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 red Value Type Interaction Map network_comparison green Filtered
Results: HTML CSV LaTeX Showing element 451 to 500 of 8289 in total
Network Comparison Type  : Divided
Value Type  : Measured
Filtered  : 1
Rank
description
red
Interaction Map
network_comparison
green
226 myosin heavy chain, skeletal muscle, fetal (myosin heavy chain iib) (myhc-iib). [swissprot;acc:q9y623] 9035 High confidence 1.24114 7279.6
ninein (gsk3b interacting protein). [refseq;acc:nm_016350] 7393.41 Low confidence 1.06591 7880.73
227 dab2 interacting protein; ngap-like protein; doc-2/dab2 interactive protein. [refseq;acc:nm_032552] 5656.6 1.06582 6028.92
myosin heavy chain, skeletal muscle, perinatal (myhc-perinatal). [swissprot;acc:p13535] 9035 High confidence 1.24114 7279.6
228 myosin heavy chain, skeletal muscle, adult 2 (myosin heavy chain iia) (myhc-iia). [swissprot;acc:q9ukx2]
u2 small nuclear ribonucleoprotein b". [swissprot;acc:p08579] 7671.57 Low confidence 1.06582 8176.51
229 myosin heavy chain, fast skeletal muscle, embryonic (muscle embryonic myosin heavy chain) (smhce). [swissprot;acc:p11055] 9035 High confidence 1.24114 7279.6
ras gtpase-activating protein ngap (ras protein activator like 1). [swissprot;acc:q9ujf2] 5669.24 Low confidence 1.06546 6040.33
230 microsomal signal peptidase 18 kda subunit (ec 3.4.-.-) (spase 18 kda subunit) (spc18) (endopeptidase sp18). [swissprot;acc:p21378] 7789.89 1.06529 8298.46
myosin heavy chain, skeletal muscle, adult 1 (myosin heavy chain iix/d) (myhc-iix/d). [swissprot;acc:p12882] 9035 High confidence 1.24114 7279.6
231 dj820b18.1 (similar to nuclear cap binding protein) (fragment). [sptrembl;acc:q8wwk2] 7650.5 Low confidence 1.06512 8148.73
myosin heavy chain, cardiac muscle beta isoform (myhc-beta). [swissprot;acc:p12883] 9035 High confidence 1.24114 7279.6
232 dj756n5.1.1 (continues in em:al133324 as dj1161h23.3) (fragment). [sptrembl;acc:q9h430]
pyridoxine 5'-phosphate oxidase. [refseq;acc:nm_018129] 9465.72 Low confidence 1.06506 10081.6
233 gaba-a receptor-associated protein. [sptrembl;acc:q9by60] 10519.4 1.06495 9877.88
myosin heavy chain, skeletal muscle, extraocular (myhc-eo). [swissprot;acc:q9ukx3] 9035 High confidence 1.24114 7279.6
234 20 kda nuclear cap binding protein (ncbp 20 kda subunit) (cbp20) (ncbp interacting protein 1) (nip1). [swissprot;acc:p52298] 7647.22 Low confidence 1.06489 8143.47
ribosomal protein s6 kinase, 52kda, polypeptide 1; ribosomal protein s6 kinase, 52kd, polypeptide 1. [refseq;acc:nm_012424] 5181.2 High confidence 1.23728 6410.58
235 ribosomal protein s6 kinase-like 1. [refseq;acc:nm_031464]
tropomyosin alpha 4 chain (tropomyosin 4) (tm30p1). [swissprot;acc:p07226] 7630.1 Low confidence 1.06487 8125.09
236 spliceosomal u5 snrnp-specific 15 kda protein (dim1 protein homolog) (thioredoxin-like u5 snrnp protein u5-15kd). [swissprot;acc:o14834] 4723.53 High confidence 1.23392 5828.46
wd repeat domain 26. [refseq;acc:nm_025160] 8731.88 Low confidence 1.06468 9296.67
237 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] 8530.51 1.06457 9081.29
u6 snrna-associated sm-like protein lsm5. [swissprot;acc:q9y4y9] 4567.04 High confidence 1.23301 5631.2
238 asc-type amino acid transporter 1 (asc-1). [swissprot;acc:q9ns82] 6976.45 Low confidence 1.06452 7426.6
protein phosphatase 1, regulatory subunit 7; sds22. [refseq;acc:nm_002712] 27642.5 High confidence 1.23182 22440.4
239 carboxypeptidase b precursor. [refseq;acc:nm_020361] 7711.38 1.23071 6265.8
dna fragmentation factor 40 kda subunit (ec 3.-.-.-) (dff-40) (caspase-activated deoxyribonuclease) (caspase-activated dnase) (cad) (caspase-activated nuclease) (cpan). [swissprot;acc:o76075] 6456.05 Low confidence 1.06449 6872.38
240 mast cell carboxypeptidase a precursor (ec 3.4.17.1) (mc-cpa) (carboxypeptidase a3). [swissprot;acc:p15088] 7711.36 High confidence 1.23071 6265.79
small nuclear ribonucleoprotein sm d1 (snrnp core protein d1) (sm-d1) (sm-d autoantigen). [swissprot;acc:p13641] 7671.08 Low confidence 1.06425 8163.95
241 glucosamine-6-phosphate isomerase. [refseq;acc:nm_138335] 4585.58 1.06356 4311.52
plasma carboxypeptidase b2 isoform a preproprotein; carboxypeptidase u; thrombin-activatable fibrinolysis inhibitor; carboxypeptidase b-like protein; thrombin-activable fibrinolysis inhibitor. [refseq;acc:nm_001872] 7711.31 High confidence 1.23071 6265.76
242 glucosamine-6-phosphate isomerase (ec 3.5.99.6) (glucosamine-6- phosphate deaminase) (gnpda) (glcn6p deaminase) (oscillin). [swissprot;acc:p46926] 4585.58 Low confidence 1.06356 4311.52
max protein. [swissprot;acc:p25912] 4640.26 High confidence 1.22943 5704.87
243 dead (asp-glu-ala-asp) box polypeptide 39 isoform 1; nuclear rna helicase, decd variant of dead box family. [refseq;acc:nm_005804] 7648.9 Low confidence 1.06338 8133.69
homer, neuronal immediate early gene, 2; homer homolog 3 (drosophila). [refseq;acc:nm_004839] 4246.95 High confidence 1.22652 5208.98
244 protein phosphatase 1, regulatory (inhibitor) subunit 12b isoform a; myosin phosphatase regulatory subunit; myosin phosphatase, target subunit 2. [refseq;acc:nm_002481] 8759.92 Low confidence 1.06331 9314.48
ubiquinone biosynthesis protein coq7 homolog (coenzyme q biosynthesis protein 7 homolog) (timing protein clk-1 homolog). [swissprot;acc:q99807] 4250.14 High confidence 1.22614 5211.25
245 homer, neuronal immediate early gene, 1b. [refseq;acc:nm_004272] 4251.65 1.22595 5212.33
tumor protein p73-like; tumor protein 63 kda with strong homology to p53; tumor protein p63. [refseq;acc:nm_003722] 8509.99 Low confidence 1.06313 9047.26
246 homer, neuronal immediate early gene, 3. [refseq;acc:nm_004838] 4252.66 High confidence 1.22583 5213.05
tumor protein p73 (p53-like transcription factor) (p53-related protein). [swissprot;acc:o15350] 8509.76 Low confidence 1.06312 9046.87
247 cellular tumor antigen p53 (tumor suppressor p53) (phosphoprotein p53) (antigen ny-co-13). [swissprot;acc:p04637] 8509.51 1.0631 9046.45
wiskott-aldrich syndrome protein (wasp). [swissprot;acc:p42768] 6416.68 High confidence 1.22574 7865.15
248 proto-oncogene c-crk (p38) (adapter molecule crk). [swissprot;acc:p46108] 6417.18 1.22477 7859.6
rabaptin, rab gtpase binding effector protein 1; rabaptin-5; neurocrescin. [refseq;acc:nm_004703] 7615.71 Low confidence 1.06302 8095.68
249 apg3p; pc3-96 protein. [refseq;acc:nm_022488] 10547.4 1.06276 9924.56
tyrosine-protein kinase abl2 (ec 2.7.1.112) (tyrosine kinase arg). [swissprot;acc:p42684] 6417.18 High confidence 1.22477 7859.59
250 large neutral amino acids transporter small subunit 2 (l-type amino acid transporter 2) (hlat2). [swissprot;acc:q9uhi5] 6975.98 Low confidence 1.06261 7412.76
proto-oncogene tyrosine-protein kinase src (ec 2.7.1.112) (p60-src) (c-src). [swissprot;acc:p12931] 6417.18 High confidence 1.22477 7859.6

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/