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

Results: HTML CSV LaTeX

Showing element 218 to 267 of 3228 in total

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

Rank	network_comparison	description	red	green
218	1.24712	transforming protein p21/h-ras-1 (c-h-ras). [swissprot;acc:p01112]	16070.4	12886
219	1.24711	transforming protein n-ras. [swissprot;acc:p01111]	16069.8	12885.6
220	1.24361	mannosyl-oligosaccharide 1,2-alpha-mannosidase ib (ec 3.2.1.113) (processing alpha-1,2-mannosidase ib) (alpha-1,2-mannosidase ib) (mannosidase alpha class 1a member 2). [swissprot;acc:o60476]	41482.5	33356.5
221		cytohesin 1 (sec7 homolog b2-1). [swissprot;acc:q15438]
222		cytohesin 2 (arf nucleotide-binding site opener) (arno protein) (arf exchange factor). [swissprot;acc:q99418]
223		cytohesin 4. [swissprot;acc:q9uia0]
224		cytohesin 3 (arf nucleotide-binding site opener 3) (arno3 protein) (general receptor of phosphoinositides 1) (grp1). [swissprot;acc:o43739]
225	1.24114	myosin heavy chain, cardiac muscle alpha isoform (myhc-alpha). [swissprot;acc:p13533]	9035	7279.6
226		myosin heavy chain, skeletal muscle, fetal (myosin heavy chain iib) (myhc-iib). [swissprot;acc:q9y623]
227		myosin heavy chain, skeletal muscle, perinatal (myhc-perinatal). [swissprot;acc:p13535]
228		myosin heavy chain, skeletal muscle, adult 2 (myosin heavy chain iia) (myhc-iia). [swissprot;acc:q9ukx2]
229		myosin heavy chain, fast skeletal muscle, embryonic (muscle embryonic myosin heavy chain) (smhce). [swissprot;acc:p11055]
230		myosin heavy chain, skeletal muscle, adult 1 (myosin heavy chain iix/d) (myhc-iix/d). [swissprot;acc:p12882]
231		myosin heavy chain, cardiac muscle beta isoform (myhc-beta). [swissprot;acc:p12883]
232		dj756n5.1.1 (continues in em:al133324 as dj1161h23.3) (fragment). [sptrembl;acc:q9h430]
233		myosin heavy chain, skeletal muscle, extraocular (myhc-eo). [swissprot;acc:q9ukx3]
234	1.23728	ribosomal protein s6 kinase, 52kda, polypeptide 1; ribosomal protein s6 kinase, 52kd, polypeptide 1. [refseq;acc:nm_012424]	5181.2	6410.58
235		ribosomal protein s6 kinase-like 1. [refseq;acc:nm_031464]
236	1.23392	spliceosomal u5 snrnp-specific 15 kda protein (dim1 protein homolog) (thioredoxin-like u5 snrnp protein u5-15kd). [swissprot;acc:o14834]	4723.53	5828.46
237	1.23301	u6 snrna-associated sm-like protein lsm5. [swissprot;acc:q9y4y9]	4567.04	5631.2
238	1.23182	protein phosphatase 1, regulatory subunit 7; sds22. [refseq;acc:nm_002712]	27642.5	22440.4
239	1.23071	carboxypeptidase b precursor. [refseq;acc:nm_020361]	7711.38	6265.8
240		mast cell carboxypeptidase a precursor (ec 3.4.17.1) (mc-cpa) (carboxypeptidase a3). [swissprot;acc:p15088]	7711.36	6265.79
241		plasma carboxypeptidase b2 isoform a preproprotein; carboxypeptidase u; thrombin-activatable fibrinolysis inhibitor; carboxypeptidase b-like protein; thrombin-activable fibrinolysis inhibitor. [refseq;acc:nm_001872]	7711.31	6265.76
242	1.22943	max protein. [swissprot;acc:p25912]	4640.26	5704.87
243	1.22652	homer, neuronal immediate early gene, 2; homer homolog 3 (drosophila). [refseq;acc:nm_004839]	4246.95	5208.98
244	1.22614	ubiquinone biosynthesis protein coq7 homolog (coenzyme q biosynthesis protein 7 homolog) (timing protein clk-1 homolog). [swissprot;acc:q99807]	4250.14	5211.25
245	1.22595	homer, neuronal immediate early gene, 1b. [refseq;acc:nm_004272]	4251.65	5212.33
246	1.22583	homer, neuronal immediate early gene, 3. [refseq;acc:nm_004838]	4252.66	5213.05
247	1.22574	wiskott-aldrich syndrome protein (wasp). [swissprot;acc:p42768]	6416.68	7865.15
248	1.22477	proto-oncogene c-crk (p38) (adapter molecule crk). [swissprot;acc:p46108]	6417.18	7859.6
249		tyrosine-protein kinase abl2 (ec 2.7.1.112) (tyrosine kinase arg). [swissprot;acc:p42684]		7859.59
250		proto-oncogene tyrosine-protein kinase src (ec 2.7.1.112) (p60-src) (c-src). [swissprot;acc:p12931]		7859.6
251		tyrosine-protein kinase hck (ec 2.7.1.112) (p59-hck/p60-hck) (hemopoietic cell kinase). [swissprot;acc:p08631]
252		crk-like protein. [swissprot;acc:p46109]
253		proto-oncogene tyrosine-protein kinase abl1 (ec 2.7.1.112) (p150) (c-abl). [swissprot;acc:p00519]		7859.59
254		proto-oncogene tyrosine-protein kinase fyn (ec 2.7.1.112) (p59-fyn) (syn) (slk). [swissprot;acc:p06241]		7859.6
255		proto-oncogene tyrosine-protein kinase fgr (ec 2.7.1.112) (p55-fgr) (c-fgr). [swissprot;acc:p09769]
256	1.22476	grb2-related adaptor protein 2 (gads protein) (growth factor receptor binding protein) (grblg) (grf40 adaptor protein) (grf-40) (grb-2-like protein) (grb2l) (grbx) (p38) (hematopoietic cell-associated adaptor protein grpl) (adapter protein grid) (sh3-sh2-sh3 adaptor mona). [swissprot;acc:o75791]	6417.19	7859.51
257	1.22452	ccaat displacement protein (cdp) (cut-like 1). [swissprot;acc:p39880]	6417.31	7858.12
258	1.22449	homeobox protein cux-2 (cut-like 2) (fragment). [swissprot;acc:o14529]	6417.33	7857.93
259	1.22355	neural wiskott-aldrich syndrome protein (n-wasp). [swissprot;acc:o00401]	6417.81	7852.52
260	1.22343	signal recognition particle 9 kda protein (srp9). [swissprot;acc:p49458]	4244.95	5193.42
261	1.22255		4247.36	5192.61
262	1.21852	cleavage and polyadenylation specific factor 4, 30kd subunit; cleavage-polyadenylation specificity factor, 30kd; no arches-like (zebrafish) zinc finger protein; cleavage-polyadenylation specificity factor. [refseq;acc:nm_006693]	24896.4	20431.7
263		trs85 homolog. [swissprot;acc:q9y2l5]
264	1.2181	cop9 constitutive photomorphogenic homolog subunit 3; cop9 complex subunit 3; jab1-containing signalosome subunit 3. [refseq;acc:nm_003653]	4987.58	4094.57
265	1.21782	wd-repeat protein wdc146. [swissprot;acc:q9c0j8]	24806.9	20369.9
266		cleavage and polyadenylation specificity factor, 160 kda subunit (cpsf 160 kda subunit). [swissprot;acc:q10570]
267	1.21682	ral guanine nucleotide dissociation stimulator (ralgef) (ralgds). [swissprot;acc:q12967]	14021.4	11523

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.