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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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 [...,...].
Rank Gene description Value Type Network Comparison Type Filtered network_comparison Interaction Map green red
Results: HTML CSV LaTeX Showing element 501 to 550 of 38536 in total
Network Comparison Type  : Divided
Rank
description
Value Type
Filtered
network_comparison
Interaction Map
green
red
32 importin 9. [refseq;acc:nm_018085] Ranked 0 1.52929 High confidence 8691.76 13292.2
melanoma antigen, family d, 4 isoform 1; mage1 protein; mage-e1 protein; maged4 protein. [refseq;acc:nm_030801] Rooted 1.69589 Low confidence 5.80678 9.84765
melanoma-associated antigen 2 (mage-2 antigen). [swissprot;acc:p43356] Squared 1 1.33073 61881.5 82347.8
melanoma-associated antigen 6 (mage-6 antigen) (mage3b). [swissprot;acc:p43360] Measured 0 2.97183 35.5 105.5
melanoma-associated antigen f1 (mage-f1 antigen). [swissprot;acc:q9hay2] Squared 9.62112 0.355148 3.41692
mitochondrial solute carrier protein. [refseq;acc:nm_145305] Rooted 1 1.1597 168.796 145.551
myoglobin. [swissprot;acc:p02144] Ranked 0 1.39162 15983.3 11485.4
nuclear dna-binding protein; small unique nuclear receptor corepressor; c1d dna-binding protein. [refseq;acc:nm_006333] Measured 1 1.19275 43368.8 36360.3
phenylethanolamine n-methyltransferase (ec 2.1.1.28) (pnmtase) (noradrenaline n-methyltransferase). [swissprot;acc:p11086] Squared 0 16.8159 High confidence 4.57302 76.8994
protein kinase, interferon-inducible double stranded rna dependent activator; protein activator of the interferon-induced protein kinase. [refseq;acc:nm_003690] Ranked 1 1.17505 Low confidence 232.49 273.188
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] 1.29985 High confidence 243.673 187.462
ubiquitin protein ligase. [refseq;acc:nm_130466] Rooted 0 2.13529 11.258 24.0391
33 beta-carotene dioxygenase 2; putative b,b-carotene-9',10'-dioxygenase. [refseq;acc:nm_031938] Squared 16.8159 4.57302 76.8994
dual specificity mitogen-activated protein kinase kinase 4 (ec 2.7.1.-) (map kinase kinase 4) (jnk activating kinase 1) (c-jun n- terminal kinase kinase 1) (jnkk) (sapk/erk kinase 1) (sek1). [swissprot;acc:p45985] Ranked 1 1.17068 Low confidence 246.125 210.241
fatty acid desaturase 1; linoleoyl-coa desaturase (delta-6-desaturase)-like 1; delta-5 desaturase; delta-5 fatty acid desaturase. [refseq;acc:nm_013402] Rooted 0 2.0801 High confidence 25.7294 12.3693
fk506-binding protein 6 (ec 5.2.1.8) (peptidyl-prolyl cis-trans isomerase) (ppiase) (rotamase) (36 kda fk506 binding protein) (fkbp- 36) (immunophilin fkbp36). [swissprot;acc:o75344] Ranked 1.37827 Low confidence 14746.1 20324.1
guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-11 subunit. [swissprot;acc:p50152] Measured 1 2.04611 High confidence 896.972 1835.3
hepatocellular carcinoma-associated protein hca1. [refseq;acc:nm_020932] Squared 1.33073 Low confidence 61881.5 82347.8
lim domain binding 1; carboxy terminal lim domain protein 2; lim domain-binding factor-1. [refseq;acc:nm_003893] Measured 0 3.15402 High confidence 39.8063 12.6208
melanoma-associated antigen 3 (mage-3 antigen) (antigen mz2-d). [swissprot;acc:p43357] Rooted 1.69589 Low confidence 5.80678 9.84765
melanoma-associated antigen 4 (mage-4 antigen) (mage-x2) (mage-41). [swissprot;acc:p43358] Squared 9.62112 0.355148 3.41692
melanoma-associated antigen d1 (mage-d1 antigen) (neurotrophin receptor-interacting mage homolog) (pro2292). [swissprot;acc:q9y5v3] Measured 2.97183 35.5 105.5
nucleosome assembly protein 1-like 4 (nucleosome assembly protein 2) (nap2). [swissprot;acc:q99733] Ranked 1.52929 High confidence 8691.76 13292.2
protein phosphatase 1, regulatory (inhibitor) subunit 14c; serologically defined breast cancer antigen ny-br-81; pkc-potentiated pp1 inhibitory protein. [refseq;acc:nm_030949] Rooted 1 1.65937 43.1914 26.0288
retinoblastoma-associated factor 600. [refseq;acc:nm_020765] 1.15738 Low confidence 88.6244 76.5734
serine/threonine protein phosphatase 2a, 65 kda regulatory subunit a, beta isoform (pp2a, subunit a, pr65-beta isoform) (pp2a, subunit a, r1-beta isoform). [swissprot;acc:p30154] Ranked 1.28647 High confidence 242.742 188.688
spermatogenesis associated 6. [refseq;acc:nm_019073] Squared 2.53372 25146.6 9924.76
vitelliform macular dystrophy 2-like protein 1. [refseq;acc:nm_017682] Measured 1.19275 Low confidence 43368.8 36360.3
34 amp deaminase 2 (ec 3.5.4.6) (amp deaminase isoform l). [swissprot;acc:q01433] Squared 2.53372 High confidence 25146.6 9924.76
fibrillin 3. [refseq;acc:nm_032447] Ranked 0 1.37724 Low confidence 7506.66 5450.5
glucosamine-6-phosphate isomerase (ec 3.5.99.6) (glucosamine-6- phosphate deaminase) (gnpda) (glcn6p deaminase) (oscillin). [swissprot;acc:p46926] Measured 3.04255 High confidence 47 143
guanine nucleotide-binding protein g(y), alpha subunit (alpha-11). [swissprot;acc:p29992] 1 2.02382 907.546 1836.71
Rooted 1.65305 24.3678 40.2812
lim domain binding 1; carboxy terminal lim domain protein 2; lim domain-binding factor-1. [refseq;acc:nm_003893] Squared 0 15.9968 0.697197 0.0435834
melanoma-associated antigen 11 (mage-11 antigen). [swissprot;acc:p43364] Rooted 1.69589 Low confidence 5.80678 9.84765
melanoma-associated antigen 6 (mage-6 antigen) (mage3b). [swissprot;acc:p43360] Squared 1 1.33073 61881.5 82347.8
melanoma-associated antigen 9 (mage-9 antigen). [swissprot;acc:p43362] 0 9.62112 0.355148 3.41692
melanoma-associated antigen f1 (mage-f1 antigen). [swissprot;acc:q9hay2] Measured 2.97183 35.5 105.5
microtubule-associated protein, rp/eb family, member 2; t-cell activation protein, eb1 family; apc-binding protein eb1. [refseq;acc:nm_014268] Ranked 1.52196 High confidence 17173.8 11284
phenylethanolamine n-methyltransferase (ec 2.1.1.28) (pnmtase) (noradrenaline n-methyltransferase). [swissprot;acc:p11086] Rooted 2.02503 11.7898 23.8747
protein cgi-126 (protein hspc155). [swissprot;acc:q9y3c8] Measured 1 1.1897 Low confidence 6352.4 5339.5
putative glialblastoma cell differentiation-related; putative glialblastoma cell differentiation-related protein. [refseq;acc:nm_016172] Ranked 1.16197 133.876 155.56
putative rna-binding protein 7 (rna binding motif protein 7). [swissprot;acc:q9y580] Rooted 1.15698 56.755 49.0544
serine/threonine protein phosphatase 2a, 65 kda regulatory subunit a, alpha isoform (pp2a, subunit a, pr65-alpha isoform) (pp2a, subunit a, r1-alpha isoform) (medium tumor antigen-associated 61 kda protein). [swissprot;acc:p30153] Ranked 1.28235 High confidence 242.453 189.07
35 28s ribosomal protein s17, mitochondrial precursor (mrp-s17) (hspc011). [swissprot;acc:q9y2r5] Squared 1.80879 192141 106226
adp,atp carrier protein, liver isoform t2 (adp/atp translocase 3) (adenine nucleotide translocator 3) (ant 3). [swissprot;acc:p12236] Measured 0 2.99674 1377 459.5
Squared 12.7767 647.816 50.7031
beta-carotene dioxygenase 2; putative b,b-carotene-9',10'-dioxygenase. [refseq;acc:nm_031938] Rooted 2.02503 11.7898 23.8747
deoxyribonuclease ii beta isoform 1 precursor; deoxyribonuclease ii beta; endonuclease dlad. [refseq;acc:nm_021233] Measured 1 1.18866 Low confidence 39358.1 33111.4
guanine nucleotide-binding protein g(q), alpha subunit. [swissprot;acc:p50148] 2.02378 High confidence 907.564 1836.71

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/