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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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 Network Comparison Type Rank description Value Type Interaction Map Filtered green network_comparison red
Results: HTML CSV LaTeX Showing element 51 to 100 of 25824 in total
Network Comparison Type  : Divided
Interaction Map  : High confidence
Filtered  : 1
Rank
description
Value Type
green
network_comparison
red
13 cytoplasmic polyadenylation element binding protein 3. [refseq;acc:nm_014912] Rooted 35.798 1.79326 19.9625
protein cgi-126 (protein hspc155). [swissprot;acc:q9y3c8] Ranked 212.554 1.3585 288.754
14 cysteine endopeptidase aut-like 2 isoform a; autophagy-related cysteine endopeptidase 2; autophagin 2. [refseq;acc:nm_052936] 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
15 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
16 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
17 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
18 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
19 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
20 glycogen phosphorylase, liver form (ec 2.4.1.1). [swissprot;acc:p06737] Ranked 245.247 1.32082 185.678
guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-7 subunit. [swissprot;acc:o60262] Rooted 24.2744 1.66157 40.3337
protein phosphatase 1, regulatory subunit 14d; pkc-dependent pp1 inhibitory protein. [refseq;acc:nm_017726] Measured 1865.5 2.75351 677.5
Squared 823.69 7.58176 108.641
21 ficolin 2 precursor (collagen/fibrinogen domain-containing protein 2) (ficolin-b) (ficolin b) (serum lectin p35) (ebp-37) (hucolin) (l- ficolin). [swissprot;acc:q15485] Measured 1865.5 2.75351 677.5
Squared 823.69 7.58176 108.641
guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-12 subunit. [swissprot;acc:q9ubi6] Rooted 24.2744 1.66157 40.3337
myosin xv (unconventional myosin-15). [swissprot;acc:q9ukn7] Ranked 245.247 1.32082 185.678
22 glycogen phosphorylase, muscle form (ec 2.4.1.1) (myophosphorylase). [swissprot;acc:p11217]
guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-4 subunit. [swissprot;acc:p50150] Rooted 24.2915 1.66049 40.3357
protein phosphatase 1, regulatory (inhibitor) subunit 14c; serologically defined breast cancer antigen ny-br-81; pkc-potentiated pp1 inhibitory protein. [refseq;acc:nm_030949] Measured 1865.5 2.75351 677.5
Squared 823.69 7.58176 108.641
23 28s ribosomal protein s17, mitochondrial precursor (mrp-s17) (hspc011). [swissprot;acc:q9y2r5] Ranked 44 1.31818 58
gbp protein isoform a. [refseq;acc:nm_017870] Measured 1894.39 2.7072 699.76
guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-3 subunit. [swissprot;acc:p29798] Rooted 24.2919 1.66046 40.3358
neurogenic differentiation factor 2 (neurod2). [swissprot;acc:q15784] Squared 457.521 3.18404 143.692
24 chromodomain helicase-dna-binding protein 3 (chd-3) (mi-2 autoantigen 240 kda protein) (mi2-alpha). [swissprot;acc:q12873]
guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-8 subunit (gamma-9). [swissprot;acc:q9uk08] Rooted 24.2941 1.66032 40.336
pantothenate kinase 1 (ec 2.7.1.33) (pantothenic acid kinase 1) (hpank1) (hpank). [swissprot;acc:q8te04] Ranked 44 1.31818 58
protein kinase, interferon-inducible double stranded rna dependent activator; protein activator of the interferon-induced protein kinase. [refseq;acc:nm_003690] Measured 2108.52 2.21818 950.561
25 doc-1 related protein (doc-1r). [swissprot;acc:o75956] Squared 457.521 3.18404 143.692
guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-5 subunit. [swissprot;acc:p30670] Rooted 24.295 1.66026 40.3361
guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-7 subunit. [swissprot;acc:o60262] Measured 892.67 2.0534 1833.01
pantothenate kinase 2, mitochondrial precursor (ec 2.7.1.33) (pantothenic acid kinase 2) (hpank2). [swissprot;acc:q9bz23] Ranked 44 1.31818 58

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/