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 - Divided Values

Type II network, divided values. Interestingly most of the proteins in the first 100 positions in this table would occur in the divided ranks table between position 100 and 200, indicating a difference in emphasis between the two simulations but not in the overall function. The fully annotated table, include Ensembl gene identifiers and network values can be found in the supplementary data.

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

Results: HTML CSV LaTeX

Showing element 180 to 229 of 3228 in total

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

Rank	green	description	red	network_comparison
180	298.438	tar dna-binding protein-43 (tdp-43). [swissprot;acc:q13148]	256.228	1.16474
181	267.265	b9 protein; likely ortholog of mouse endothelial precursor protein b9. [refseq;acc:nm_015681]	229.818	1.16294
182	240.461	histone acetyltransferase type b catalytic subunit (ec 2.3.1.48). [swissprot;acc:o14929]	277.546	1.15422
183	198.011	20 kda nuclear cap binding protein (ncbp 20 kda subunit) (cbp20) (ncbp interacting protein 1) (nip1). [swissprot;acc:p52298]	228.306	1.153
184	237.79	odd-skipped related 1; odz (odd oz/ten-m) related 1. [refseq;acc:nm_145260]	274.027	1.15239
185	246.371	adiponectin receptor 2. [refseq;acc:nm_024551]	281.582	1.14292
186	198.444	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	1.14179
187		rev1-like; rev1 protein; rev1 (yeast homolog)- like. [refseq;acc:nm_016316]
188		protein arginine n-methyltransferase 1 (ec 2.1.1.-) (interferon receptor 1-bound protein 4). [swissprot;acc:q99873]
189		protein arginine n-methyltransferase 4 (ec 2.1.1.-). [swissprot;acc:q9nr22]
190		u1 small nuclear ribonucleoprotein 70 kda (u1 snrnp 70 kda) (snrnp70) (u1-70k). [swissprot;acc:p08621]
191		filamin a (alpha-filamin) (filamin 1) (endothelial actin-binding protein) (abp-280) (nonmuscle filamin). [swissprot;acc:p21333]
192	199.458	musashi 2 isoform a. [refseq;acc:nm_138962]	227.491	1.14055
193		musashi 1. [refseq;acc:nm_002442]
194		nuclear protein ukp68. [refseq;acc:nm_024824]
195	200.417	huntingtin interacting protein c. [refseq;acc:nm_012272]	227.971	1.13748
196	231.407	forkhead box p4; fork head-related protein like a; winged-helix repressor foxp4. [refseq;acc:nm_138457]	263.215	1.13745
197		forkhead box protein p1 (hspc215). [swissprot;acc:q9h334]
198	231.394	forkhead box protein p3 (zinc finger protein jm2) (scurfin). [swissprot;acc:q9bzs1]	263.191	1.13741
199	276.059	palmitoyl-protein thioesterase 2 precursor (ec 3.1.2.22) (palmitoyl- protein hydrolase 2) (ppt-2) (g14). [swissprot;acc:q9umr5]	242.735	1.13729
200	276.018	egf-like-domain, multiple 7; neu1 protein. [refseq;acc:nm_016215]	242.718	1.1372
201	211.382	splicing factor 4 isoform b; rna-binding protein. [refseq;acc:nm_021164]	240.133	1.13601
202	228.784	short transient receptor potential channel 4 (trpc4) (trp-related protein 4) (htrp-4) (htrp4). [swissprot;acc:q9ubn4]	201.478	1.13553
203	228.752	ebp50-pdz interactor of 64 kda (epi64 protein). [swissprot;acc:q9bxi6]	201.515	1.13516
204		short transient receptor potential channel 5 (trpc5) (htrp-5) (htrp5). [swissprot;acc:q9ul62]
205	200.968	luc7-like 2; cgi-74 protein; cgi-59 protein. [refseq;acc:nm_016019]	228.1	1.13501
206	201.006	luc7-like; sarcoplasmic reticulum protein luc7b1. [refseq;acc:nm_018032]	228.085	1.13472
207	252.234	presenilin 2 (ps-2) (stm-2) (e5-1) (ad3lp) (ad5). [swissprot;acc:p49810]	285.684	1.13261
208		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		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		cullin homolog 2 (cul-2). [swissprot;acc:q13617]
211		presenilin 1 (ps-1) (s182 protein). [swissprot;acc:p49768]
212		cullin homolog 1 (cul-1). [swissprot;acc:q13616]
213	186.95	pallidin; pallid (mouse) homolog, pallidin. [refseq;acc:nm_012388]	210.693	1.127
214	170.192	lag1 longevity assurance homolog 2 isoform 1; l3 pigment; tumor metastasis-suppressor. [refseq;acc:nm_022075]	191.644	1.12605
215	126	myosin heavy chain, cardiac muscle alpha isoform (myhc-alpha). [swissprot;acc:p13533]	112	1.125
216		myosin heavy chain, skeletal muscle, fetal (myosin heavy chain iib) (myhc-iib). [swissprot;acc:q9y623]
217		myosin heavy chain, skeletal muscle, perinatal (myhc-perinatal). [swissprot;acc:p13535]
218		myosin heavy chain, skeletal muscle, adult 2 (myosin heavy chain iia) (myhc-iia). [swissprot;acc:q9ukx2]
219		myosin heavy chain, fast skeletal muscle, embryonic (muscle embryonic myosin heavy chain) (smhce). [swissprot;acc:p11055]
220		myosin heavy chain, skeletal muscle, adult 1 (myosin heavy chain iix/d) (myhc-iix/d). [swissprot;acc:p12882]
221		myosin heavy chain, cardiac muscle beta isoform (myhc-beta). [swissprot;acc:p12883]
222		dj756n5.1.1 (continues in em:al133324 as dj1161h23.3) (fragment). [sptrembl;acc:q9h430]
223		myosin heavy chain, skeletal muscle, extraocular (myhc-eo). [swissprot;acc:q9ukx3]
224	165.623	oligopeptide transporter, kidney isoform (peptide transporter 2) (kidney h+/peptide cotransporter) (solute carrier family 15, member 2). [swissprot;acc:q16348]	185.969	1.12285
225	201.769	small nuclear ribonucleoprotein sm d2 (snrnp core protein d2) (sm-d2). [swissprot;acc:p43330]	226.471	1.12243
226	269.238	cartilage oligomeric matrix protein precursor (comp). [swissprot;acc:p49747]	239.991	1.12187
227	269.234	thrombospondin 3 precursor. [swissprot;acc:p49746]	239.99	1.12186
228	202.088	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	1.12036
229	202.094	breast cancer antiestrogen resistance 3. [refseq;acc:nm_003567]	226.401	1.12028

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.