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

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/