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

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Showing element 351 to 400 of 3228 in total

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

description	Rank	red	network_comparison	green
atp-dependent dna helicase q5 (recq protein-like 5) (recq5). [swissprot;acc:o94762]	1552	6025.86	1.07274	6464.16
atp-dependent rna helicase ddx18 (dead-box protein 18) (myc-regulated dead-box protein) (mrdb). [swissprot;acc:q9nvp1]	463	3720.18	1.1463	4264.46
atp-dependent rna helicase ddx24 (dead-box protein 24). [swissprot;acc:q9gzr7]	326	3432.96	1.18883	4081.21
atp-dependent rna helicase mgc2835; atp-dependent rna helicase; apoptosis related protein apr-5; dead box helicase 97 kda. [refseq;acc:nm_024072]	392	3641.89	1.16339	4236.95
atp-dependent rna helicase rok1; atp-dependent rna helicase. [refseq;acc:nm_007010]	836	4049	1.10581	4477.43
atpase inhibitor, mitochondrial precursor. [swissprot;acc:q9uii2]	642	4810.85	1.12542	5414.23
atpase, h+ transporting, lysosomal 38kda, v0 subunit d isoform 2. [refseq;acc:nm_152565]	760	5870.2	1.11298	6533.39
atpase, h+ transporting, lysosomal v0 subunit a isoform 4; vacuolar proton pump 116 kda accessory subunit; vacuolar proton pump, subunit 2; h(+)-transporting two-sector atpase, noncatalytic accessory protein 1b; atpase, h+ transporting, lysosomal (vacuolar proton pump) non-catalytic accessory protein 1b; renal tubular acidosis; atpase, h+ transporting, lysosomal (vacuolar proton pump) non-catalytic accessory protein 2 (38kd). [refseq;acc:nm_020632]	789	5890.59	1.1116	6547.99
atrophin-1 (dentatorubral-pallidoluysian atrophy protein). [swissprot;acc:p54259]	2283	5783.7	1.04585	6048.88
atrophin-1 interacting protein 1; activin receptor interacting protein 1; likely ortholog of mouse activin receptor interacting protein 1; atrophin-1 interacting protein a; membrane associated guanylate kinase 2; activin receptor interacting p. [refseq;acc:nm_012301]	2355	5262.6	1.0437	5492.58
au rna-binding protein/enoyl-coenzyme a hydratase precursor; au rna-binding protein/enoyl-coenzyme a hydratase; 3-methylglutaconyl-coa hydratase; mga type i. [refseq;acc:nm_001698]	2913	0.00001	1	0.00001
autoantigen ngp-1. [swissprot;acc:q13823]	566	3766.14	1.13506	4274.79
autophagy protein 12-like (apg12-like). [swissprot;acc:o94817]	203	11757.8	1.25723	9352.11
autophagy protein 5-like (apg5-like) (apoptosis-specific protein). [swissprot;acc:q9h1y0]	414	6744.05	1.15974	5815.13
axonemal dynein light intermediate polypeptide 1 (inner dynein arm light chain, axonemal) (hp28). [swissprot;acc:o14645]	792	6772.75	1.11125	7526.2
b-cell cll/lymphoma 6, member b (zinc finger protein); zinc finger protein 62. [refseq;acc:nm_181844]	1633	9899.79	1.07011	9251.2
b-cell lymphoma 3-encoded protein (bcl-3 protein). [swissprot;acc:p20749]	2658	8278.73	1.00824	8211.05
b-cell lymphoma 6 protein (bcl-6) (zinc finger protein 51) (laz-3 protein) (bcl-5). [swissprot;acc:p41182]	1635	9899.73	1.07011	9251.16
b-raf proto-oncogene serine/threonine-protein kinase (ec 2.7.1.-) (p94) (v-raf murine sarcoma viral oncogene homolog b1). [swissprot;acc:p15056]	198	17710.9	1.26708	13977.7
b9 protein; likely ortholog of mouse endothelial precursor protein b9. [refseq;acc:nm_015681]	609	3886.62	1.13022	3438.82
ba127l20.1 (novel glutathione-s-transferase). [sptrembl;acc:q9h4y5]	1973	4374.32	1.05994	4126.96
ba138e2.1.2 (formin-binding protein 17 (fbp17), isoform 2). [sptrembl;acc:q96lh6]	1728	5475.44	1.06782	5127.66
ba203i16.1 (hypothetical protein kiaa0970). [sptrembl;acc:q9h1w1]	3117	0.00001	1	0.00001
ba207c16.2 (fragment). [sptrembl;acc:q9nql7]	2636	7017.82	1.01298	7108.89
ba271b5.1 (similar to ribosomal protein s7). [sptrembl;acc:q9h1s9]	1641	5782.92	1.06977	6186.39
ba304i5.1 (novel lipase) (fragment). [sptrembl;acc:q96lg2]	1000	5680.76	1.095	6220.45
ba305p22.3 (breast carcinoma amplified sequence 4). [sptrembl;acc:q8ndy6]	907	11852.9	1.10019	10773.5
ba395l14.12 (novel protein similar to small nuclear ribonucleoprotein polypeptide a' (snrpa1)). [sptrembl;acc:q9nu36]	299	4914.27	1.20203	5907.12
ba508n22.1 (hspc025) (fragment). [sptrembl;acc:q9hcw5]	2130	5328.73	1.05402	5616.59
ba528a10.3.2 (novel protein similar to kiaa0161, isoform 2) (fragment). [sptrembl;acc:q9bx39]	2968	0.00001	1	0.00001
bactericidal permeability-increasing protein precursor (bpi) (cap 57). [swissprot;acc:p17213]	2338	5123.89	1.04428	5350.78
baculoviral iap repeat-containing protein 5 (apoptosis inhibitor survivin) (apoptosis inhibitor 4). [swissprot;acc:o15392]	2024	5976.81	1.05807	6323.87
bag-family molecular chaperone regulator-1 (bcl-2 binding athanogene- 1) (bag-1) (glucocorticoid receptor-associated protein rap46). [swissprot;acc:q99933]	1322	6439.79	1.08066	6959.21
bag-family molecular chaperone regulator-2. [swissprot;acc:o95816]	2471	7765.3	1.03074	8004
bag-family molecular chaperone regulator-3 (bcl-2 binding athanogene- 3) (bag-3) (bcl-2-binding protein bis) (docking protein cair-1). [swissprot;acc:o95817]	417	4522.71	1.15708	5233.14
bai1-associated protein 1; ww domain-containing protein 3; atrophin-1 interacting protein 3. [refseq;acc:nm_004742]	2365	5254.55	1.04301	5480.56
bai1-associated protein 3; bai-associated protein 3. [refseq;acc:nm_003933]	394	4490.28	1.16301	5222.25
band 4.1-like protein 1 (neuronal protein 4.1) (4.1n). [swissprot;acc:q9h4g0]	969	7813.34	1.09684	8569.95
band 4.1-like protein 2 (generally expressed protein 4.1) (4.1g). [swissprot;acc:o43491]	971	7813.36		8569.97
band 4.1-like protein 3 (4.1b) (differentially expressed in adenocarcinoma of the lung protein 1) (dal-1). [swissprot;acc:q9y2j2]	970	7813.45		8570.07
bardet-biedl syndrome 7 protein isoform a; bbs2-like 1. [refseq;acc:nm_176824]	2129	5328.73	1.05402	5616.59
barrier-to-autointegration factor (breakpoint cluster region protein 1). [swissprot;acc:o75531]	2804	0.00001	1	0.00001
basic helix-loop-helix domain containing, class b, 5; trinucleotide repeat containing 20. [refseq;acc:nm_152414]	908	11848.8	1.10014	10770.3
basic proline-rich peptide p-e (ib-9). [swissprot;acc:p02811]	1920	6262.66	1.0623	6652.85
bax inhibitor-1 (bi-1) (testis enhanced gene transcript). [swissprot;acc:p55061]	2950	0.00001	1	0.00001
bcl-6 interacting corepressor isoform 1. [refseq;acc:nm_017745]	2776
beclin 1 (coiled-coil myosin-like bcl2-interacting protein) (protein gt197). [swissprot;acc:q14457]	2650	9150.44	1.00914	9234.09
bet3 homolog. [swissprot;acc:o43617]	352	17396.9	1.17745	20483.9
beta adducin (erythrocyte adducin beta subunit). [swissprot;acc:p35612]	1368	5793.29	1.07858	6248.51
beta enolase (ec 4.2.1.11) (2-phospho-d-glycerate hydro-lyase) (skeletal muscle enolase) (mse) (enolase 3). [swissprot;acc:p13929]	944	6597.98	1.09746	7241

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.