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

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/