Scientific

MK5 Microarray Data

Affected Genes - Ontology Breakdown - Gene Enrichment - Proteome Analysis

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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Rank Gene description Value Type Network Comparison Type Interaction Map Filtered red green network_comparison
Results: HTML CSV LaTeX Showing element 101 to 150 of 8289 in total
Value Type  : Measured
Network Comparison Type  : Divided
Filtered  : 1
Rank
description
Interaction Map
red
green
network_comparison
51 dj310o13.4 (novel protein similar to predicted c. elegans and c. intestinalis proteins) (fragment). [sptrembl;acc:q9nug5] Low confidence 7563.09 8732.2 1.15458
neurogenic differentiation factor 4 (neurod4). [swissprot;acc:q9hd90] High confidence 779.167 1390.33 1.78438
52 chromodomain helicase dna binding protein 5. [refseq;acc:nm_015557]
cysteine endopeptidase aut-like isoform b. [refseq;acc:nm_178326] Low confidence 13195.9 11486.4 1.14883
53 bcl2-related ovarian killer. [refseq;acc:nm_032515] 4955.33 5659.35 1.14207
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] High confidence 779.167 1390.33 1.78438
54 deltex 2. [refseq;acc:nm_020892] 1618.84 2651.88 1.63814
septin-like protein kiaa0202 (fragment). [swissprot;acc:q92599] Low confidence 13203.5 15033.4 1.13859
55 deltex homolog 1; hdx-1. [refseq;acc:nm_004416] High confidence 1629.21 2662.12 1.63399
septin 10 isoform 1. [refseq;acc:nm_144710] Low confidence 13081.2 14872.6 1.13694
56 homeobox protein hox-c4 (hox-3e) (cp19). [swissprot;acc:p09017] 15464.1 17572.7 1.13635
t-lak cell-originated protein kinase; spermatogenesis-related protein kinase; pdz-binding kinase; pbk; mapkk-like protein kinase; serine/threonine protein kinase. [refseq;acc:nm_018492] High confidence 1631.67 2664.55 1.63302
57 homeobox protein hox-b4 (hox-2f) (hox-2.6). [swissprot;acc:p17483] Low confidence 15464.1 17572.7 1.13635
kh domain containing, rna binding, signal transduction associated 3; sam68-like phosphotyrosine protein, t-star. [refseq;acc:nm_006558] High confidence 1631.67 2664.55 1.63302
58 homeobox protein hox-c5 (hox-3d) (cp11). [swissprot;acc:q00444] Low confidence 15464.1 17572.7 1.13635
kh domain containing, rna binding, signal transduction associated 1; gap-associated tyrosine phosphoprotein p62 (sam68). [refseq;acc:nm_006559] High confidence 1631.67 2664.55 1.63302
59 homeobox protein hox-c6 (hox-3c) (hho.c8) (cp25). [swissprot;acc:p09630] Low confidence 15464.1 17572.7 1.13635
kh domain-containing, rna-binding, signal transduction-associated protein 2; sam68-like mammalian protein 1. [refseq;acc:nm_152688] High confidence 1631.67 2664.55 1.63302
60 1,4-alpha-glucan branching enzyme (ec 2.4.1.18) (glycogen branching enzyme) (brancher enzyme). [swissprot;acc:q04446] 4489.19 2765.82 1.6231
homeobox protein hox-d4 (hox-4b) (hox-5.1) (hho.c13). [swissprot;acc:p09016] Low confidence 15464.1 17572.7 1.13635
61 glycogen phosphorylase, brain form (ec 2.4.1.1). [swissprot;acc:p11216] High confidence 4489.19 2765.82 1.6231
homeobox protein hox-b5 (hox-2a) (hho.c10) (hu-1). [swissprot;acc:p09067] Low confidence 15464.1 17572.7 1.13635
62 glycogen phosphorylase, liver form (ec 2.4.1.1). [swissprot;acc:p06737] High confidence 4489.19 2765.82 1.6231
homeobox protein hox-a5 (hox-1c). [swissprot;acc:p20719] Low confidence 15464.1 17572.7 1.13635
63 homeobox protein hox-a4 (hox-1d) (hox-1.4). [swissprot;acc:q00056]
myosin xv (unconventional myosin-15). [swissprot;acc:q9ukn7] High confidence 4489.19 2765.82 1.6231
64 glycogen phosphorylase, muscle form (ec 2.4.1.1) (myophosphorylase). [swissprot;acc:p11217]
retinal short-chain dehydrogenase/reductase 3. [refseq;acc:nm_016246] Low confidence 15464.1 17572.7 1.13635
65 neuralized-like. [refseq;acc:nm_004210] High confidence 1657.68 2690.25 1.6229
septin 6. [swissprot;acc:q14141] Low confidence 13005.8 14773.7 1.13593
66 nadh-ubiquinone oxidoreductase subunit b17.2 (ec 1.6.5.3) (ec 1.6.99.3) (complex i-b17.2) (ci-b17.2) (cib17.2) (13 kda differentiation-associated protein). [swissprot;acc:q9ui09] High confidence 1991.03 3221.38 1.61795
son protein (son3) (negative regulatory element-binding protein) (nre- binding protein) (dbp-5) (bax antagonist selected in saccharomyces 1) (bass1) (protein c21orf50). [swissprot;acc:p18583] Low confidence 4900.7 5555.81 1.13368
67 beta-arrestin 2 (arrestin, beta 2). [swissprot;acc:p32121] High confidence 6475.5 10307.5 1.59177
hira-interacting protein 5 (cgi-33). [swissprot;acc:q9ums0] Low confidence 12176.9 13781.8 1.1318
68 beta-arrestin 1 (arrestin, beta 1). [swissprot;acc:p49407] High confidence 6475.5 10307.5 1.59177
putative glialblastoma cell differentiation-related; putative glialblastoma cell differentiation-related protein. [refseq;acc:nm_016172] Low confidence 19498.1 17265.4 1.12932
69 amino acid transporter xat2; likely ortholog of mouse aspartate/glutamate transporter 1 (agt1). [refseq;acc:nm_138817] 6991.78 7848.45 1.12253
spermatogenesis associated 6. [refseq;acc:nm_019073] High confidence 6475.5 10307.5 1.59177
70 amp deaminase 2 (ec 3.5.4.6) (amp deaminase isoform l). [swissprot;acc:q01433]
y+l amino acid transporter 1 (y(+)l-type amino acid transporter 1) (y+lat-1) (y+lat1) (monocyte amino acid permease 2) (mop-2). [swissprot;acc:q9um01] Low confidence 6991.78 7848.45 1.12253
71 cystine/glutamate transporter (amino acid transport system xc-) (xct) (calcium channel blocker resistance protein ccbr1). [swissprot;acc:q9upy5]
serine/threonine protein phosphatase 2a, 55 kda regulatory subunit b, alpha isoform (pp2a, subunit b, b-alpha isoform) (pp2a, subunit b, b55-alpha isoform) (pp2a, subunit b, pr55-alpha isoform) (pp2a, subunit b, r2-alpha isoform). [swissprot;acc:q00007] High confidence 4556.78 2945.26 1.54716
72 solute carrier family 7 (cationic amino acid transporter, y+ system), member 6. [refseq;acc:nm_003983] Low confidence 6991.78 7848.45 1.12253
uncharacterized hematopoietic stem/progenitor cells protein mds026. [sptrembl;acc:q9nz48] High confidence 4556.79 2945.28 1.54715
73 eukaryotic translation initiation factor 4b (eif-4b). [swissprot;acc:p23588] Low confidence 6991.78 7848.45 1.12253
serine/threonine protein phosphatase 2a, 55 kda regulatory subunit b, beta isoform (pp2a, subunit b, b-beta isoform) (pp2a, subunit b, b55- beta isoform) (pp2a, subunit b, pr55-beta isoform) (pp2a, subunit b, r2-beta isoform). [swissprot;acc:q00005] High confidence 4556.83 2945.38 1.54711
74 b(0,+)-type amino acid transporter 1 (b(0,+)at) (glycoprotein- associated amino acid transporter b0,+at1). [swissprot;acc:p82251] Low confidence 6991.78 7848.45 1.12253
serine/threonine protein phosphatase 2a, 55 kda regulatory subunit b, gamma isoform (pp2a, subunit b, b-gamma isoform) (pp2a, subunit b, b55-gamma isoform) (pp2a, subunit b, pr55-gamma isoform) (pp2a, subunit b, r2-gamma isoform) (imypno1). [swissprot;acc:q9y2t4] High confidence 4556.99 2945.8 1.54694
75 nadh-ubiquinone oxidoreductase 18 kda subunit, mitochondrial precursor (ec 1.6.5.3) (ec 1.6.99.3) (complex i-18 kda) (ci-18 kda) (complex i- aqdq) (ci-aqdq). [swissprot;acc:o43181] 1920.75 2907.43 1.5137
septin 7 (cdc10 protein homolog). [swissprot;acc:q16181] Low confidence 11616 12942.3 1.11418

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.
- http://analysis.yellowcouch.org/