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

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Showing element 6908 to 6957 of 8289 in total

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

Rank	description	red	green	network_comparison
3680	survival of motor neuron protein-interacting protein 1 (smn- interacting protein 1) (component of gems 2) (gemin2). [swissprot;acc:o14893]	7908.04	8104.65	1.02486
3681	u3 small nucleolar ribonucleoprotein protein mpp10 (m phase phosphoprotein 10). [swissprot;acc:o00566]	7906.62	8102.91	1.02483
3682	opsin 4 (melanopsin). [swissprot;acc:q9uhm6]	7662.23	7852.4	1.02482
3683	hect domain containing protein 1 (fragment). [swissprot;acc:q9ult8]
3684	heterogeneous nuclear ribonucleoprotein l (hnrnp l). [swissprot;acc:p14866]	7986.08	8184.19	1.02481
3685	ubash3a protein. [swissprot;acc:p57075]	7864.66	8059.67	1.0248
3686	nm23-phosphorylated unknown substrate; sh3 domain-containing 70 kda protein. [refseq;acc:nm_032873]
3687	filamin a (alpha-filamin) (filamin 1) (endothelial actin-binding protein) (abp-280) (nonmuscle filamin). [swissprot;acc:p21333]
3688	odz, odd oz/ten-m homolog 1; tenascin m; odz (odd oz/ten-m, drosophila) homolog 3; odz (odd oz/ten-m, drosophila) homolog 1. [refseq;acc:nm_014253]
3689	death domain-associated protein 6 (daxx) (hdaxx) (fas death domain- associated protein) (ets1 associated protein 1) (eap1). [swissprot;acc:q9uer7]
3690	eap30 subunit of ell complex. [refseq;acc:nm_007241]	7909.22	8105.12	1.02477
3691	cellular modulator of immune recognition. [refseq;acc:nm_145021]	7600.76	7788.94	1.02476
3692	inositol hexaphosphate kinase 1. [refseq;acc:nm_153273]	8323.94	8529.92	1.02475
3693	signal transducing adaptor molecule 1; signal transducing adaptor molecule. [refseq;acc:nm_003473]	8035.83	8234.65	1.02474
3694	af-6 protein. [swissprot;acc:p55196]	7841.24	8035.24
3695	ubiquinol-cytochrome c reductase iron-sulfur subunit, mitochondrial precursor (ec 1.10.2.2) (rieske iron-sulfur protein) (risp). [swissprot;acc:p47985]	8062.85	8262.22	1.02473
3696	cell adhesion molecule with homology to l1cam precursor; neural cell adhesion molecule; cell adhesion molecule l1-like; l1 cell adhesion molecule 2. [refseq;acc:nm_006614]	8077.4	8277.12
3697	probable ribosome biogenesis protein nep1 (c2f protein). [swissprot;acc:q92979]	7894.69	8089.92
3698	neural cell adhesion molecule l1 precursor (n-cam l1) (cd171 antigen). [swissprot;acc:p32004]	8077.4	8277.12
3699	transcription initiation factor tfiid 31 kda subunit (tafii-31) (tafii-32) (tafii32). [swissprot;acc:q16594]
3700	axin 2 (axis inhibition protein 2) (conductin) (axin-like protein) (axil). [swissprot;acc:q9y2t1]	7900.52	8095.84	1.02472
3701	epoxide hydrolase 1 (ec 3.3.2.3) (microsomal epoxide hydrolase) (epoxide hydratase). [swissprot;acc:p07099]	8140.64	8341.87
3702	axin 1 (axis inhibition protein 1) (haxin). [swissprot;acc:o15169]	7900.52	8095.84
3703	homeobox protein dlx-3. [swissprot;acc:o60479]	7923.73	8119.63
3704	homeobox protein dlx-5. [swissprot;acc:p56178]	7923.72	8119.52	1.02471
3705	mitochondrial ribosomal protein l18. [refseq;acc:nm_014161]	7940.44	8136.53	1.0247
3706	survival motor neuron protein (component of gems 1) (gemin1). [swissprot;acc:q16637]	7816.04	8008.83	1.02467
3707	centaurin beta 1 (cnt-b1). [swissprot;acc:q15027]	8108.6	8308.65
3708	centaurin beta 5 (cnt-b5). [swissprot;acc:q96p50]	8108.27	8308.26	1.02466
3709	homeobox protein six2 (sine oculis homeobox homolog 2). [swissprot;acc:q9npc8]	7930.98	8126.47	1.02465
3710	rho guanine nucleotide exchange factor (gef) 12; leukemia-associated rho guanine nucleotide exchange factor. [refseq;acc:nm_015313]	7931.57	8127.08
3711	rho guanine nucleotide exchange factor (gef) 11; rhoa-specific guanine nucleotide exchange factor; rho guanine exchange factor (gef) 11; rhogef glutamate transport modulator; glutamate transporter eaat4-associated protein 48. [refseq;acc:nm_014784]	7931.55	8127.06
3712	homeobox protein six1 (sine oculis homeobox homolog 1). [swissprot;acc:q15475]	7932.03	8127.55
3713	bile acid beta-glucosidase. [refseq;acc:nm_020944]	7931.55	8127.06
3714	associated molecule with the sh3 domain of stam (amsh) like protein. [refseq;acc:nm_020799]	7382.5	7204.94	1.02464
3715	downstream of son gene protein (b17). [swissprot;acc:q9nyp3]	8030.73	8228.51	1.02463
3716	basic leucine zipper nuclear factor 1 (jem-1); basic-leucine zipper nuclear factor; likely ortholog of mouse golgin-45. [refseq;acc:nm_003666]
3717	baculoviral iap repeat-containing protein 5 (apoptosis inhibitor survivin) (apoptosis inhibitor 4). [swissprot;acc:o15392]
3718	dj681n20.2 (novel protein similar to ferritin, light polypeptide (ftl)). [sptrembl;acc:q9byw6]	7813.59	8005.63	1.02458
3719	malate dehydrogenase, mitochondrial precursor (ec 1.1.1.37). [swissprot;acc:p40926]	8279.28	8482.78
3720	ferritin light chain (ferritin l subunit). [swissprot;acc:p02792]	7813.57	8005.59
3721	lactamase, beta 2. [refseq;acc:nm_016027]	8023.34	8220.34	1.02455
3722	inositol hexaphosphate kinase 3; inositol hexakisphosphate kinase 3. [refseq;acc:nm_054111]	8325.82	8530.11	1.02454
3723	inositol hexaphosphate kinase 2; mammalian inositol hexakisphosphate kinase 2. [refseq;acc:nm_016291]	8325.89	8530.12	1.02453
3724	calponin homology domain containing protein 1 (fragment). [swissprot;acc:q9y2l9]	8037.49	8234.54	1.02452
3725	signal transducing adaptor molecule 2; stam-like protein containing sh3 and itam domains 2. [refseq;acc:nm_005843]	8060.37	8257.99
3726	transcription elongation regulator 1; transcription factor ca150; tata box binding protein (tbp)-associated factor, rna polymerase ii, s, 150kd; tata box-binding protein-associated factor 2s. [refseq;acc:nm_006706]	8037.49	8234.54
3727	homeobox protein engrailed-2 (hu-en-2). [swissprot;acc:p19622]	7550.53	7735.6	1.02451
3728	3-hydroxyacyl-coa dehydrogenase type ii (ec 1.1.1.35) (type ii hadh) (endoplasmic reticulum-associated amyloid beta-peptide binding protein) (short-chain type dehydrogenase/reductase xh98g2). [swissprot;acc:q99714]	7900.62	8094.29
3729	polybromo 1. [refseq;acc:nm_018165]	7694.52	7883.04	1.0245

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.