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.


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 Filtered Rank green network_comparison Interaction Map description Value Type red Network Comparison Type
Results: HTML CSV LaTeX Showing element 501 to 550 of 38536 in total
Filtered  : 0
Network Comparison Type  : Divided
Rank
green
network_comparison
Interaction Map
description
Value Type
red
63 75.6508 2.03842 Low confidence laminin beta-1 chain precursor (laminin b1 chain). [swissprot;acc:p07942] Measured 154.208
173.307 3.92038 synbindin (trs23 homolog) (hematopoietic stem/progenitor cell protein 172) (hspc172) (ptd009) (cgi-104). [swissprot;acc:q9y296] Squared 44.2067
11453 1.34428 High confidence oligosaccharyl transferase stt3 subunit homolog (b5) (integral membrane protein 1) (tmc). [swissprot;acc:p46977] Ranked 8519.83
15783.5 1.27551 Low confidence 60s ribosomal protein l37a. [swissprot;acc:p12751] 12374.3
64 15.2519 3.33542 High confidence tyrosinase-related gene segment, exon 5 (fragment). [sptrembl;acc:q15677] Squared 50.8715
18 1800000 phosphatidylinositol-4-phosphate 3-kinase c2 domain-containing beta polypeptide (ec 2.7.1.154) (phosphoinositide 3-kinase-c2-beta) (ptdins-3-kinase c2 beta) (pi3k-c2beta) (c2-pi3k). [swissprot;acc:o00750] Measured 0.00001
22.5496 1.43422 muscle-specific beta 1 integrin binding protein. [refseq;acc:nm_014446] Rooted 15.7225
23.6984 2.03615 Low confidence dna helicase homolog (fragment). [sptrembl;acc:q9y645] Measured 48.2534
66 1.44645 anchor attachment protein 1; glycophosphatidylinositol anchor attachment 1; anchor attachment protein 1 (gaa1p, yeast) homolog. [refseq;acc:nm_003801] Rooted 45.6289
173.244 3.88974 sedlin. [swissprot;acc:o14582] Squared 44.5387
11356 1.2736 selenide,water dikinase 2 (ec 2.7.9.3) (selenophosphate synthetase 2) (selenium donor protein 2). [swissprot;acc:q99611] Ranked 14463
20387 1.33563 High confidence similar to lysozyme c-1 (1,4-beta-n-acylmuramidase c, ec 3.2.1.17). [refseq;acc:nm_032517] 15264
65 0.00001 1800000 rna helicase-related protein; rna helicase-like protein; sf3b125 dead-box protein. [refseq;acc:nm_007372] Measured 18
10.4958 1.43105 Low confidence transcription elongation factor a protein 1 (transcription elongation factor s-ii protein 1) (transcription elongation factor tfiis.o). [swissprot;acc:p23193] Rooted 7.33436
15.1833 3.33538 High confidence 5,6-dihydroxyindole-2-carboxylic acid oxidase precursor (ec 1.14.18.-) (dhica oxidase) (tyrosinase-related protein 1) (trp-1) (trp1) (trp) (catalase b) (glycoprotein-75) (melanoma antigen gp75). [swissprot;acc:p17643] Squared 50.642
29.2291 1.42072 60s ribosomal protein l21. [swissprot;acc:p46778] Rooted 20.5734
47.3595 3.55848 Low confidence l-lactate dehydrogenase a chain (ec 1.1.1.27) (ldh-a) (ldh muscle subunit) (ldh-m). [swissprot;acc:p00338] Squared 13.3089
923.065 1.98228 bet5 homolog (multiple myeloma protein 2) (mum-2). [swissprot;acc:q9y5r8] Measured 465.658
10406.3 1.32502 High confidence e1a binding protein p400; p400 swi2/snf2-related protein; cagh32 protein; trinucleotide repeat containing 12. [refseq;acc:nm_015409] Ranked 7853.67
12943.5 1.27245 Low confidence alpha-parvin (calponin-like integrin-linked kinase binding protein) (ch-ilkbp). [swissprot;acc:q9nvd7] 10172.1
66 21.9983 1.40854 High confidence oligosaccharyl transferase stt3 subunit homolog (b5) (integral membrane protein 1) (tmc). [swissprot;acc:p46977] Rooted 30.9855
26.828 1.4185 Low confidence elongation of very long chain fatty acids protein 2. [swissprot;acc:q9nxb9] 18.9129
127.516 3.47056 nadh-ubiquinone oxidoreductase mlrq subunit (ec 1.6.5.3) (ec 1.6.99.3) (complex i-mlrq) (ci-mlrq). [swissprot;acc:o00483] Squared 36.7422
142.981 1.89874 tyrosinase-related gene segment, exon 5 (fragment). [sptrembl;acc:q15677] Measured 271.484
385.626 1.78524 High confidence soluble liver antigen/liver pancreas antigen. [refseq;acc:nm_153825] 688.436
558.241 3.2204 dj820b18.1 (similar to nuclear cap binding protein) (fragment). [sptrembl;acc:q8wwk2] Squared 1797.76
10030.4 1.26584 Low confidence kinesin-like protein kif13b (kinesin-like protein gakin). [swissprot;acc:q9nqt8] Ranked 7923.89
15180 1.32449 High confidence heparan sulfate 6-o-sulfotransferase 2. [refseq;acc:nm_147174] 11461
67 12.9538 1.41698 Low confidence alpha 2 globin. [refseq;acc:nm_000517] Rooted 18.3553
15.2519 3.33542 tyrosinase-related gene segment, exon 5 (fragment). [sptrembl;acc:q15677] Squared 50.8715
15.3166 1.39177 High confidence isoleucyl-trna synthetase, cytoplasmic (ec 6.1.1.5) (isoleucine--trna ligase) (ilers) (irs). [swissprot;acc:p41252] Rooted 11.0051
142.417 1.89769 Low confidence 5,6-dihydroxyindole-2-carboxylic acid oxidase precursor (ec 1.14.18.-) (dhica oxidase) (tyrosinase-related protein 1) (trp-1) (trp1) (trp) (catalase b) (glycoprotein-75) (melanoma antigen gp75). [swissprot;acc:p17643] Measured 270.264
190.865 3.1865 High confidence filamin a (alpha-filamin) (filamin 1) (endothelial actin-binding protein) (abp-280) (nonmuscle filamin). [swissprot;acc:p21333] Squared 608.191
898 1.78508 Measured 1603
14291.5 1.32408 presenilin enhancer 2; hematopoietic stem/progenitor cells protein mds033. [refseq;acc:nm_172341] Ranked 10793.5
14697.6 1.26309 Low confidence dynamin-like 120 kda protein, mitochondrial precursor (optic atrophy 1 gene protein). [swissprot;acc:o60313] 11636.2
68 0.00001 3136000 High confidence mitochondrial 28s ribosomal protein s32 (s32mt) (mrp-s32) (ptd007) (hspc204). [swissprot;acc:q9y6g3] Squared 31.36
8.63381 1.38766 alpha crystallin a chain. [swissprot;acc:p02489] Rooted 6.22183
12.9627 1.41651 Low confidence hemoglobin gamma-a and gamma-g chains. [swissprot;acc:p02096] 18.3618
15.1833 3.33538 5,6-dihydroxyindole-2-carboxylic acid oxidase precursor (ec 1.14.18.-) (dhica oxidase) (tyrosinase-related protein 1) (trp-1) (trp1) (trp) (catalase b) (glycoprotein-75) (melanoma antigen gp75). [swissprot;acc:p17643] Squared 50.642
351.772 1.76802 High confidence protein regulator of cytokinesis 1; protein regulating cytokinesis 1. [refseq;acc:nm_003981] Measured 198.964
734 1.86294 Low confidence nadh-ubiquinone oxidoreductase mlrq subunit (ec 1.6.5.3) (ec 1.6.99.3) (complex i-mlrq) (ci-mlrq). [swissprot;acc:o00483] 394
9824.6 1.25899 repressor of estrogen receptor activity; b-cell associated protein. [refseq;acc:nm_007273] Ranked 7803.58
11823.3 1.32362 High confidence purine nucleoside phosphorylase (ec 2.4.2.1) (inosine phosphorylase) (pnp). [swissprot;acc:p00491] 8932.56
69 12.9659 1.41635 Low confidence myoglobin. [swissprot;acc:p02144] Rooted 18.3642
13.5207 1.38596 High confidence cartilage oligomeric matrix protein precursor (comp). [swissprot;acc:p49747] 18.7392
50.7408 3.12432 protein regulator of cytokinesis 1; protein regulating cytokinesis 1. [refseq;acc:nm_003981] Squared 16.2406
70.5 1.82979 Low confidence tubulointerstitial nephritis antigen. [refseq;acc:nm_014464] Measured 129
253.857 3.26573 tolloid-like 1. [refseq;acc:nm_012464] Squared 77.7335
2804 1.7602 High confidence dj570f3.6 (novel protein similar to lysophospholipase ii (lypla2)). [sptrembl;acc:q9uge0] Measured 1593

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/