heavy chain, skeletal muscle, extraocular (myhc-eo). [swissprot;acc:q9ukx3]
	pnas-18. [sptrembl;acc:q9bzu3]	0	12602.7	13939.6	1.10608
224	atp-dependent clp protease atp-binding subunit clpx-like, mitochondrial precursor. [swissprot;acc:o76031]		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
	small nuclear ribonucleoprotein sm d2 (snrnp core protein d2) (sm-d2). [swissprot;acc:p43330]	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.