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

Results: HTML CSV LaTeX

Showing element 651 to 700 of 3228 in total

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

description	Rank	red	green	network_comparison
crk-like protein. [swissprot;acc:p46109]	552	207.26	194.346	1.06645
crooked neck-like protein 1 (crooked neck homolog) (hcrn) (cgi-201) (mstp021). [swissprot;acc:q9bzj0]	564	220.744	207.121	1.06577
ctcl tumor antigen l14-2. [refseq;acc:nm_018017]	2846	0.00001	0.00001	1
ctp synthase (ec 6.3.4.2) (utp--ammonia ligase) (ctp synthetase). [swissprot;acc:p17812]	1755	180.609	178.393	1.01242
cug triplet repeat rna-binding protein 1 (cug-bp1) (rna-binding protein brunol-2) (deadenylation factor cug-bp) (50 kda nuclear polyadenylated rna-binding protein) (eden-bp). [swissprot;acc:q92879]	1801	217.984	215.441	1.0118
cug triplet repeat, rna binding protein 2; elav-type rna-binding protein; cug triplet repeat,rna-binding protein 2; cug triplet repeat, rna-binding protein 2; neuroblastoma apoptosis-related rna-binding protein. [refseq;acc:nm_006561]	1804		215.442
cullin homolog 1 (cul-1). [swissprot;acc:q13616]	212	285.684	252.234	1.13261
cullin homolog 2 (cul-2). [swissprot;acc:q13617]	210
cyclic-amp-dependent transcription factor atf-2 (activating transcription factor 2) (camp response element binding protein cre- bp1) (hb16). [swissprot;acc:p15336]	1401	218.657	214.11	1.02124
cyclic-amp-dependent transcription factor atf-3 (activating transcription factor 3). [swissprot;acc:p18847]	28	201.949	153.671	1.31416
cyclic-amp-dependent transcription factor atf-6 alpha (activating transcription factor 6 alpha) (atf6-alpha). [swissprot;acc:p18850]	1683	216.899	213.889	1.01407
cyclic-amp-dependent transcription factor atf-6 beta (activating transcription factor 6 beta) (atf6-beta) (camp responsive element binding protein-like 1) (camp response element binding protein-related protein) (creb-rp) (g13 protein). [swissprot;acc:q99941]	1680
cyclic-amp-dependent transcription factor atf-7 (activating transcription factor 7) (transcription factor atf-a). [swissprot;acc:p17544]	1400	218.667	214.118	1.02125
cyclin c. [swissprot;acc:p24863]	1812	217.071	214.564	1.01168
cyclin g1 (cyclin g). [swissprot;acc:p51959]	963	130.066	134.527	1.0343
cyclin g2. [swissprot;acc:q16589]	962
cyclin h (mo15-associated protein) (p37) (p34). [swissprot;acc:p51946]	2983	0.00001	0.00001	1
cyclin k. [swissprot;acc:o75909]	3160
cyclin m1; ancient conserved domain protein 1. [refseq;acc:nm_020348]	2606	214.5	214.198	1.00141
cyclin m2; ancient conserved domain protein 2. [refseq;acc:nm_017649]	2604	214.486	214.184
cyclin m3; ancient conserved domain protein 3. [refseq;acc:nm_017623]	2601	214.502	214.2
cyclin m4; ancient conserved domain protein 4. [refseq;acc:nm_020184]	2603	214.494	214.192
cyclin t1 (cyclin t) (cyct1). [swissprot;acc:o60563]	3002	0.00001	0.00001	1
cyclin t2. [swissprot;acc:o60583]	3171
cyclin-dependent kinase (cdc2-like) 11; death-preventing kinase. [refseq;acc:nm_015076]	2892
cyclin-dependent kinase 2-associated protein 1 (cdk2-associated protein 1) (putative oral cancer suppressor) (deleted in oral cancer- 1) (doc-1). [swissprot;acc:o14519]	336	312	284	1.09859
cyclin-dependent kinases regulatory subunit 1 (cks-1) (sid1334) (pnas-16 / pnas-143). [swissprot;acc:p33551]	1452	160.381	163.554	1.01978
cyclin-dependent kinases regulatory subunit 2 (cks-2). [swissprot;acc:p33552]	1833	180.409	182.459	1.01136
cylindromatosis (turban tumor syndrome); cylindromatosis 1, turban tumor syndrome. [refseq;acc:nm_015247]	2570	219.907	220.267	1.00164
cyr61 protein precursor (cysteine-rich, angiogenic inducer, 61) (insulin-like growth factor-binding protein 10) (gig1 protein). [swissprot;acc:o00622]	2938	0.00001	0.00001	1
cystathionine beta-synthase (ec 4.2.1.22) (serine sulfhydrase) (beta-thionase). [swissprot;acc:p35520]	1022	205.632	199.266	1.03195
cystathionine gamma-lyase (ec 4.4.1.1) (gamma-cystathionase). [swissprot;acc:p32929]	121	269.254	327.655	1.2169
cysteine endopeptidase aut-like 2 isoform a; autophagy-related cysteine endopeptidase 2; autophagin 2. [refseq;acc:nm_052936]	14	56.6768	75.3531	1.32952
cysteine endopeptidase aut-like isoform b. [refseq;acc:nm_178326]	17	56.7841	75.447	1.32866
cysteine-rich motor neuron 1; cysteine-rich repeat-containing protein s52 precursor. [refseq;acc:nm_016441]	1531	217.025	213.304	1.01744
cysteine-rich protein 1 (crp1) (crp). [swissprot;acc:p21291]	230	239.35	267.915	1.11934
cysteine-rich protein 1 (cysteine-rich intestinal protein) (crip) (cysteine-rich heart protein) (hcrhp). [swissprot;acc:p50238]	1423	221.152	216.659	1.02074
cysteine-rich secretory protein-1 precursor (crisp-1) (acidic epididymal glycoprotein homolog) (aeg-like protein) (arp). [swissprot;acc:p54107]	3018	0.00001	0.00001	1
cysteine-rich secretory protein-3 precursor (crisp-3) (sgp28 protein). [swissprot;acc:p54108]	3150
cytidine deaminase (ec 3.5.4.5) (cytidine aminohydrolase). [swissprot;acc:p32320]	1880	220.852	223.225	1.01074
cytidine triphosphate synthase ii; ctp synthetase type 2; utp-ammonia ligase; ctp synthetase isoform; cytidine 5'-triphosphate synthetase 2. [refseq;acc:nm_019857]	1757	180.537	178.325	1.0124
cytochrome b5 reductase 1 (b5r.1). [refseq;acc:nm_016243]	1862	210.856	213.147	1.01087
cytochrome b5 reductase b5r.2. [refseq;acc:nm_016229]	1861
cytochrome c oxidase assembly protein cox11, mitochondrial precursor. [swissprot;acc:q9y6n1]	1511	213.268	209.509	1.01794
cytochrome c oxidase polypeptide va, mitochondrial precursor (ec 1.9.3.1). [swissprot;acc:p20674]	2791	0.00001	0.00001	1
cytochrome c oxidase polypeptide vib (ec 1.9.3.1) (aed). [swissprot;acc:p14854]	3009
cytochrome c oxidase subunit iv isoform 1, mitochondrial precursor (ec 1.9.3.1) (cox iv-1) (cytochrome c oxidase polypeptide iv). [swissprot;acc:p13073]	2402	182.4	183.083	1.00374
cytochrome c oxidase subunit iv isoform 2, mitochondrial precursor (ec 1.9.3.1) (cox iv-2). [swissprot;acc:q96kj9]	2403
cytochrome c-type heme lyase (ec 4.4.1.17) (cchl) (holocytochrome c- type synthase). [swissprot;acc:p53701]	1369	228.644	223.736	1.02194
cytochrome c. [swissprot;acc:p00001]	1533	228.419	232.376	1.01732

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.