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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Gene Filtered Value Type Rank green description Interaction Map Network Comparison Type network_comparison red
Results: HTML CSV LaTeX Showing element 451 to 500 of 77072 in total
Filtered  : 0
Value Type  : Measured
Rank
green
description
Interaction Map
Network Comparison Type
network_comparison
red
113 1969.15 zinc finger protein 264. [swissprot;acc:o43296] Low confidence Subtracted 382.97 2352.12
2833.94 transcription factor cp2; transcription factor cp2, alpha globin. [refseq;acc:nm_005653] High confidence 283.23 3117.17
114 26.1599 60s ribosomal protein l37a. [swissprot;acc:p12751] 279.29 305.45
472.945 daz associated protein 1 isoform b; deleted in azoospermia associated protein 1. [refseq;acc:nm_018959] Divided 1.4204 671.769
1049.11 calponin h2, smooth muscle (neutral calponin). [swissprot;acc:q99439] Low confidence 1.36592 768.061
1969.11 f23269_2. [sptrembl;acc:o75290] Subtracted 382.96 2352.07
115 26.1599 25-hydroxyvitamin d-1 alpha hydroxylase, mitochondrial precursor (ec 1.14.-.-) (25-ohd-1 alpha-hydroxylase) (25-hydroxyvitamin d3 1- alpha-hydroxylase) (vd3 1a hydroxylase) (p450c1 alpha) (p450vd1- alpha). [swissprot;acc:o15528] High confidence 279.29 305.45
410 g protein-coupled receptor kinase grk5 (ec 2.7.1.-) (g-protein-coupled receptor kinase 5). [swissprot;acc:p34947] Low confidence Divided 1.3561 556
543 zinc finger protein-like 1; zinc-finger protein in men1 region. [refseq;acc:nm_006782] High confidence 1.41039 385
1969.05 zinc finger protein 304. [swissprot;acc:q9hcx3] Low confidence Subtracted 382.96 2352.01
116 410 g protein-coupled receptor kinase grk6 (ec 2.7.1.-) (g-protein-coupled receptor kinase 6). [swissprot;acc:p43250] Divided 1.3561 556
475 alpha-parvin (calponin-like integrin-linked kinase binding protein) (ch-ilkbp). [swissprot;acc:q9nvd7] High confidence 1.40632 668
1107 cylindromatosis (turban tumor syndrome); cylindromatosis 1, turban tumor syndrome. [refseq;acc:nm_015247] Subtracted 275.5 1382.5
1969.11 dj153g14.3 (novel c2h2 type zinc finger protein) (fragment). [sptrembl;acc:q9ujn7] Low confidence 382.96 2352.07
117 122 ubiquitin activating enzyme e1-like protein. [refseq;acc:nm_006395] High confidence Divided 1.39754 170.5
210 helicase/primase complex protein. [refseq;acc:nm_138336] Low confidence 1.35238 284
891.114 ccr4-not transcription complex, subunit 7 (ccr4-associated factor 1) (caf1) (btg1 binding factor 1). [swissprot;acc:q9uiv1] High confidence Subtracted 270.766 1161.88
1968.91 similar to zinc finger protein 91 (hpf7, htf10) (fragment). [sptrembl;acc:q86w65] Low confidence 382.95 2351.86
118 43 methyltransferase like 2. [refseq;acc:nm_018396] High confidence Divided 1.3871 31
113 transcription elongation factor a protein 1 (transcription elongation factor s-ii protein 1) (transcription elongation factor tfiis.o). [swissprot;acc:p23193] Low confidence 1.3506 83.6667
593.094 glutathione s-transferase theta 2 (ec 2.5.1.18) (gst class-theta). [swissprot;acc:p30712] High confidence Subtracted 268.652 324.442
1969.01 zinc finger protein 286. [swissprot;acc:q9hbt8] Low confidence 382.95 2351.96
119 60.8613 mitochondrial 28s ribosomal protein s22 (s22mt) (mrp-s22) (gk002). [swissprot;acc:p82650] Divided 1.33918 81.504
352.75 ubiquitin protein ligase. [refseq;acc:nm_130466] High confidence Subtracted 267.25 620
460.2 estrogen-related receptor gamma (estrogen receptor related protein 3) (err gamma-2). [swissprot;acc:o75454] Divided 1.37734 633.85
1969.01 zinc finger protein 7 (zinc finger protein kox4) (zinc finger protein hf.16). [swissprot;acc:p17097] Low confidence Subtracted 382.95 2351.96
120 241.74 proactivator polypeptide precursor [contains: saposin a (protein a); saposin b (sphingolipid activator protein 1) (sap-1) (cerebroside sulfate activator) (csact) (dispersin) (sulfatide/gm1 activator); saposin c (co-beta-glucosidase) (a1 activator) (glucosylceramidase activator) (sphingolipid activator protein 2) (sap-2); saposin d (protein c) (component c)]. [swissprot;acc:p07602] Divided 1.3378 180.7
359.631 signal-induced proliferation-associated 1-like 1. [refseq;acc:nm_015556] High confidence 1.37479 494.417
551.434 transducin beta-like 2 protein (ws beta-transducin repeats protein) (ws-betatrp) (williams-beuren syndrome chromosome region 13 protein). [swissprot;acc:q9y4p3] Subtracted 266.376 817.81
1968.91 zinc finger protein 300. [swissprot;acc:q96re9] Low confidence 382.95 2351.86
121 14.3333 4-aminobutyrate aminotransferase, mitochondrial precursor (ec 2.6.1.19) (gamma-amino-n-butyrate transaminase) (gaba transaminase) (gaba aminotransferase) (gaba-at) (gaba-t). [swissprot;acc:p80404] High confidence Divided 1.3721 19.6667
1139 presenilin-like protein 1 (ec 3.4.99.-) (sppl2b protein). [swissprot;acc:q8tct7] Subtracted 265 874
1968.91 zinc finger protein zfp31 (fragment). [sptrembl;acc:q92971] Low confidence 382.95 2351.86
3953.32 sorcin (22 kda protein) (cp-22) (v19). [swissprot;acc:p30626] Divided 1.3351 2961.07
122 78 sh2-b homolog; likely ortholog of mouse sh2 domain-containing putative adapter sh2-b; sh2-b gamma signaling protein; sh2-b alpha signaling protein. [refseq;acc:nm_015503] High confidence 1.37179 107
1933.94 casein kinase i alpha s-like. [refseq;acc:nm_145203] Subtracted 264.53 2198.47
1968.97 zinc finger protein 83 (zinc finger protein hpf1). [swissprot;acc:p51522] Low confidence 382.95 2351.92
3169.35 ubiquitin activating enzyme e1-like protein. [refseq;acc:nm_006395] Divided 1.3339 2376
123 56 maspin precursor (protease inhibitor 5). [swissprot;acc:p36952] 1.33333 42
1643 putative nucleoside diphosphate kinase (ec 2.7.4.6) (ndk) (ndp kinase). [swissprot;acc:o60361] High confidence Subtracted 262.84 1905.84
1681.3 ret finger protein 2 (leukemia associated protein 5) (b-cell chronic lymphocytic leukemia tumor suppressor leu5) (putative tumor suppressor rfp2) (tripartite motif protein 13). [swissprot;acc:o60858] Divided 1.35944 2285.62
1968.77 zinc finger protein 226. [swissprot;acc:q9nyt6] Low confidence Subtracted 382.94 2351.71
124 56 serpin b11. [swissprot;acc:q96p15] Divided 1.33333 42
1968.83 zinc finger protein 234 (zinc finger protein hzf4) (fragment). [swissprot;acc:q14588] Subtracted 382.94 2351.77
2399.76 regulator of chromosome condensation (cell cycle regulatory protein). [swissprot;acc:p18754] High confidence Divided 1.35386 3248.95
2418.14 brain protein 16. [refseq;acc:nm_016458] Subtracted 262.39 2155.75
125 56 cytoplasmic antiproteinase 2 (cap2) (cap-2) (protease inhibitor 8) (serpin b8). [swissprot;acc:p50452] Low confidence Divided 1.33333 42
812.166 probable calcium-transporting atpase kiaa0703 (ec 3.6.3.8). [swissprot;acc:o75185] High confidence 1.34876 1095.42
1968.87 zinc finger protein 41. [swissprot;acc:p51814] Low confidence Subtracted 382.94 2351.81
3952.59 glutamate dehydrogenase 2, mitochondrial precursor (ec 1.4.1.3) (gdh). [swissprot;acc:p49448] High confidence 261.44 3691.15

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/