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 green red network_comparison
Results: HTML CSV LaTeX Showing element 101 to 150 of 6456 in total
Value Type  : Measured
Interaction Map  : High confidence
Filtered  : 1
Rank
description
Network Comparison Type
green
red
network_comparison
51 fip1-like 1; rearranged in hypereosinophilia. [refseq;acc:nm_030917] Subtracted 19479.8 23640.2 4160.4
neurogenic differentiation factor 4 (neurod4). [swissprot;acc:q9hd90] Divided 1390.33 779.167 1.78438
52 chromodomain helicase dna binding protein 5. [refseq;acc:nm_015557]
cleavage and polyadenylation specificity factor, 73 kda subunit (cpsf 73 kda subunit). [swissprot;acc:q9ukf6] Subtracted 19380.3 23422.4 4042.1
53 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] Divided 1390.33 779.167 1.78438
poly(a) polymerase alpha (ec 2.7.7.19) (pap) (polynucleotide adenylyltransferase alpha) (fragment). [swissprot;acc:p51003] Subtracted 19296.4 23326.5 4030.1
54 deltex 2. [refseq;acc:nm_020892] Divided 2651.88 1618.84 1.63814
exocyst complex component sec5. [swissprot;acc:q96kp1] Subtracted 19288.8 23316 4027.2
55 deltex homolog 1; hdx-1. [refseq;acc:nm_004416] Divided 2662.12 1629.21 1.63399
poly(a) polymerase gamma (ec 2.7.7.19) (pap gamma) (polynucleotide adenylyltransferase gamma) (srp rna 3' adenylating enzyme). [swissprot;acc:q9bwt3] Subtracted 19279.5 23303.1 4023.6
56 ras-related gtp binding a; ras-related gtp-binding protein. [refseq;acc:nm_006570] 24908.5 20911 3997.5
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] Divided 2664.55 1631.67 1.63302
57 kh domain containing, rna binding, signal transduction associated 3; sam68-like phosphotyrosine protein, t-star. [refseq;acc:nm_006558]
ras-related gtp binding c; rag c protein. [refseq;acc:nm_022157] Subtracted 24908.5 20911 3997.5
58 kh domain containing, rna binding, signal transduction associated 1; gap-associated tyrosine phosphoprotein p62 (sam68). [refseq;acc:nm_006559] Divided 2664.55 1631.67 1.63302
ras-related gtp binding b short isoform; gtp-binding protein ragb. [refseq;acc:nm_006064] Subtracted 24908.5 20911 3997.5
59 anillin, actin binding protein (scraps homolog, drosophila); anillin (drosophila scraps homolog), actin binding protein. [refseq;acc:nm_018685]
kh domain-containing, rna-binding, signal transduction-associated protein 2; sam68-like mammalian protein 1. [refseq;acc:nm_152688] Divided 2664.55 1631.67 1.63302
60 1,4-alpha-glucan branching enzyme (ec 2.4.1.18) (glycogen branching enzyme) (brancher enzyme). [swissprot;acc:q04446] 2765.82 4489.19 1.6231
ubiquitin activating enzyme e1-like protein. [refseq;acc:nm_006395] Subtracted 12889.1 16771.5 3882.4
61 beta-arrestin 2 (arrestin, beta 2). [swissprot;acc:p32121] 10307.5 6475.5 3832
glycogen phosphorylase, brain form (ec 2.4.1.1). [swissprot;acc:p11216] Divided 2765.82 4489.19 1.6231
62 beta-arrestin 1 (arrestin, beta 1). [swissprot;acc:p49407] Subtracted 10307.5 6475.5 3832
glycogen phosphorylase, liver form (ec 2.4.1.1). [swissprot;acc:p06737] Divided 2765.82 4489.19 1.6231
63 myosin xv (unconventional myosin-15). [swissprot;acc:q9ukn7]
spermatogenesis associated 6. [refseq;acc:nm_019073] Subtracted 10307.5 6475.5 3832
64 amp deaminase 2 (ec 3.5.4.6) (amp deaminase isoform l). [swissprot;acc:q01433]
glycogen phosphorylase, muscle form (ec 2.4.1.1) (myophosphorylase). [swissprot;acc:p11217] Divided 2765.82 4489.19 1.6231
65 cleavage stimulation factor subunit 3; cleavage stimulation factor, 3' pre-rna, subunit 3, 77kd. [refseq;acc:nm_001326] Subtracted 18702.6 22515.5 3812.9
neuralized-like. [refseq;acc:nm_004210] Divided 2690.25 1657.68 1.6229
66 a-raf proto-oncogene serine/threonine-protein kinase (ec 2.7.1.-) (a-raf-1) (proto-oncogene pks). [swissprot;acc:p10398] Subtracted 14008 17757.5 3749.5
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] Divided 3221.38 1991.03 1.61795
67 beta-arrestin 2 (arrestin, beta 2). [swissprot;acc:p32121] 10307.5 6475.5 1.59177
raf proto-oncogene serine/threonine-protein kinase (ec 2.7.1.-) (raf-1) (c-raf). [swissprot;acc:p04049] Subtracted 14007.3 17756.5 3749.2
68 beta-arrestin 1 (arrestin, beta 1). [swissprot;acc:p49407] Divided 10307.5 6475.5 1.59177
cyclin g2. [swissprot;acc:q16589] Subtracted 13995.7 17738.6 3742.9
69 cyclin g1 (cyclin g). [swissprot;acc:p51959] 13995.6 17738.5
spermatogenesis associated 6. [refseq;acc:nm_019073] Divided 10307.5 6475.5 1.59177
70 amp deaminase 2 (ec 3.5.4.6) (amp deaminase isoform l). [swissprot;acc:q01433]
serine/threonine protein phosphatase 2a, 56 kda regulatory subunit, epsilon isoform (pp2a, b subunit, b' epsilon isoform) (pp2a, b subunit, b56 epsilon isoform) (pp2a, b subunit, pr61 epsilon isoform) (pp2a, b subunit, r5 epsilon isoform). [swissprot;acc:q16537] Subtracted 13995.7 17738.5 3742.8
71 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] Divided 2945.26 4556.78 1.54716
serine/threonine protein phosphatase 2a, 56 kda regulatory subunit, alpha isoform (pp2a, b subunit, b' alpha isoform) (pp2a, b subunit, b56 alpha isoform) (pp2a, b subunit, pr61 alpha isoform) (pp2a, b subunit, r5 alpha isoform). [swissprot;acc:q15172] Subtracted 13995.7 17738.5 3742.8
72 b-raf proto-oncogene serine/threonine-protein kinase (ec 2.7.1.-) (p94) (v-raf murine sarcoma viral oncogene homolog b1). [swissprot;acc:p15056] 13977.7 17710.9 3733.2
uncharacterized hematopoietic stem/progenitor cells protein mds026. [sptrembl;acc:q9nz48] Divided 2945.28 4556.79 1.54715
73 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] 2945.38 4556.83 1.54711
serine/threonine protein phosphatase pp1-gamma catalytic subunit (ec 3.1.3.16) (pp-1g). [swissprot;acc:p36873] Subtracted 18560.4 22268.8 3708.4
74 homeobox protein hox-c4 (hox-3e) (cp19). [swissprot;acc:p09017] 24136.4 20446.1 3690.3
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] Divided 2945.8 4556.99 1.54694
75 homeobox protein hox-b4 (hox-2f) (hox-2.6). [swissprot;acc:p17483] Subtracted 24136.4 20446.1 3690.3
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] Divided 2907.43 1920.75 1.5137

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/