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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Rank Gene description Value Type Network Comparison Type Interaction Map Filtered red green network_comparison
Results: HTML CSV LaTeX Showing element 1675 to 1724 of 7460 in total
Value Type  : Ranked
Interaction Map  : High confidence
Rank
description
Network Comparison Type
Filtered
red
green
network_comparison
419 low affinity immunoglobulin epsilon fc receptor (lymphocyte ige receptor) (fc-epsilon-rii) (cd23) (blast-2) (immunoglobulin e-binding factor). [swissprot;acc:p06734] Divided 1 233.539 253.197 1.08417
signal recognition particle 9 kda protein (srp9). [swissprot;acc:p49458] Subtracted 235.922 218.925 16.997
420 blood group rh(ce) polypeptide (rhesus c/e antigens) (rh30a) (rhixb) (rh polypeptide 1) (rhpi). [swissprot;acc:p18577] Divided 0 16684 17183 1.02991
cd209 antigen; dendritic cell-specific icam3-grabbing nonintegrin. [refseq;acc:nm_021155] 1 233.539 253.197 1.08417
cleavage stimulation factor, 64 kda subunit (cstf 64 kda subunit) (cf-1 64 kda subunit). [swissprot;acc:p33240] Subtracted 0 11982.7 12301.2 318.5
cytochrome c1, heme protein, mitochondrial precursor (cytochrome c-1). [swissprot;acc:p08574] 1 238.704 255.68 16.976
421 alpha-1-acid glycoprotein 2 precursor (agp 2) (orosomucoid 2) (omd 2). [swissprot;acc:p19652] Divided 0 11186 10866.3 1.02942
limbic system-associated membrane protein precursor (lsamp). [swissprot;acc:q13449] Subtracted 10854.8 10537.9 316.9
oligophrenin-1 like protein (gtpase regulator associated with focal adhesion kinase). [swissprot;acc:q9una1] 1 238.704 255.68 16.976
tuftelin-interacting protein 11 (hspc006). [swissprot;acc:q9ubb9] Divided 223.202 205.9 1.08403
422 glutamine synthetase (ec 6.3.1.2) (glutamate--ammonia ligase). [swissprot;acc:p15104] 0 12581.7 12224.2 1.02925
ras-related protein rab-37. [swissprot;acc:q96ax2] 1 240.287 260.193 1.08284
senescence marker protein-30 (smp-30) (regucalcin) (rc). [swissprot;acc:q15493] Subtracted 238.704 255.68 16.976
sirtuin 7; sir2-related protein type 7; sirtuin type 7; sirtuin (silent mating type information regulation 2, s.cerevisiae, homolog) 7; silent mating type information regulation 2, s.cerevisiae, homolog 7; sirtuin silent mating type information regulation 2 homolog 7 (s. cerevisiae). [refseq;acc:nm_016538] 0 3464 3778 314
423 60s ribosomal protein l14 (cag-isl 7). [swissprot;acc:p50914] 12318.7 12631.5 312.8
cylindromatosis (turban tumor syndrome); cylindromatosis 1, turban tumor syndrome. [refseq;acc:nm_015247] Divided 5905 6073 1.02845
oligophrenin 1. [swissprot;acc:o60890] Subtracted 1 238.704 255.68 16.976
ras-related protein rab-26. [swissprot;acc:q9ulw5] Divided 240.287 260.193 1.08284
424 apoptosis inhibitor fksg2. [swissprot;acc:q9hau6] Subtracted 0 11276.1 11582.7 306.6
dipeptidyl aminopeptidase-like protein 6 (dipeptidylpeptidase vi) (dipeptidylpeptidase 6) (dipeptidyl peptidase iv like protein) (dipeptidyl aminopeptidase-related protein) (dppx). [swissprot;acc:p42658] Divided 9562.48 9298.93 1.02834
dna-directed rna polymerase ii 33 kda polypeptide (ec 2.7.7.6) (rpb3) (rna polymerase ii subunit 3) (rpb33) (rpb31). [swissprot;acc:p19387] 1 240.287 260.193 1.08284
nucleolar gtp-binding protein 1 (chronic renal failure gene protein) (gtp-binding protein ngb). [swissprot;acc:q9bze4] Subtracted 251.83 234.951 16.879
425 endonuclease g, mitochondrial precursor (ec 3.1.30.-) (endo g). [swissprot;acc:q14249] 212.547 229.411 16.864
max protein. [swissprot;acc:p25912] Divided 227.828 210.561 1.082
scribble. [refseq;acc:nm_015356] 0 12370.5 12719 1.02817
williams-beuren syndrome critical region protein 20 copy b. [refseq;acc:nm_145645] Subtracted 16416.1 16721.6 305.5
426 atp-dependent dna helicase ii, 70 kda subunit (lupus ku autoantigen protein p70) (ku70) (70 kda subunit of ku antigen) (thyroid-lupus autoantigen) (tlaa) (ctc box binding factor 75 kda subunit) (ctcbf) (ctc75). [swissprot;acc:p12956] Divided 9412.67 9676.67 1.02805
dynactin 4. [refseq;acc:nm_032486] 1 233.142 252.253 1.08197
programmed cell death protein 8, mitochondrial precursor (ec 1.-.-.-) (apoptosis-inducing factor). [swissprot;acc:o95831] Subtracted 212.547 229.411 16.864
williams beuren syndrome critical region 20a isoform 2; nol1/nop2/sun gene family member; williams-beuren syndrome critical region protein 20 copy a; williams beuren syndrome chromosome region 20. [refseq;acc:nm_018044] 0 16416.1 16721.6 305.5
427 apoptosis inhibitor fksg2. [swissprot;acc:q9hau6] Divided 11276.1 11582.7 1.02719
dna-directed rna polymerase ii 23 kda polypeptide (ec 2.7.7.6) (rpb25) (xap4) (rpb5) (rpabc1). [swissprot;acc:p19388] 1 239.977 259.525 1.08146
t-box transcription factor tbx6 (t-box protein 6). [swissprot;acc:o95947] Subtracted 212.547 229.411 16.864
williams beuren syndrome chromosome region 20c isoform 1. [refseq;acc:nm_032158] 0 16416.1 16721.6 305.5
428 atp-dependent rna helicase mgc2835; atp-dependent rna helicase; apoptosis related protein apr-5; dead box helicase 97 kda. [refseq;acc:nm_024072] Divided 1 253.852 234.808 1.0811
cleavage stimulation factor, 64 kda subunit (cstf 64 kda subunit) (cf-1 64 kda subunit). [swissprot;acc:p33240] 0 11982.7 12301.2 1.02658
histone h4. [swissprot;acc:p02304] Subtracted 9611.37 9308.99 302.38
u6 snrna-associated sm-like protein lsm5. [swissprot;acc:q9y4y9] 1 227.748 210.888 16.86
429 60s ribosomal protein l14 (cag-isl 7). [swissprot;acc:p50914] Divided 0 12318.7 12631.5 1.02539
polymerase (rna) iii (dna directed) (32kd). [refseq;acc:nm_006467] 1 239.709 259.038 1.08064
probable rrna processing protein ebp2 (ebna1 binding protein 2) (nucleolar protein p40). [swissprot;acc:q99848] Subtracted 251.344 234.514 16.83
splicing factor 3b subunit 3 (spliceosome associated protein 130) (sap 130) (sf3b130) (pre-mrna splicing factor sf3b 130 kda subunit). [swissprot;acc:q15393] 0 11621.7 11913.4 291.7
430 histone h2a.c/d/i/n/p (h2a.1) (h2a/c) (h2a/d) (h2a/i) (h2a/n) (h2a/p) (h2a.1b). [swissprot;acc:p02261] 21205 20914 291
splicing factor 3b subunit 3 (spliceosome associated protein 130) (sap 130) (sf3b130) (pre-mrna splicing factor sf3b 130 kda subunit). [swissprot;acc:q15393] Divided 11621.7 11913.4 1.0251
suppressor of swi4 1 homolog (ssf-1) (peter pan homolog). [swissprot;acc:q9nq55] Subtracted 1 250.938 234.134 16.804
u6 snrna-associated sm-like protein lsm5. [swissprot;acc:q9y4y9] Divided 227.748 210.888 1.07995
431 bag-family molecular chaperone regulator-3 (bcl-2 binding athanogene- 3) (bag-3) (bcl-2-binding protein bis) (docking protein cair-1). [swissprot;acc:o95817] Subtracted 233.529 216.737 16.792
histone deacetylase 2 (hd2). [swissprot;acc:q92769] Divided 0 10043.7 9799.17 1.02495
histone h2a.a (h2a/a) (h2a.2). [swissprot;acc:p28001] Subtracted 21205 20914 291
trub pseudouridine (psi) synthase homolog 1. [refseq;acc:nm_139169] Divided 1 236.245 255.113 1.07987

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/