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 Network Comparison Type Value Type Interaction Map Filtered green red network_comparison
Results: HTML CSV LaTeX Showing element 1468 to 1517 of 6456 in total
Value Type  : Ranked
Interaction Map  : High confidence
Filtered  : 1
Rank
description
Network Comparison Type
green
red
network_comparison
734 presenilin-like protein 2 (ec 3.4.99.-) (sppl2a protein). [swissprot;acc:q8tct8] Divided 244.534 232.601 1.0513
735 gtp-binding nuclear protein ran (tc4) (ran gtpase) (androgen receptor- associated protein 24). [swissprot;acc:p17080]
hemk protein homolog (ec 2.1.1.-) (m.hsahemkp). [swissprot;acc:q9y5r4] Subtracted 218.343 229.045 10.702
736 presenilin-like protein 1 (ec 3.4.99.-) (sppl2b protein). [swissprot;acc:q8tct7] Divided 244.534 232.601 1.0513
putative n6-dna-methyltransferase (ec 2.1.1.-) (protein pred28) (m.hsahemk2p). [swissprot;acc:q9y5n5] Subtracted 218.091 228.78 10.689
737 exocyst complex component sec15b. [swissprot;acc:q9y2d4] 211.326 221.968 10.642
septin 10 isoform 1. [refseq;acc:nm_144710] Divided 119.402 125.526 1.05129
738 exocyst complex component sec15a. [swissprot;acc:q8tag9] Subtracted 211.503 222.138 10.635
xpa-binding protein 2 (hcnp protein) (pp3898). [swissprot;acc:q9hcs7] Divided 211.966 222.825 1.05123
739 3-phosphoinositide dependent protein kinase-1 (ec 2.7.1.37) (hpdk1). [swissprot;acc:o15530] Subtracted 283.472 272.878 10.594
phosphoribosylformylglycinamidine synthase (ec 6.3.5.3) (fgam synthase) (fgams) (formylglycinamide ribotide amidotransferase) (fgarat) (formylglycinamide ribotide synthetase). [swissprot;acc:o15067] Divided 235.027 223.58 1.0512
740 bifunctional purine biosynthesis protein purh [includes: phosphoribosylaminoimidazolecarboxamide formyltransferase (ec 2.1.2.3) (aicar transformylase); imp cyclohydrolase (ec 3.5.4.10) (inosinicase) (imp synthetase) (atic)]. [swissprot;acc:p31939]
u2 small nuclear ribonucleoprotein auxiliary factor 35 kda subunit related-protein 1. [swissprot;acc:q15695] Subtracted 212.875 223.463 10.588
741 multifunctional protein ade2 [includes: phosphoribosylaminoimidazole- succinocarboxamide synthase (ec 6.3.2.6) (saicar synthetase); phosphoribosylaminoimidazole carboxylase (ec 4.1.1.21) (air carboxylase) (airc)]. [swissprot;acc:p22234] Divided 235.027 223.58 1.0512
step ii splicing factor slu7. [refseq;acc:nm_006425] Subtracted 212.875 223.463 10.588
742 brain protein 44. [swissprot;acc:o95563] Divided 120.078 126.215 1.05111
histone deacetylase 2 (hd2). [swissprot;acc:q92769] Subtracted 215.541 226.003 10.462
743 multiple coagulation factor deficiency 2; neural stem cell derived neuronal survival protein; multiple coagulation factor deficiency protein 2. [refseq;acc:nm_139279] 215.535 225.996 10.461
septin 7 (cdc10 protein homolog). [swissprot;acc:q16181] Divided 120.078 126.215 1.05111
744 dj153g14.2 (possible ca binding protein similar to nefa) (fragment). [sptrembl;acc:q9ujn8] Subtracted 215.535 225.996 10.461
septin 6. [swissprot;acc:q14141] Divided 120.463 126.604 1.05098
745 histone deacetylase 1 (hd1). [swissprot;acc:q13547] Subtracted 215.53 225.989 10.459
solute carrier family 35, member b1; udp-galactose transporter related. [refseq;acc:nm_005827] Divided 225.568 214.679 1.05072
746 eukaryotic translation initiation factor 3 subunit 2 (eif-3 beta) (eif3 p36) (eif3i) (tgf-beta receptor interacting protein 1) (trip-1). [swissprot;acc:q13347] 238.38 250.465 1.0507
protein tara (trio-associated repeat on actin) (hrihfb2122). [swissprot;acc:q9h2d6] Subtracted 224.226 213.804 10.422
747 rho interacting protein 3. [refseq;acc:nm_015134] 224.224 213.803 10.421
trinucleotide repeat containing 15. [refseq;acc:nm_015575] Divided 238.38 250.465 1.0507
748 fibrillarin (34 kda nucleolar scleroderma antigen). [swissprot;acc:p22087] 233.483 245.246 1.05038
u4/u6-associated rna splicing factor. [refseq;acc:nm_004698] Subtracted 211.707 222.082 10.375
749 dnaj homolog subfamily b member 4 (heat shock 40 kda protein 1 homolog) (heat shock protein 40 homolog) (hsp40 homolog). [swissprot;acc:q9udy4] 221.225 210.946 10.279
exocyst complex component sec15b. [swissprot;acc:q9y2d4] Divided 211.326 221.968 1.05036
750 cab2. [refseq;acc:nm_033419] Subtracted 221.225 210.946 10.279
exocyst complex component sec15a. [swissprot;acc:q8tag9] Divided 211.503 222.138 1.05028
751 dnaj homolog subfamily b member 5 (heat shock protein hsp40-3) (heat shock protein cognate 40) (hsc40) (hsp40-2). [swissprot;acc:o75953] Subtracted 221.225 210.946 10.279
u2 small nuclear ribonucleoprotein auxiliary factor 35 kda subunit related-protein 1. [swissprot;acc:q15695] Divided 212.875 223.463 1.04974
752 dnaj homolog subfamily b member 1 (heat shock 40 kda protein 1) (heat shock protein 40) (hsp40) (dnaj protein homolog 1) (hdj-1). [swissprot;acc:p25685] Subtracted 221.225 210.946 10.279
step ii splicing factor slu7. [refseq;acc:nm_006425] Divided 212.875 223.463 1.04974
753 eukaryotic peptide chain release factor subunit 1 (erf1) (eukaryotic release factor 1) (tb3-1) (c11 protein). [swissprot;acc:p46055] Subtracted 221.225 210.946 10.279
lipopolysaccharide-binding protein precursor (lbp). [swissprot;acc:p18428] Divided 235.583 224.434 1.04968
754 microsomal signal peptidase 25 kda subunit (ec 3.4.-.-) (spase 25 kda subunit) (spc25). [swissprot;acc:q15005]
suppressor of actin mutations 2-like isoform b; dj1033b10.5. [refseq;acc:nm_022553] Subtracted 221.225 210.946 10.279
755 40s ribosomal protein sa (p40) (34/67 kda laminin receptor) (colon carcinoma laminin-binding protein) (nem/1chd4) (multidrug resistance- associated protein mgr1-ag). [swissprot;acc:p08865] 234.511 224.244 10.267
uridine 5'-monophosphate synthase (ump synthase) [includes: orotate phosphoribosyltransferase (ec 2.4.2.10) (oprtase); orotidine 5'- phosphate decarboxylase (ec 4.1.1.23) (ompdecase)]. [swissprot;acc:p11172] Divided 235.583 224.434 1.04968
756 40s ribosomal protein s21. [swissprot;acc:p35265] Subtracted 234.511 224.244 10.267
cleft lip and palate associated transmembrane protein 1. [refseq;acc:nm_001294] Divided 235.583 224.434 1.04968
757 bactericidal permeability-increasing protein precursor (bpi) (cap 57). [swissprot;acc:p17213]
cytoplasmic antiproteinase 3 (cap3) (cap-3) (protease inhibitor 9) (serpin b9). [swissprot;acc:p50453] Subtracted 234.511 224.244 10.267
758 maspin precursor (protease inhibitor 5). [swissprot;acc:p36952]
phospholipid transfer protein precursor (lipid transfer protein ii). [swissprot;acc:p55058] Divided 235.583 224.434 1.04968
759 bomapin (protease inhibitor 10) (serpin b10). [swissprot;acc:p48595] Subtracted 234.511 224.244 10.267

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/