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.


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 [...,...].
Gene Rank Value Type red green description Network Comparison Type Interaction Map Filtered network_comparison
Results: HTML CSV LaTeX Showing element 501 to 550 of 25824 in total
Interaction Map  : High confidence
Filtered  : 1
Rank
Value Type
red
green
description
Network Comparison Type
network_comparison
63 Squared 189976 124480 serine/threonine protein phosphatase pp1-alpha 1 catalytic subunit (ec 3.1.3.16) (pp-1a). [swissprot;acc:p08129] Subtracted 65496
219048 129762 melanoma-associated antigen f1 (mage-f1 antigen). [swissprot;acc:q9hay2] Divided 1.68808
Rooted 43.4554 31.7576 kv channel interacting protein 2 isoform 4; a-type potassium channel modulatory protein 2; cardiac voltage gated potassium channel modulatory subunit. [refseq;acc:nm_173193] 1.36835
137.446 120.823 melanoma-associated antigen 10 (mage-10 antigen). [swissprot;acc:p43363] Subtracted 16.623
64 Measured 4489.19 2765.82 glycogen phosphorylase, muscle form (ec 2.4.1.1) (myophosphorylase). [swissprot;acc:p11217] Divided 1.6231
6475.5 10307.5 amp deaminase 2 (ec 3.5.4.6) (amp deaminase isoform l). [swissprot;acc:q01433] Subtracted 3832
Ranked 260.532 204.309 ccaat-binding transcription factor subunit b (cbf-b) (nf-y protein chain a) (nf-ya) (caat-box dna binding protein subunit a). [swissprot;acc:p23511] 56.223
266.868 336.159 guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-11 subunit. [swissprot;acc:p50152] Divided 1.25965
Squared 144940 81169.7 cysteine endopeptidase aut-like 2 isoform a; autophagy-related cysteine endopeptidase 2; autophagin 2. [refseq;acc:nm_052936] Subtracted 63770.3
219048 129762 melanoma antigen, family b, 6. [refseq;acc:nm_173523] Divided 1.68808
Rooted 63.8686 47.2654 1,4-alpha-glucan branching enzyme (ec 2.4.1.18) (glycogen branching enzyme) (brancher enzyme). [swissprot;acc:q04446] 1.35128
137.446 120.823 melanoma-associated antigen b1 (mage-b1 antigen) (mage-xp antigen) (dss-ahc critical interval mage superfamily 10) (dam10). [swissprot;acc:p43366] Subtracted 16.623
65 Measured 1657.68 2690.25 neuralized-like. [refseq;acc:nm_004210] Divided 1.6229
22515.5 18702.6 cleavage stimulation factor subunit 3; cleavage stimulation factor, 3' pre-rna, subunit 3, 77kd. [refseq;acc:nm_001326] Subtracted 3812.9
Ranked 187.457 243.678 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] 56.221
267.136 336.077 guanine nucleotide-binding protein g(q), alpha subunit. [swissprot;acc:p50148] Divided 1.25807
Squared 144912 81155 microtubule-associated proteins 1a/1b light chain 3b (map1a/map1b lc3 b) (map1a/1b light chain 3 b). [swissprot;acc:q9gzq8] Subtracted 63757
219048 129762 melanoma-associated antigen 4 (mage-4 antigen) (mage-x2) (mage-41). [swissprot;acc:p43358] Divided 1.68808
Rooted 63.8686 47.2654 glycogen phosphorylase, brain form (ec 2.4.1.1). [swissprot;acc:p11216] 1.35128
137.446 120.823 melanoma-associated antigen d2 (mage-d2 antigen) (breast cancer associated gene 1 protein) (bcg-1) (11b6) (hepatocellular carcinoma associated protein jcl-1). [swissprot;acc:q9unf1] Subtracted 16.623
66 Measured 1991.03 3221.38 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 1.61795
17757.5 14008 a-raf proto-oncogene serine/threonine-protein kinase (ec 2.7.1.-) (a-raf-1) (proto-oncogene pks). [swissprot;acc:p10398] Subtracted 3749.5
Ranked 187.458 243.678 uncharacterized hematopoietic stem/progenitor cells protein mds026. [sptrembl;acc:q9nz48] 56.22
267.136 336.077 guanine nucleotide-binding protein g(y), alpha subunit (alpha-11). [swissprot;acc:p29992] Divided 1.25807
Squared 144911 81154.7 microtubule-associated proteins 1a/1b light chain 3a (map1a/map1b lc3 a) (map1a/1b light chain 3 a). [swissprot;acc:q9h492] Subtracted 63756.3
219048 129762 melanoma-associated antigen 9 (mage-9 antigen). [swissprot;acc:p43362] Divided 1.68808
Rooted 63.8686 47.2654 glycogen phosphorylase, liver form (ec 2.4.1.1). [swissprot;acc:p06737] 1.35128
137.446 120.823 trophinin. [swissprot;acc:q12816] Subtracted 16.623
67 Measured 6475.5 10307.5 beta-arrestin 2 (arrestin, beta 2). [swissprot;acc:p32121] Divided 1.59177
17756.5 14007.3 raf proto-oncogene serine/threonine-protein kinase (ec 2.7.1.-) (raf-1) (c-raf). [swissprot;acc:p04049] Subtracted 3749.2
Ranked 187.458 243.677 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] 56.219
267.14 336.075 guanine nucleotide-binding protein g(t), alpha-2 subunit (transducin alpha-2 chain). [swissprot;acc:p19087] Divided 1.25805
Squared 144876 81136.5 cysteine endopeptidase aut-like isoform b. [refseq;acc:nm_178326] Subtracted 63739.5
219048 129762 melanoma-associated antigen 8 (mage-8 antigen). [swissprot;acc:p43361] Divided 1.68808
Rooted 63.8686 47.2654 1,4-alpha-glucan branching enzyme (ec 2.4.1.18) (glycogen branching enzyme) (brancher enzyme). [swissprot;acc:q04446] Subtracted 16.6032
myosin xv (unconventional myosin-15). [swissprot;acc:q9ukn7] Divided 1.35128
68 Measured 6475.5 10307.5 beta-arrestin 1 (arrestin, beta 1). [swissprot;acc:p49407] 1.59177
17738.6 13995.7 cyclin g2. [swissprot;acc:q16589] Subtracted 3742.9
Ranked 187.462 243.673 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] 56.211
267.139 336.075 guanine nucleotide-binding protein g(z), alpha subunit (g(x) alpha chain) (gz-alpha). [swissprot;acc:p19086] Divided 1.25805
Squared 139741 78454.6 gaba(a) receptor-associated protein; gaba(a)-receptor-associated protein. [refseq;acc:nm_007278] Subtracted 61286.4
219048 129762 melanoma-associated antigen c1 (mage-c1 antigen) (cancer-testis antigen ct7). [swissprot;acc:o60732] Divided 1.68808
Rooted 63.8686 47.2654 glycogen phosphorylase, brain form (ec 2.4.1.1). [swissprot;acc:p11216] Subtracted 16.6032
glycogen phosphorylase, muscle form (ec 2.4.1.1) (myophosphorylase). [swissprot;acc:p11217] Divided 1.35128
69 Measured 6475.5 10307.5 spermatogenesis associated 6. [refseq;acc:nm_019073] 1.59177
17738.5 13995.6 cyclin g1 (cyclin g). [swissprot;acc:p51959] Subtracted 3742.9
Ranked 267.14 336.075 guanine nucleotide-binding protein g(t), alpha-1 subunit (transducin alpha-1 chain). [swissprot;acc:p11488] Divided 1.25805
284.753 228.934 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] Subtracted 55.819
Squared 178263 118639 pre-mrna cleavage complex ii protein pcf11 (fragment). [swissprot;acc:o94913] 59624
219048 129762 melanoma-associated antigen 12 (mage-12 antigen) (mage12f). [swissprot;acc:p43365] Divided 1.68808

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/