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

Table 3: Type II network, divided ranks. This table presents the output of the simulation of a type-II network in which we relied on the high confidence interactions and micro-array results. The output of the micro-array was then ranked and these ranks used as input into the network simulation. After performing two such simulations (one for the MK5 off and one for the MK5 on microarray output), we divided the ranks and sorted the results accordingly. The output of this technique is a collection of proteins that cluster naturally together.


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Rank Gene description Value Type Filtered Network Comparison Type Interaction Map network_comparison green red
Results: HTML CSV LaTeX Showing element 501 to 550 of 16578 in total
Value Type  : Measured
Filtered  : 1
Rank
description
Network Comparison Type
Interaction Map
network_comparison
green
red
126 cysteine endopeptidase aut-like isoform b. [refseq;acc:nm_178326] Divided High confidence 1.33499 18164.9 24250
lag1 longevity assurance homolog 2 isoform 1; l3 pigment; tumor metastasis-suppressor. [refseq;acc:nm_022075] Subtracted Low confidence 786.54 7884.98 7098.44
melanoma-associated antigen 12 (mage-12 antigen) (mage12f). [swissprot;acc:p43365] Divided 1.0937 10318.5 11285.3
rad50-interacting protein 1. [refseq;acc:nm_021930] Subtracted High confidence 1944 2394.5 450.5
127 mawd binding protein (unknown protein 32 from 2d-page of liver tissue). [swissprot;acc:p30039] Low confidence 783.1 10870.9 10087.8
melanoma-associated antigen 1 (mage-1 antigen) (antigen mz2-e). [swissprot;acc:p43355] Divided 1.0937 10318.5 11285.3
rho-related btb domain-containing protein 2 (deleted in breast cancer 2 gene protein) (p83). [swissprot;acc:q9byz6] Subtracted High confidence 1944 2394.5 450.5
transcription factor jun-d. [swissprot;acc:p17535] Divided 1.33436 7523.39 5638.2
128 luc7-like 2; cgi-74 protein; cgi-59 protein. [refseq;acc:nm_016019] 1.3341 5810.82 4355.61
melanoma-associated antigen 10 (mage-10 antigen). [swissprot;acc:p43363] Low confidence 1.0937 10318.5 11285.3
t-complex protein 1, alpha subunit (tcp-1-alpha) (cct-alpha). [swissprot;acc:p17987] Subtracted High confidence 1940 12944.2 11004.2
vacuolar protein sorting 16 (hvps16). [swissprot;acc:q9h269] Low confidence 782.53 8046.29 7263.76
129 luc7-like; sarcoplasmic reticulum protein luc7b1. [refseq;acc:nm_018032] Divided High confidence 1.33348 5811.49 4358.13
melanoma-associated antigen b1 (mage-b1 antigen) (mage-xp antigen) (dss-ahc critical interval mage superfamily 10) (dam10). [swissprot;acc:p43366] Low confidence 1.0937 10318.5 11285.3
prohibitin. [swissprot;acc:p35232] Subtracted 780.5 11422.5 10642
protein phosphatase 1, regulatory (inhibitor) subunit 13b; apoptosis-stimulating protein of p53, 1. [refseq;acc:nm_015316] High confidence 1928 13346.9 15274.9
130 forkhead box p4; fork head-related protein like a; winged-helix repressor foxp4. [refseq;acc:nm_138457] Divided 1.33287 2978.53 2234.68
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] Low confidence 1.0937 10318.5 11285.3
p66 alpha. [refseq;acc:nm_017660] Subtracted High confidence 1927.9 10911.1 12839
protein kinase, interferon-inducible double stranded rna dependent activator; protein activator of the interferon-induced protein kinase. [refseq;acc:nm_003690] Low confidence 774.02 4614.87 3840.85
131 forkhead box protein p1 (hspc215). [swissprot;acc:q9h334] Divided High confidence 1.33285 2978.57 2234.73
transcription factor iiia (factor a) (tfiiia). [swissprot;acc:q92664] Subtracted Low confidence 767.05 8391.85 7624.8
transcription repressor p66 beta component of the mecp1 complex. [refseq;acc:nm_020699] High confidence 1927.9 10911.1 12839
trophinin. [swissprot;acc:q12816] Divided Low confidence 1.0937 10318.5 11285.3
132 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] 1.09318 5441.83 5948.88
forkhead box protein p3 (zinc finger protein jm2) (scurfin). [swissprot;acc:q9bzs1] High confidence 1.33253 2980.35 2236.61
segment polarity protein dishevelled homolog dvl-1 (dishevelled-1) (dsh homolog 1). [swissprot;acc:o14640] Subtracted Low confidence 764.13 7794.8 7030.67
tyrosine aminotransferase (ec 2.6.1.5) (l-tyrosine:2-oxoglutarate aminotransferase) (tat). [swissprot;acc:p17735] High confidence 1927.9 10911.1 12839
133 cell division protein kinase 3 (ec 2.7.1.-). [swissprot;acc:q00526] 1911.7 10887.2 12798.9
gaba(a) receptor-associated protein; gaba(a)-receptor-associated protein. [refseq;acc:nm_007278] Divided 1.33225 17580.4 23421.5
ribosomal protein s6 kinase-like 1. [refseq;acc:nm_031464] Low confidence 1.09265 7662.77 7013
segment polarity protein dishevelled homolog dvl-2 (dishevelled-2) (dsh homolog 2). [swissprot;acc:o14641] Subtracted 762.71 7797.14 7034.43
134 ba127l20.1 (novel glutathione-s-transferase). [sptrembl;acc:q9h4y5] Divided 1.09242 7286.66 6670.21
g2/mitotic-specific cyclin b2. [swissprot;acc:o95067] Subtracted High confidence 1910.8 10886 12796.8
gaba-a receptor-associated protein. [sptrembl;acc:q9by60] Divided 1.32626 16426.1 21785.2
segment polarity protein dishevelled homolog dvl-3 (dishevelled-3) (dsh homolog 3). [swissprot;acc:q92997] Subtracted Low confidence 755.28 7809.38 7054.1
135 alpha-aminoadipate aminotransferase; l-kynurenine/alpha-aminoadipate aminotransferase; kynurenine aminotransferase ii. [refseq;acc:nm_016228] 754.79 10741.3 9986.51
apg3p; pc3-96 protein. [refseq;acc:nm_022488] Divided High confidence 1.32626 16426.1 21785.2
high-mobility group 20a. [refseq;acc:nm_018200] Low confidence 1.09226 7916.96 7248.24
transcription factor jun-b. [swissprot;acc:p17275] Subtracted High confidence 1909.22 7488.4 5579.18
136 cell division protein kinase 2 (ec 2.7.1.-) (p33 protein kinase). [swissprot;acc:p24941] 1907.1 10880.5 12787.6
hypoxanthine-guanine phosphoribosyltransferase (ec 2.4.2.8) (hgprt) (hgprtase). [swissprot;acc:p00492] Low confidence 754.11 10650.5 9896.39
nuclear transcription factor y subunit gamma (nf-y protein chain c) (nuclear factor yc) (nf-yc) (ccaat-binding transcription factor subunit c) (cbf-c) (transactivator hsm-1/2). [swissprot;acc:q13952] Divided High confidence 1.31556 4763.34 3620.77
ribosomal protein s6 kinase, 52kda, polypeptide 1; ribosomal protein s6 kinase, 52kd, polypeptide 1. [refseq;acc:nm_012424] Low confidence 1.09214 7667.34 7020.48
137 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] High confidence 1.31556 4763.34 3620.77
g2/mitotic-specific cyclin b1. [swissprot;acc:p14635] Subtracted 1906.7 10879.9 12786.6
t-box transcription factor tbx19 (t-box protein 19). [swissprot;acc:o60806] Divided Low confidence 1.09121 6699.58 6139.6
vacuolar protein sorting 33a (hvps33a). [swissprot;acc:q96ax1] Subtracted 753.25 8050.82 7297.57
138 glutathione transferase omega 1 (ec 2.5.1.18) (gsto 1-1). [swissprot;acc:p78417] Divided 1.09008 7313.38 6709
kv channel interacting protein 1; vesicle apc-binding protein; a-type potassium channel modulatory protein 1. [refseq;acc:nm_014592] High confidence 1.31555 2094.3 2755.15

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/