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 [...,...].
Rank Gene Value Type description Interaction Map Network Comparison Type Filtered red network_comparison green
Results: HTML CSV LaTeX Showing element 2501 to 2550 of 25824 in total
Interaction Map  : High confidence
Filtered  : 1
Rank
Value Type
description
Network Comparison Type
red
network_comparison
green
313 Squared cytoplasmic dynein light chain (t-complex testis-specific protein 1 homolog) (protein cw-1). [swissprot;acc:q15763] Divided 71576.8 1.27074 56326.7
fibulin-2 precursor. [swissprot;acc:p98095] Subtracted 45189.6 7476.6 52666.2
Rooted eap30 subunit of ell complex. [refseq;acc:nm_007241] 59.6399 7.7157 51.9242
myosin heavy chain, skeletal muscle, adult 2 (myosin heavy chain iia) (myhc-iia). [swissprot;acc:q9ukx2] Divided 95.0526 1.11406 85.3206
314 Measured ribonucleotide reductase m2 b (tp53 inducible); p53-inducible ribonucleotide reductase small subunit 2 homolog. [refseq;acc:nm_015713] Subtracted 6563.65 1063.64 7627.29
type 1 protein phosphatase inhibitor. [refseq;acc:nm_025210] Divided 21632.5 1.19583 18090
Ranked melanoma-associated antigen 8 (mage-8 antigen). [swissprot;acc:p43361] Subtracted 88.2482 22.0168 110.265
methionine aminopeptidase 1 (ec 3.4.11.18) (metap 1) (map 1) (peptidase m 1). [swissprot;acc:p53582] Divided 244.126 1.10027 268.604
Squared fzr1 protein; fizzy-related protein; cdc20-like 1b. [refseq;acc:nm_016263] 71576.8 1.27074 56326.7
ring finger protein 25 (ec 6.3.2.-). [swissprot;acc:q96bh1] Subtracted 51519.3 7458.9 44060.4
Rooted liv-1 protein, estrogen regulated. [refseq;acc:nm_012319] 59.6399 7.7157 51.9242
myosin heavy chain, fast skeletal muscle, embryonic (muscle embryonic myosin heavy chain) (smhce). [swissprot;acc:p11055] Divided 95.0526 1.11406 85.3206
315 Measured ribosome biogenesis regulatory protein homolog. [swissprot;acc:q15050] 21370.8 1.19413 17896.5
vav proto-oncogene. [swissprot;acc:p15498] Subtracted 6644.99 1062.81 7707.8
Ranked melanoma-associated antigen c1 (mage-c1 antigen) (cancer-testis antigen ct7). [swissprot;acc:o60732] 88.2482 22.0168 110.265
methionine aminopeptidase 2 (ec 3.4.11.18) (metap 2) (peptidase m 2) (initiation factor 2 associated 67 kda glycoprotein) (p67) (p67eif2). [swissprot;acc:p50579] Divided 244.126 1.10027 268.604
Squared arginyl-trna synthetase-like; arginine-trna ligase. [refseq;acc:nm_020320] Subtracted 31819.7 7402.5 39222.2
proprotein convertase subtilisin/kexin type 5 precursor (ec 3.4.21.-) (proprotein convertase pc5) (subtilisin/kexin-like protease pc5) (convertase pc5) (pc6) (hpc6). [swissprot;acc:q92824] Divided 71576.8 1.27074 56326.7
Rooted glutamate decarboxylase, 65 kda isoform (ec 4.1.1.15) (gad-65) (65 kda glutamic acid decarboxylase). [swissprot;acc:q05329] Subtracted 59.6399 7.7157 51.9242
myosin heavy chain, skeletal muscle, adult 1 (myosin heavy chain iix/d) (myhc-iix/d). [swissprot;acc:p12882] Divided 95.0526 1.11406 85.3206
316 Measured serine/threonine protein phosphatase pp1-alpha 1 catalytic subunit (ec 3.1.3.16) (pp-1a). [swissprot;acc:p08129] 21370.8 1.19413 17896.5
wiskott-aldrich syndrome protein interacting protein (wasp interacting protein) (prpl-2 protein). [swissprot;acc:o43516] Subtracted 6603.41 1061.24 7664.65
Ranked melanoma-associated antigen 12 (mage-12 antigen) (mage12f). [swissprot;acc:p43365] 88.2482 22.0168 110.265
protein translation factor sui1 homolog (sui1iso1). [swissprot;acc:p41567] Divided 242.694 1.10022 267.017
Squared neural wiskott-aldrich syndrome protein (n-wasp). [swissprot;acc:o00401] 28918.3 1.27068 36746
regulator of chromosome condensation (cell cycle regulatory protein). [swissprot;acc:p18754] Subtracted 44848.2 7260.1 52108.3
Rooted gamma-soluble nsf attachment protein (snap-gamma) (n-ethylmaleimide- sensitive factor attachment protein, gamma). [swissprot;acc:q99747] 59.6399 7.7157 51.9242
myosin heavy chain, cardiac muscle beta isoform (myhc-beta). [swissprot;acc:p12883] Divided 95.0526 1.11406 85.3206
317 Measured adiponectin receptor 2. [refseq;acc:nm_024551] 3153.1 1.19329 3762.56
vav-3 protein. [swissprot;acc:q9ukw4] Subtracted 6647.43 1058.75 7706.18
Ranked melanoma-associated antigen 1 (mage-1 antigen) (antigen mz2-e). [swissprot;acc:p43355] 88.2482 22.0168 110.265
splicing factor 3b subunit 3 (spliceosome associated protein 130) (sap 130) (sf3b130) (pre-mrna splicing factor sf3b 130 kda subunit). [swissprot;acc:q15393] Divided 224.445 1.09998 204.044
Squared nucleoside diphosphate kinase 3 (ec 2.7.4.6) (ndk 3) (ndp kinase 3) (nm23-h3) (dr-nm23). [swissprot;acc:q13232] 33982.3 1.27005 43159.1
zinc finger homeobox protein 1b (smad interacting protein 1) (smadip1) (hrihfb2411). [swissprot;acc:o60315] Subtracted 44848.2 7260.1 52108.3
Rooted dj756n5.1.1 (continues in em:al133324 as dj1161h23.3) (fragment). [sptrembl;acc:q9h430] Divided 95.0526 1.11406 85.3206
glutamate decarboxylase, 67 kda isoform (ec 4.1.1.15) (gad-67) (67 kda glutamic acid decarboxylase). [swissprot;acc:q99259] Subtracted 59.6399 7.7157 51.9242
318 Measured 1-acyl-sn-glycerol-3-phosphate acyltransferase gamma (ec 2.3.1.51) (1- agp acyltransferase 3) (1-agpat 3) (lysophosphatidic acid acyltransferase-gamma) (lpaat-gamma) (1-acylglycerol-3-phosphate o- acyltransferase 3). [swissprot;acc:q9nrz7] 7485.08 1058.58 8543.66
nuclear dna-binding protein; small unique nuclear receptor corepressor; c1d dna-binding protein. [refseq;acc:nm_006333] Divided 34190.9 1.19318 40795.8
Ranked melanoma-associated antigen 10 (mage-10 antigen). [swissprot;acc:p43363] Subtracted 88.2482 22.0168 110.265
mitochondrial 60s ribosomal protein l3 (l3mt). [swissprot;acc:p09001] Divided 242.011 1.09987 266.18
Squared mitochondrial import receptor subunit tom20 homolog (mitochondrial 20 kda outer membrane protein) (outer mitochondrial membrane receptor tom20). [swissprot;acc:q15388] 46739.9 1.26518 59134.5
transcription factor 8 (nil-2-a zinc finger protein) (negative regulator of il2). [swissprot;acc:p37275] Subtracted 44848.2 7260.1 52108.3
Rooted chromatin accessibility complex protein 1 (chrac-1) (chrac-15) (huchrac15) (dna polymerase epsilon subunit p15). [swissprot;acc:q9nrg0] 38.8223 7.6752 46.4975
myosin heavy chain, skeletal muscle, extraocular (myhc-eo). [swissprot;acc:q9ukx3] Divided 95.0526 1.11406 85.3206
319 Measured 1-acyl-sn-glycerol-3-phosphate acyltransferase delta (ec 2.3.1.51) (1- agp acyltransferase 4) (1-agpat 4) (lysophosphatidic acid acyltransferase-delta) (lpaat-delta) (1-acylglycerol-3-phosphate o- acyltransferase 4). [swissprot;acc:q9nrz5] Subtracted 7477 1055.02 8532.02
ras-related gtp binding a; ras-related gtp-binding protein. [refseq;acc:nm_006570] Divided 20911 1.19117 24908.5
Ranked 60s ribosomal protein l19. [swissprot;acc:p14118] 240.73 1.09969 264.729
melanoma-associated antigen b1 (mage-b1 antigen) (mage-xp antigen) (dss-ahc critical interval mage superfamily 10) (dam10). [swissprot;acc:p43366] Subtracted 88.2482 22.0168 110.265
Squared maguk p55 subfamily member 3 (mpp3 protein) (discs, large homolog 3). [swissprot;acc:q13368] 37147.5 7224.6 44372.1
peroxisomal farnesylated protein (33 kda housekeeping protein) (peroxin 19). [swissprot;acc:p40855] Divided 46739.9 1.26518 59134.5

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/