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 [...,...].

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

Results: HTML CSV LaTeX

Showing element 51 to 100 of 77072 in total

Filtered  : 0
Value Type  : Measured
Network Comparison Type  : Divided
Interaction Map  : High confidence

network_comparison	Rank	description	green	red
1.01496	452	alanine aminotransferase (ec 2.6.1.2) (glutamic--pyruvic transaminase) (gpt) (glutamic--alanine transaminase). [swissprot;acc:p24298]	1504.85	1527.36
1.01545	451	26s proteasome non-atpase regulatory subunit 10 (26s proteasome regulatory subunit p28) (gankyrin). [swissprot;acc:o75832]	2642.79	2683.61
1.01569	450	dj153g14.2 (possible ca binding protein similar to nefa) (fragment). [sptrembl;acc:q9ujn8]	4094.09	4158.33
1.01634	449	segment polarity protein dishevelled homolog dvl-1 (dishevelled-1) (dsh homolog 1). [swissprot;acc:o14640]	5607.7	5699.32
1.01682	448	protein disulfide isomerase precursor (pdi) (ec 5.3.4.1) (prolyl 4- hydroxylase beta subunit) (cellular thyroid hormone binding protein) (p55). [swissprot;acc:p07237]	533.236	524.415
1.01735	447	40s ribosomal protein s3a. [swissprot;acc:p49241]	2879.55	2929.51
1.01787	446	mevalonate kinase (ec 2.7.1.36) (mk). [swissprot;acc:q03426]	1522.06	1549.26
1.01835	445	mstp028 protein. [refseq;acc:nm_031954]	9808.48	9988.45
1.02223	443	ribosomal protein s27-like protein; 40s ribosomal protein s27 isoform. [refseq;acc:nm_015920]	2379.52	2432.41
	444	40s ribosomal protein s27 (metallopan-stimulin 1) (mps-1). [swissprot;acc:p42677]	2378.99	2431.87
1.02335	442	repressor of estrogen receptor activity; b-cell associated protein. [refseq;acc:nm_007273]	6856.28	6699.82
1.02355	441	aspartate beta-hydroxylase isoform b; junctin isoform 1; junctate; aspartyl/asparaginyl-beta-hydroxylase; peptide-aspartate beta-dioxygenase; humbug. [refseq;acc:nm_032468]	6303	6158
1.02491	440	limbic system-associated membrane protein precursor (lsamp). [swissprot;acc:q13449]	7000.85	6830.67
1.02503	439	protein c20orf45 (cgi-107). [swissprot;acc:q9y3b1]	546	532.667
1.0252	438	3-hydroxyisobutyryl-coenzyme a hydrolase. [refseq;acc:nm_014362]	2853.65	2925.57
1.02531	437	protein cgi-140 (protein ptd008) (my006 protein). [swissprot;acc:q9y284]	2390	2331
1.0265	436	alpha-nac protein. [sptrembl;acc:q9h009]	151.122	147.221
1.02677	435	elav-like protein 3 (hu-antigen c) (huc) (paraneoplastic cerebellar degeneration-associated antigen) (paraneoplastic limbic encephalitis antigen 21). [swissprot;acc:q14576]	5737.71	5891.28
1.02736	432	high-glucose-regulated protein 8 (ny-ren-2 antigen). [swissprot;acc:q9y5a9]	103.25	100.5
	433	sh3 adapter protein spin90 (sh3 protein interacting with nck, 90 kda) (vaca-interacting protein, 54 kda) (vip54) (af3p21) (diaphanous protein interacting protein) (dia interacting protein-1) (dip-1). [swissprot;acc:q9nzq3]
	434	testis-specific protein tpx-1 precursor (cysteine-rich secretory protein-2) (crisp-2). [swissprot;acc:p16562]	206.5	201
1.02787	431	nascent-polypeptide-associated complex alpha polypeptide. [refseq;acc:nm_005594]	150.709	146.622
1.02803	430	succinate dehydrogenase [ubiquinone] flavoprotein subunit, mitochondrial precursor (ec 1.3.5.1) (fp) (flavoprotein subunit of complex ii). [swissprot;acc:p31040]	10535	10247.8
1.02858	429	tbp-associated factor 9l; neuronal cell death-related protein; taf9-like rna polymerase ii, tata box binding protein (tbp)-associated factor, 31 kd; neuronal cell death-related gene in neuron-7; transcription associated factor tafii31l; transcription initiation factor iid, 31kd subunit. [refseq;acc:nm_015975]	485.852	472.351
1.02953	428	glycogenin-2 (ec 2.4.1.186) (gn-2) (gn2). [swissprot;acc:o15488]	14688.8	14267.5
1.02978	427	putative inorganic polyphosphate/atp-nad kinase (ec 2.7.1.23) (poly(p)/atp nad kinase). [swissprot;acc:o95544]	1161.29	1195.87
1.03004	426	ran-binding protein 2-like 1 isoform 2; sperm membrane protein bs-63; ran-binding protein 2-like 1. [refseq;acc:nm_032260]	2133.83	2071.59
1.03079	425		2134.56	2070.81
1.03136	424	histone h3.1 (h3/a) (h3/c) (h3/d) (h3/f) (h3/h) (h3/i) (h3/j) (h3/k) (h3/l). [swissprot;acc:p16106]	4091.59	3967.18
1.03165	423	fibrillin 3. [refseq;acc:nm_032447]	13809	14246
1.03203	422	kappa b-ras 1. [refseq;acc:nm_020345]	1117.36	1153.15
1.03207	421	importin 4. [refseq;acc:nm_024658]	476.639	491.926
1.03214	420	trinucleotide repeat containing 15. [refseq;acc:nm_015575]	19496	18889
1.03225	419	60s ribosomal protein l18a. [swissprot;acc:q02543]	2604.71	2688.7
1.03226	418	zinc finger imprinted 2. [swissprot;acc:q9nzv7]	699.577	722.144
1.0323	417	zinc finger protein 215 (bwscr2 associated zinc-finger protein 2) (baz 2). [swissprot;acc:q9ul58]	699.324	721.913
1.03231	416	zinc finger protein 24 (zinc finger protein 191) (zinc finger protein kox17) (retinoic acid suppression protein a) (rsg-a). [swissprot;acc:p17028]	699.297	721.888
1.03232	415	zinc finger protein 232. [swissprot;acc:q9uny5]	699.215	721.814
1.03363	414	ribonucleoside-diphosphate reductase m1 chain (ec 1.17.4.1) (ribonucleotide reductase large chain). [swissprot;acc:p23921]	7276.12	7520.78
1.03392	413	lifeguard; kiaa0950 protein. [refseq;acc:nm_012306]	634.192	613.385
1.03449	412	60s ribosomal protein l39. [swissprot;acc:p02404]	2923.92	3024.78
1.03663	411	transcription initiation factor tfiid 135 kda subunit (tafii-135) (tafii135) (tafii-130) (tafii130). [swissprot;acc:o00268]	30022.4	31122
1.03704	408	glycerol kinase, testis specific 1 (ec 2.7.1.30) (atp:glycerol 3- phosphotransferase) (glycerokinase) (gk). [swissprot;acc:q14409]	227.143	219.031
	409	glycerol kinase (ec 2.7.1.30) (atp:glycerol 3-phosphotransferase) (glycerokinase) (gk). [swissprot;acc:p32189]	227.308	219.19
	410	glycerol kinase, testis specific 2 (ec 2.7.1.30) (atp:glycerol 3- phosphotransferase) (glycerokinase) (gk). [swissprot;acc:q14410]	226.81	218.71
1.03802	407	hepatocyte growth factor-regulated tyrosine kinase substrate; human growth factor-regulated tyrosine kinase substrate. [refseq;acc:nm_004712]	3481.87	3614.24
1.03839	406	u2 small nuclear ribonucleoprotein auxiliary factor 35 kda subunit related-protein 1. [swissprot;acc:q15695]	2454.04	2363.32
1.03858	405	integral membrane protein cii-3b. [sptrembl;acc:o75609]	2304.22	2218.63
1.03968	404	thymidylate kinase (ec 2.7.4.9) (dtmp kinase). [swissprot;acc:p23919]	1278.36	1229.57
1.03981	399	myosin heavy chain, cardiac muscle alpha isoform (myhc-alpha). [swissprot;acc:p13533]	527.5	548.5

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.