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

Table 3: Type II network, divided ranks. This table presents the output of the simulation of a type-II network in which we relied on the high confidence interactions and micro-array results. The output of the micro-array was then ranked and these ranks used as input into the network simulation. After performing two such simulations (one for the MK5 off and one for the MK5 on microarray output), we divided the ranks and sorted the results accordingly. The output of this technique is a collection of proteins that cluster naturally together.


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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 812 to 861 of 3730 in total
Value Type  : Ranked
Network Comparison Type  : Divided
Interaction Map  : High confidence
Rank
description
Filtered
red
green
network_comparison
406 transcription factor dp-1 (e2f dimerization partner 1) (drtf1- polypeptide-1) (drtf1). [swissprot;acc:q14186] 1 265.634 244.304 1.08731
407 28s ribosomal protein s9, mitochondrial precursor (mrp-s9). [swissprot;acc:p82933] 239.75 260.544 1.08673
udp-glucuronosyltransferase 2b10 precursor, microsomal (ec 2.4.1.17) (udpgt). [swissprot;acc:p36537] 0 9783.63 10111.2 1.03348
408 ccaat-box-binding transcription factor (ccaat-binding factor) (cbf). [swissprot;acc:q03701] 1 255.112 234.804 1.08649
udp-glucuronosyltransferase 2b15 precursor, microsomal (ec 2.4.1.17) (udpgt) (udpgth-3) (hlug4). [swissprot;acc:p54855] 0 9783.63 10111.2 1.03348
409 rna polymerase i associated factor 53. [refseq;acc:nm_022490] 1 241.045 261.874 1.08641
similar to cg7020 gene product (fragment). [sptrembl;acc:q96ib4] 0 10598.5 10945.3 1.03272
410 histone h4. [swissprot;acc:p02304] 9611.37 9308.99 1.03248
tfiih basal transcription factor complex p44 subunit (basic transcription factor 2 44 kda subunit) (btf2-p44) (general transcription factor iih polypeptide 2). [swissprot;acc:q13888] 1 233.376 253.539 1.0864
411 60s ribosomal protein l22 (epstein-barr virus small rna associated protein) (eber associated protein) (eap) (heparin binding protein hbp15). [swissprot;acc:p35268] 0 12115.7 12508.3 1.0324
tfiih basal transcription factor complex p62 subunit (basic transcription factor 62 kda subunit) (btf2-p62) (general transcription factor iih polypeptide 1). [swissprot;acc:p32780] 1 233.376 253.539 1.0864
412 5-aminolevulinic acid synthase, nonspecific, mitochondrial precursor (ec 2.3.1.37) (delta-aminolevulinate synthase) (delta-ala synthetase) (alas-h). [swissprot;acc:p13196] 0 8546.06 8279.69 1.03217
ubiquinol-cytochrome c reductase iron-sulfur subunit, mitochondrial precursor (ec 1.10.2.2) (rieske iron-sulfur protein) (risp). [swissprot;acc:p47985] 1 240.788 261.416 1.08567
413 dna-directed rna polymerase i 40 kda polypeptide (ec 2.7.7.6) (rpa40) (rpa39). [swissprot;acc:o15160] 240.913 261.45 1.08525
protein cgi-147. [swissprot;acc:q9y3e5] 0 5135.25 5298.12 1.03172
414 germ cell-less. [refseq;acc:nm_022471] 10978.8 10644.4 1.03142
katanin p60 subunit a 1. [refseq;acc:nm_007044] 1 232.431 252.238 1.08522
415 katanin p80 subunit b 1; katanin (80 kda); katanin p80 (wd40-containing) subunit b 1. [refseq;acc:nm_005886] 232.382 252.166 1.08514
transcription factor mafg (v-maf musculoaponeurotic fibrosarcoma oncogene homolog g) (hmaf). [swissprot;acc:o15525] 0 13571.2 13166.3 1.03075
416 dna-directed rna polymerase i 135 kda polypeptide (ec 2.7.7.6) (rna polymerase i subunit 2) (rpa135). [swissprot;acc:q9h9y6] 1 240.6 261.041 1.08496
transcription factor mafk (erythroid transcription factor nf-e2 p18 subunit). [swissprot;acc:o60675] 0 13607.6 13202 1.03072
417 limbic system-associated membrane protein precursor (lsamp). [swissprot;acc:q13449] 10854.8 10537.9 1.03007
set domain and mariner transposase fusion gene. [refseq;acc:nm_006515] 1 233.539 253.197 1.08417
418 blood group rh(ce) polypeptide (rhesus c/e antigens) (rh30a) (rhixb) (rh polypeptide 1) (rhpi). [swissprot;acc:p18577] 0 16680.7 17180.3 1.02995
cd209 antigen-like; putative type ii membrane protein. [refseq;acc:nm_014257] 1 233.539 253.197 1.08417
419 blood group rh(d) polypeptide (rhesus d antigen) (rhxiii) (rh polypeptide 2) (rhpii). [swissprot;acc:q02161] 0 16684 17183 1.02991
low affinity immunoglobulin epsilon fc receptor (lymphocyte ige receptor) (fc-epsilon-rii) (cd23) (blast-2) (immunoglobulin e-binding factor). [swissprot;acc:p06734] 1 233.539 253.197 1.08417
420 blood group rh(ce) polypeptide (rhesus c/e antigens) (rh30a) (rhixb) (rh polypeptide 1) (rhpi). [swissprot;acc:p18577] 0 16684 17183 1.02991
cd209 antigen; dendritic cell-specific icam3-grabbing nonintegrin. [refseq;acc:nm_021155] 1 233.539 253.197 1.08417
421 alpha-1-acid glycoprotein 2 precursor (agp 2) (orosomucoid 2) (omd 2). [swissprot;acc:p19652] 0 11186 10866.3 1.02942
tuftelin-interacting protein 11 (hspc006). [swissprot;acc:q9ubb9] 1 223.202 205.9 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
423 cylindromatosis (turban tumor syndrome); cylindromatosis 1, turban tumor syndrome. [refseq;acc:nm_015247] 0 5905 6073 1.02845
ras-related protein rab-26. [swissprot;acc:q9ulw5] 1 240.287 260.193 1.08284
424 dipeptidyl aminopeptidase-like protein 6 (dipeptidylpeptidase vi) (dipeptidylpeptidase 6) (dipeptidyl peptidase iv like protein) (dipeptidyl aminopeptidase-related protein) (dppx). [swissprot;acc:p42658] 0 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
425 max protein. [swissprot;acc:p25912] 227.828 210.561 1.082
scribble. [refseq;acc:nm_015356] 0 12370.5 12719 1.02817
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] 9412.67 9676.67 1.02805
dynactin 4. [refseq;acc:nm_032486] 1 233.142 252.253 1.08197
427 apoptosis inhibitor fksg2. [swissprot;acc:q9hau6] 0 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
428 atp-dependent rna helicase mgc2835; atp-dependent rna helicase; apoptosis related protein apr-5; dead box helicase 97 kda. [refseq;acc:nm_024072] 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
429 60s ribosomal protein l14 (cag-isl 7). [swissprot;acc:p50914] 12318.7 12631.5 1.02539
polymerase (rna) iii (dna directed) (32kd). [refseq;acc:nm_006467] 1 239.709 259.038 1.08064
430 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 1.0251
u6 snrna-associated sm-like protein lsm5. [swissprot;acc:q9y4y9] 1 227.748 210.888 1.07995
431 histone deacetylase 2 (hd2). [swissprot;acc:q92769] 0 10043.7 9799.17 1.02495

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/