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.


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Gene Rank Network Comparison Type description Value Type green Filtered Interaction Map network_comparison red
Results: HTML CSV LaTeX Showing element 101 to 150 of 25824 in total
Filtered  : 1
Interaction Map  : High confidence
Rank
Network Comparison Type
description
Value Type
green
network_comparison
red
13 Subtracted beta-arrestin 1 (arrestin, beta 1). [swissprot;acc:p49407] Rooted 101.526 21.0555 80.4705
guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-12 subunit. [swissprot;acc:q9ubi6] Ranked 336.233 69.377 266.856
melanoma-associated antigen 11 (mage-11 antigen). [swissprot;acc:p43364] Squared 129762 89286 219048
myosin vb (myosin 5b) (fragment). [swissprot;acc:q9ulv0] Measured 27904.5 6313 21591.5
14 Divided cysteine endopeptidase aut-like 2 isoform a; autophagy-related cysteine endopeptidase 2; autophagin 2. [refseq;acc:nm_052936] Ranked 75.3531 1.32952 56.6768
ras gtpase-activating protein ngap (ras protein activator like 1). [swissprot;acc:q9ujf2] Measured 1281.5 3.21581 398.5
Squared 388.696 10.3414 37.5863
Rooted 35.798 1.79326 19.9625
Subtracted guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-4 subunit. [swissprot;acc:p50150] Ranked 336.191 69.328 266.863
melanoma-associated antigen 2 (mage-2 antigen). [swissprot;acc:p43356] Squared 129762 89286 219048
myosin vc (myosin 5c). [swissprot;acc:q9nqx4] Measured 27904.5 6313 21591.5
spermatogenesis associated 6. [refseq;acc:nm_019073] Rooted 101.526 21.0555 80.4705
15 Divided gbp protein isoform a. [refseq;acc:nm_017870] 42.4773 1.77158 23.9771
microtubule-associated proteins 1a/1b light chain 3b (map1a/map1b lc3 b) (map1a/1b light chain 3 b). [swissprot;acc:q9gzq8] Ranked 75.3948 1.32914 56.7244
xpa binding protein 1; mbd2 interactor protein; putative atp(gtp)-binding protein. [refseq;acc:nm_007266] Measured 871 3.06659 2671
Squared 179.56 9.40399 1688.58
Subtracted amp deaminase 2 (ec 3.5.4.6) (amp deaminase isoform l). [swissprot;acc:q01433] Rooted 101.526 21.0555 80.4705
guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-3 subunit. [swissprot;acc:p29798] Ranked 336.19 69.327 266.863
hepatocellular carcinoma-associated protein hca1. [refseq;acc:nm_020932] Squared 129762 89286 219048
myosin va (myosin 5a) (dilute myosin heavy chain, non-muscle) (myosin heavy chain 12) (myoxin). [swissprot;acc:q9y4i1] Measured 27904.5 6313 21591.5
16 Divided microtubule-associated proteins 1a/1b light chain 3a (map1a/map1b lc3 a) (map1a/1b light chain 3 a). [swissprot;acc:q9h492] Ranked 75.3954 1.32913 56.7252
protein x 0004. [refseq;acc:nm_016301] Measured 871 3.06659 2671
Squared 179.56 9.40399 1688.58
xpa binding protein 1; mbd2 interactor protein; putative atp(gtp)-binding protein. [refseq;acc:nm_007266] Rooted 29.5127 1.75117 51.6817
Subtracted cysteine endopeptidase aut-like 2 isoform a; autophagy-related cysteine endopeptidase 2; autophagin 2. [refseq;acc:nm_052936] Measured 18172.1 6088.2 24260.3
guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-8 subunit (gamma-9). [swissprot;acc:q9uk08] Ranked 336.184 69.32 266.864
mannosyl-oligosaccharide 1,2-alpha-mannosidase ib (ec 3.2.1.113) (processing alpha-1,2-mannosidase ib) (alpha-1,2-mannosidase ib) (mannosidase alpha class 1a member 2). [swissprot;acc:o60476] Rooted 182.638 21.035 203.673
melanoma-associated antigen 6 (mage-6 antigen) (mage3b). [swissprot;acc:p43360] Squared 129762 89286 219048
17 Divided cysteine endopeptidase aut-like isoform b. [refseq;acc:nm_178326] Ranked 75.447 1.32866 56.7841
dgcr14 protein (digeorge syndrome critical region 14) (es2 protein). [swissprot;acc:q96df8] Measured 1365 2.96739 460
Squared 441 8.80542 50.0828
protein x 0004. [refseq;acc:nm_016301] Rooted 29.5127 1.75117 51.6817
Subtracted cytohesin 1 (sec7 homolog b2-1). [swissprot;acc:q15438] 182.638 21.035 203.673
guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-5 subunit. [swissprot;acc:p30670] Ranked 336.182 69.318 266.864
microtubule-associated proteins 1a/1b light chain 3b (map1a/map1b lc3 b) (map1a/1b light chain 3 b). [swissprot;acc:q9gzq8] Measured 18168.9 6086.8 24255.7
necdin. [swissprot;acc:q99608] Squared 129762 89286 219048
18 Divided 1,4-alpha-glucan branching enzyme (ec 2.4.1.18) (glycogen branching enzyme) (brancher enzyme). [swissprot;acc:q04446] Ranked 245.247 1.32082 185.678
dgcr14 protein (digeorge syndrome critical region 14) (es2 protein). [swissprot;acc:q96df8] Rooted 36.9459 1.72261 21.4476
protein phosphatase 1, regulatory (inhibitor) subunit 14a; 17-kda pkc-potentiated inhibitory protein of pp1. [refseq;acc:nm_033256] Measured 1865.5 2.75351 677.5
Squared 823.69 7.58176 108.641
Subtracted cytohesin 2 (arf nucleotide-binding site opener) (arno protein) (arf exchange factor). [swissprot;acc:q99418] Rooted 182.638 21.035 203.673
guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-10 subunit. [swissprot;acc:p50151] Ranked 336.181 69.316 266.865
melanoma-associated antigen d1 (mage-d1 antigen) (neurotrophin receptor-interacting mage homolog) (pro2292). [swissprot;acc:q9y5v3] Squared 129762 89286 219048
microtubule-associated proteins 1a/1b light chain 3a (map1a/map1b lc3 a) (map1a/1b light chain 3 a). [swissprot;acc:q9h492] Measured 18168.9 6086.8 24255.7
19 Divided glycogen phosphorylase, brain form (ec 2.4.1.1). [swissprot;acc:p11216] Ranked 245.247 1.32082 185.678
microfibril-associated glycoprotein 4 precursor. [swissprot;acc:p55083] Measured 1865.5 2.75351 677.5
Squared 823.69 7.58176 108.641
protein kinase, interferon-inducible double stranded rna dependent activator; protein activator of the interferon-induced protein kinase. [refseq;acc:nm_003690] Rooted 43.561 1.69507 25.6987
Subtracted cysteine endopeptidase aut-like isoform b. [refseq;acc:nm_178326] Measured 18164.9 6085.1 24250
cytohesin 4. [swissprot;acc:q9uia0] Rooted 182.638 21.035 203.673

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/