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.

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

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Showing element 183 to 232 of 3228 in total

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

Rank	Hugo	description	red	green	network_comparison
183	NCBP2	20 kda nuclear cap binding protein (ncbp 20 kda subunit) (cbp20) (ncbp interacting protein 1) (nip1). [swissprot;acc:p52298]	228.306	198.011	1.153
184	OSR1	odd-skipped related 1; odz (odd oz/ten-m) related 1. [refseq;acc:nm_145260]	274.027	237.79	1.15239
185	ADIPOR2	adiponectin receptor 2. [refseq;acc:nm_024551]	281.582	246.371	1.14292
186	FLNB	filamin b, beta (actin binding protein 278); beta filamin; filamin 1 (actin-binding protein-280)-like; filamin b, beta (actin-binding protein-278); filamin b, beta. [refseq;acc:nm_001457]	226.582	198.444	1.14179
187	REV1	rev1-like; rev1 protein; rev1 (yeast homolog)- like. [refseq;acc:nm_016316]
188	PRMT1	protein arginine n-methyltransferase 1 (ec 2.1.1.-) (interferon receptor 1-bound protein 4). [swissprot;acc:q99873]
189	PRMT8	protein arginine n-methyltransferase 4 (ec 2.1.1.-). [swissprot;acc:q9nr22]
190	SNRP70	u1 small nuclear ribonucleoprotein 70 kda (u1 snrnp 70 kda) (snrnp70) (u1-70k). [swissprot;acc:p08621]
191	no value	filamin a (alpha-filamin) (filamin 1) (endothelial actin-binding protein) (abp-280) (nonmuscle filamin). [swissprot;acc:p21333]
192	MSI2	musashi 2 isoform a. [refseq;acc:nm_138962]	227.491	199.458	1.14055
193	MSI1	musashi 1. [refseq;acc:nm_002442]
194	ZC3H14	nuclear protein ukp68. [refseq;acc:nm_024824]
195	PRPF40B	huntingtin interacting protein c. [refseq;acc:nm_012272]	227.971	200.417	1.13748
196	FOXP4	forkhead box p4; fork head-related protein like a; winged-helix repressor foxp4. [refseq;acc:nm_138457]	263.215	231.407	1.13745
197	FOXP1	forkhead box protein p1 (hspc215). [swissprot;acc:q9h334]
198	FOXP3	forkhead box protein p3 (zinc finger protein jm2) (scurfin). [swissprot;acc:q9bzs1]	263.191	231.394	1.13741
199	EGFL8	palmitoyl-protein thioesterase 2 precursor (ec 3.1.2.22) (palmitoyl- protein hydrolase 2) (ppt-2) (g14). [swissprot;acc:q9umr5]	242.735	276.059	1.13729
200	EGFL7	egf-like-domain, multiple 7; neu1 protein. [refseq;acc:nm_016215]	242.718	276.018	1.1372
201	SF4	splicing factor 4 isoform b; rna-binding protein. [refseq;acc:nm_021164]	240.133	211.382	1.13601
202	TRPC4	short transient receptor potential channel 4 (trpc4) (trp-related protein 4) (htrp-4) (htrp4). [swissprot;acc:q9ubn4]	201.478	228.784	1.13553
203	TBC1D10A	ebp50-pdz interactor of 64 kda (epi64 protein). [swissprot;acc:q9bxi6]	201.515	228.752	1.13516
204	TRPC5	short transient receptor potential channel 5 (trpc5) (htrp-5) (htrp5). [swissprot;acc:q9ul62]
205	LUC7L2	luc7-like 2; cgi-74 protein; cgi-59 protein. [refseq;acc:nm_016019]	228.1	200.968	1.13501
206	LUC7L	luc7-like; sarcoplasmic reticulum protein luc7b1. [refseq;acc:nm_018032]	228.085	201.006	1.13472
207	PSEN2	presenilin 2 (ps-2) (stm-2) (e5-1) (ad3lp) (ad5). [swissprot;acc:p49810]	285.684	252.234	1.13261
208	SKP1A	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]
209	FBXW7	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]
210	CUL2	cullin homolog 2 (cul-2). [swissprot;acc:q13617]
211	PSEN1	presenilin 1 (ps-1) (s182 protein). [swissprot;acc:p49768]
212	CUL1	cullin homolog 1 (cul-1). [swissprot;acc:q13616]
213	PLDN	pallidin; pallid (mouse) homolog, pallidin. [refseq;acc:nm_012388]	210.693	186.95	1.127
214	LASS2	lag1 longevity assurance homolog 2 isoform 1; l3 pigment; tumor metastasis-suppressor. [refseq;acc:nm_022075]	191.644	170.192	1.12605
215	no value	myosin heavy chain, cardiac muscle alpha isoform (myhc-alpha). [swissprot;acc:p13533]	112	126	1.125
216	MYH4	myosin heavy chain, skeletal muscle, fetal (myosin heavy chain iib) (myhc-iib). [swissprot;acc:q9y623]
217	MYH8	myosin heavy chain, skeletal muscle, perinatal (myhc-perinatal). [swissprot;acc:p13535]
218	MYH2	myosin heavy chain, skeletal muscle, adult 2 (myosin heavy chain iia) (myhc-iia). [swissprot;acc:q9ukx2]
219	MYH3	myosin heavy chain, fast skeletal muscle, embryonic (muscle embryonic myosin heavy chain) (smhce). [swissprot;acc:p11055]
220	MYH1	myosin heavy chain, skeletal muscle, adult 1 (myosin heavy chain iix/d) (myhc-iix/d). [swissprot;acc:p12882]
221	no value	myosin heavy chain, cardiac muscle beta isoform (myhc-beta). [swissprot;acc:p12883]
222	MYH7B	dj756n5.1.1 (continues in em:al133324 as dj1161h23.3) (fragment). [sptrembl;acc:q9h430]
223	MYH13	myosin heavy chain, skeletal muscle, extraocular (myhc-eo). [swissprot;acc:q9ukx3]
224	SLC15A2	oligopeptide transporter, kidney isoform (peptide transporter 2) (kidney h+/peptide cotransporter) (solute carrier family 15, member 2). [swissprot;acc:q16348]	185.969	165.623	1.12285
225	SNRPD2	small nuclear ribonucleoprotein sm d2 (snrnp core protein d2) (sm-d2). [swissprot;acc:p43330]	226.471	201.769	1.12243
226	COMP	cartilage oligomeric matrix protein precursor (comp). [swissprot;acc:p49747]	239.991	269.238	1.12187
227	THBS3	thrombospondin 3 precursor. [swissprot;acc:p49746]	239.99	269.234	1.12186
228	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]	226.411	202.088	1.12036
229	BCAR3	breast cancer antiestrogen resistance 3. [refseq;acc:nm_003567]	226.401	202.094	1.12028
230	CSRP1	cysteine-rich protein 1 (crp1) (crp). [swissprot;acc:p21291]	239.35	267.915	1.11934
231	SHCBP1	likely ortholog of mouse shc sh2-domain binding protein 1. [refseq;acc:nm_024745]	239.336	267.881	1.11927
232	CSRP2	smooth muscle cell lim protein (cysteine-rich protein 2) (crp2) (lim-only protein 5). [swissprot;acc:q16527]		267.879	1.11926

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.