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.


Navigation/Query Panel:
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 Filtered Value Type Network Comparison Type green Interaction Map red network_comparison
Results: HTML CSV LaTeX Showing element 451 to 500 of 9634 in total
Value Type  : Measured
Network Comparison Type  : Divided
Rank
description
Filtered
green
Interaction Map
red
network_comparison
113 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] 0 78 Low confidence 107 1.37179
sh3 domain-binding glutamic acid-rich-like protein 2 (fovea-associated sh3 domain binding protein). [swissprot;acc:q9ujc5] 112.25 High confidence 160 1.42539
114 calponin h2, smooth muscle (neutral calponin). [swissprot;acc:q99439] 1049.11 Low confidence 768.061 1.36592
daz associated protein 1 isoform b; deleted in azoospermia associated protein 1. [refseq;acc:nm_018959] 472.945 High confidence 671.769 1.4204
huntingtin interacting protein c. [refseq;acc:nm_012272] 1 5807.72 4300.47 1.35048
melanoma-associated antigen 11 (mage-11 antigen). [swissprot;acc:p43364] 10318.5 Low confidence 11285.3 1.0937
115 28s ribosomal protein s17, mitochondrial precursor (mrp-s17) (hspc011). [swissprot;acc:q9y2r5] 28492 High confidence 21185 1.34491
g protein-coupled receptor kinase grk5 (ec 2.7.1.-) (g-protein-coupled receptor kinase 5). [swissprot;acc:p34947] 0 410 Low confidence 556 1.3561
melanoma-associated antigen 2 (mage-2 antigen). [swissprot;acc:p43356] 1 10318.5 11285.3 1.0937
zinc finger protein-like 1; zinc-finger protein in men1 region. [refseq;acc:nm_006782] 0 543 High confidence 385 1.41039
116 alpha-parvin (calponin-like integrin-linked kinase binding protein) (ch-ilkbp). [swissprot;acc:q9nvd7] 475 668 1.40632
g protein-coupled receptor kinase grk6 (ec 2.7.1.-) (g-protein-coupled receptor kinase 6). [swissprot;acc:p43250] 410 Low confidence 556 1.3561
hepatocellular carcinoma-associated protein hca1. [refseq;acc:nm_020932] 1 10318.5 11285.3 1.0937
pantothenate kinase 1 (ec 2.7.1.33) (pantothenic acid kinase 1) (hpank1) (hpank). [swissprot;acc:q8te04] 28492 High confidence 21185 1.34491
117 helicase/primase complex protein. [refseq;acc:nm_138336] 0 210 Low confidence 284 1.35238
melanoma-associated antigen 6 (mage-6 antigen) (mage3b). [swissprot;acc:p43360] 1 10318.5 11285.3 1.0937
pantothenate kinase 2, mitochondrial precursor (ec 2.7.1.33) (pantothenic acid kinase 2) (hpank2). [swissprot;acc:q9bz23] 28492 High confidence 21185 1.34491
ubiquitin activating enzyme e1-like protein. [refseq;acc:nm_006395] 0 122 170.5 1.39754
118 methyltransferase like 2. [refseq;acc:nm_018396] 43 31 1.3871
necdin. [swissprot;acc:q99608] 1 10318.5 Low confidence 11285.3 1.0937
pantothenate kinase 3 (ec 2.7.1.33) (pantothenic acid kinase 3) (hpank3). [swissprot;acc:q9h999] 28492 High confidence 21185 1.34491
transcription elongation factor a protein 1 (transcription elongation factor s-ii protein 1) (transcription elongation factor tfiis.o). [swissprot;acc:p23193] 0 113 Low confidence 83.6667 1.3506
119 estrogen-related receptor gamma (estrogen receptor related protein 3) (err gamma-2). [swissprot;acc:o75454] 460.2 High confidence 633.85 1.37734
melanoma-associated antigen d1 (mage-d1 antigen) (neurotrophin receptor-interacting mage homolog) (pro2292). [swissprot;acc:q9y5v3] 1 10318.5 Low confidence 11285.3 1.0937
mitochondrial 28s ribosomal protein s22 (s22mt) (mrp-s22) (gk002). [swissprot;acc:p82650] 0 60.8613 81.504 1.33918
mitochondrial solute carrier protein. [refseq;acc:nm_145305] 1 28492 High confidence 21185 1.34491
120 high-mobility group 20b; sox-like transcriptional factor; swi/snf-related matrix-associated actin-dependent regulator of chromatin subfamily e, member 1-related. [refseq;acc:nm_006339] 6895.98 5136.78 1.34247
melanoma-associated antigen f1 (mage-f1 antigen). [swissprot;acc:q9hay2] 10318.5 Low confidence 11285.3 1.0937
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] 0 241.74 180.7 1.3378
signal-induced proliferation-associated 1-like 1. [refseq;acc:nm_015556] 359.631 High confidence 494.417 1.37479
121 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] 14.3333 19.6667 1.3721
melanoma antigen, family b, 6. [refseq;acc:nm_173523] 1 10318.5 Low confidence 11285.3 1.0937
sorcin (22 kda protein) (cp-22) (v19). [swissprot;acc:p30626] 0 3953.32 2961.07 1.3351
transcription factor jun-b. [swissprot;acc:p17275] 1 7488.4 High confidence 5579.18 1.3422
122 high-mobility group 20a. [refseq;acc:nm_018200] 6893.53 5140.14 1.34112
melanoma-associated antigen 4 (mage-4 antigen) (mage-x2) (mage-41). [swissprot;acc:p43358] 10318.5 Low confidence 11285.3 1.0937
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] 0 78 High confidence 107 1.37179
ubiquitin activating enzyme e1-like protein. [refseq;acc:nm_006395] 3169.35 Low confidence 2376 1.3339
123 cysteine endopeptidase aut-like 2 isoform a; autophagy-related cysteine endopeptidase 2; autophagin 2. [refseq;acc:nm_052936] 1 18172.1 High confidence 24260.3 1.33503
maspin precursor (protease inhibitor 5). [swissprot;acc:p36952] 0 56 Low confidence 42 1.33333
melanoma-associated antigen 9 (mage-9 antigen). [swissprot;acc:p43362] 1 10318.5 11285.3 1.0937
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] 0 1681.3 High confidence 2285.62 1.35944
124 melanoma-associated antigen 8 (mage-8 antigen). [swissprot;acc:p43361] 1 10318.5 Low confidence 11285.3 1.0937
microtubule-associated proteins 1a/1b light chain 3b (map1a/map1b lc3 b) (map1a/1b light chain 3 b). [swissprot;acc:q9gzq8] 18168.9 High confidence 24255.7 1.33501
regulator of chromosome condensation (cell cycle regulatory protein). [swissprot;acc:p18754] 0 2399.76 3248.95 1.35386
serpin b11. [swissprot;acc:q96p15] 56 Low confidence 42 1.33333
125 cytoplasmic antiproteinase 2 (cap2) (cap-2) (protease inhibitor 8) (serpin b8). [swissprot;acc:p50452]
melanoma-associated antigen c1 (mage-c1 antigen) (cancer-testis antigen ct7). [swissprot;acc:o60732] 1 10318.5 11285.3 1.0937
microtubule-associated proteins 1a/1b light chain 3a (map1a/map1b lc3 a) (map1a/1b light chain 3 a). [swissprot;acc:q9h492] 18168.9 High confidence 24255.7 1.33501
probable calcium-transporting atpase kiaa0703 (ec 3.6.3.8). [swissprot;acc:o75185] 0 812.166 1095.42 1.34876

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/