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 [...,...].
Rank Gene Network Comparison Type Hugo description Value Type Interaction Map Filtered network_comparison red green
Results: HTML CSV LaTeX Showing element 94 to 143 of 25824 in total
Interaction Map  : High confidence
Filtered  : 1
Rank
Network Comparison Type
Hugo
description
Value Type
network_comparison
red
green
12 Subtracted no value melanoma-associated antigen 3 (mage-3 antigen) (antigen mz2-d). [swissprot;acc:p43357] Squared 89286 219048 129762
nuclear dna-binding protein; small unique nuclear receptor corepressor; c1d dna-binding protein. [refseq;acc:nm_006333] Measured 6604.9 34190.9 40795.8
ARRB2 beta-arrestin 2 (arrestin, beta 2). [swissprot;acc:p32121] Rooted 21.0555 80.4705 101.526
13 Divided CPEB3 cytoplasmic polyadenylation element binding protein 3. [refseq;acc:nm_014912] Measured 3.21581 398.5 1281.5
Squared 10.3414 37.5863 388.696
Rooted 1.79326 19.9625 35.798
UFC1 protein cgi-126 (protein hspc155). [swissprot;acc:q9y3c8] Ranked 1.3585 288.754 212.554
Subtracted ARRB1 beta-arrestin 1 (arrestin, beta 1). [swissprot;acc:p49407] Rooted 21.0555 80.4705 101.526
GNG12 guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-12 subunit. [swissprot;acc:q9ubi6] Ranked 69.377 266.856 336.233
MAGEA11 melanoma-associated antigen 11 (mage-11 antigen). [swissprot;acc:p43364] Squared 89286 219048 129762
MYO5B myosin vb (myosin 5b) (fragment). [swissprot;acc:q9ulv0] Measured 6313 21591.5 27904.5
14 Divided ATG4A cysteine endopeptidase aut-like 2 isoform a; autophagy-related cysteine endopeptidase 2; autophagin 2. [refseq;acc:nm_052936] Ranked 1.32952 56.6768 75.3531
RASAL2 ras gtpase-activating protein ngap (ras protein activator like 1). [swissprot;acc:q9ujf2] Measured 3.21581 398.5 1281.5
Squared 10.3414 37.5863 388.696
Rooted 1.79326 19.9625 35.798
Subtracted GNG4 guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-4 subunit. [swissprot;acc:p50150] Ranked 69.328 266.863 336.191
MAGEA2B melanoma-associated antigen 2 (mage-2 antigen). [swissprot;acc:p43356] Squared 89286 219048 129762
MYO5C myosin vc (myosin 5c). [swissprot;acc:q9nqx4] Measured 6313 21591.5 27904.5
SPATA6 spermatogenesis associated 6. [refseq;acc:nm_019073] Rooted 21.0555 80.4705 101.526
15 Divided MAP1LC3B microtubule-associated proteins 1a/1b light chain 3b (map1a/map1b lc3 b) (map1a/1b light chain 3 b). [swissprot;acc:q9gzq8] Ranked 1.32914 56.7244 75.3948
TMEM132A gbp protein isoform a. [refseq;acc:nm_017870] Rooted 1.77158 23.9771 42.4773
XAB1 xpa binding protein 1; mbd2 interactor protein; putative atp(gtp)-binding protein. [refseq;acc:nm_007266] Measured 3.06659 2671 871
Squared 9.40399 1688.58 179.56
Subtracted no value hepatocellular carcinoma-associated protein hca1. [refseq;acc:nm_020932] 89286 219048 129762
myosin va (myosin 5a) (dilute myosin heavy chain, non-muscle) (myosin heavy chain 12) (myoxin). [swissprot;acc:q9y4i1] Measured 6313 21591.5 27904.5
AMPD2 amp deaminase 2 (ec 3.5.4.6) (amp deaminase isoform l). [swissprot;acc:q01433] Rooted 21.0555 80.4705 101.526
GNG3 guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-3 subunit. [swissprot;acc:p29798] Ranked 69.327 266.863 336.19
16 Divided ATPBD1C protein x 0004. [refseq;acc:nm_016301] Measured 3.06659 2671 871
Squared 9.40399 1688.58 179.56
MAP1LC3A microtubule-associated proteins 1a/1b light chain 3a (map1a/map1b lc3 a) (map1a/1b light chain 3 a). [swissprot;acc:q9h492] Ranked 1.32913 56.7252 75.3954
XAB1 xpa binding protein 1; mbd2 interactor protein; putative atp(gtp)-binding protein. [refseq;acc:nm_007266] Rooted 1.75117 51.6817 29.5127
Subtracted no value 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] 21.035 203.673 182.638
ATG4A cysteine endopeptidase aut-like 2 isoform a; autophagy-related cysteine endopeptidase 2; autophagin 2. [refseq;acc:nm_052936] Measured 6088.2 24260.3 18172.1
GNG8 guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-8 subunit (gamma-9). [swissprot;acc:q9uk08] Ranked 69.32 266.864 336.184
MAGEA6 melanoma-associated antigen 6 (mage-6 antigen) (mage3b). [swissprot;acc:p43360] Squared 89286 219048 129762
17 Divided ATG4B cysteine endopeptidase aut-like isoform b. [refseq;acc:nm_178326] Ranked 1.32866 56.7841 75.447
ATPBD1C protein x 0004. [refseq;acc:nm_016301] Rooted 1.75117 51.6817 29.5127
DGCR14 dgcr14 protein (digeorge syndrome critical region 14) (es2 protein). [swissprot;acc:q96df8] Measured 2.96739 460 1365
Squared 8.80542 50.0828 441
Subtracted GNG5 guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-5 subunit. [swissprot;acc:p30670] Ranked 69.318 266.864 336.182
MAP1LC3B microtubule-associated proteins 1a/1b light chain 3b (map1a/map1b lc3 b) (map1a/1b light chain 3 b). [swissprot;acc:q9gzq8] Measured 6086.8 24255.7 18168.9
NDN necdin. [swissprot;acc:q99608] Squared 89286 219048 129762
PSCD1 cytohesin 1 (sec7 homolog b2-1). [swissprot;acc:q15438] Rooted 21.035 203.673 182.638
18 Divided DGCR14 dgcr14 protein (digeorge syndrome critical region 14) (es2 protein). [swissprot;acc:q96df8] 1.72261 21.4476 36.9459
GBE1 1,4-alpha-glucan branching enzyme (ec 2.4.1.18) (glycogen branching enzyme) (brancher enzyme). [swissprot;acc:q04446] Ranked 1.32082 185.678 245.247
PPP1R14A protein phosphatase 1, regulatory (inhibitor) subunit 14a; 17-kda pkc-potentiated inhibitory protein of pp1. [refseq;acc:nm_033256] Measured 2.75351 677.5 1865.5
Squared 7.58176 108.641 823.69
Subtracted GNG10 guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-10 subunit. [swissprot;acc:p50151] Ranked 69.316 266.865 336.181
MAGED1 melanoma-associated antigen d1 (mage-d1 antigen) (neurotrophin receptor-interacting mage homolog) (pro2292). [swissprot;acc:q9y5v3] Squared 89286 219048 129762
MAP1LC3A microtubule-associated proteins 1a/1b light chain 3a (map1a/map1b lc3 a) (map1a/1b light chain 3 a). [swissprot;acc:q9h492] Measured 6086.8 24255.7 18168.9

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
- Hugo is the HGNC identifier if it exists
- 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/