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 Value Type Network Comparison Type description Interaction Map Filtered red green network_comparison
Results: HTML CSV LaTeX Showing element 2351 to 2400 of 6456 in total
Value Type  : Measured
Interaction Map  : High confidence
Filtered  : 1
Rank
Network Comparison Type
description
red
green
network_comparison
1176 Divided aarf domain containing kinase 4. [refseq;acc:nm_024876] 5799.35 6305.95 1.08735
Subtracted myb-related protein b (b-myb). [swissprot;acc:p10244] 5418.92 5923.09 504.17
1177 Divided aarf domain containing kinase 1. [refseq;acc:nm_020421] 5799.35 6305.95 1.08735
Subtracted rna-binding region containing protein 2 (hepatocellular carcinoma protein 1) (splicing factor hcc1). [swissprot;acc:q14498] 5421.93 5926.08 504.15
1178 Divided pepsin a precursor (ec 3.4.23.1). [swissprot;acc:p00790] 4392.63 4776.19 1.08732
Subtracted myb-related protein a (a-myb). [swissprot;acc:p10243] 5419.18 5922.84 503.66
1179 Divided solute carrier family 20 (phosphate transporter), member 2; glvr-2; pit-2; gibbon ape leukemia virus receptor 2; murine leukemia virus, amphotropic; receptor. [refseq;acc:nm_006749] 4392.63 4776.19 1.08732
Subtracted fibrillarin (34 kda nucleolar scleroderma antigen). [swissprot;acc:p22087] 4019.88 4522.61 502.73
1180 Divided farnesyl pyrophosphate synthetase (fpp synthetase) (fps) (farnesyl diphosphate synthetase) [includes: dimethylallyltransferase (ec 2.5.1.1); geranyltranstransferase (ec 2.5.1.10)]. [swissprot;acc:p14324] 4392.63 4776.19 1.08732
Subtracted tata element modulatory factor (tmf). [swissprot;acc:p82094] 5412.23 5913.4 501.17
1181 Divided protocadherin 15 precursor. [swissprot;acc:q96qu1] 4392.63 4776.19 1.08732
Subtracted scy1-like 1; telomerase regulation-associated protein; ht019 protein; telomerase regulation-associated protein; n-terminal kinase-like protein; teratoma-associated tyrosine kinase; n-terminal kinase-like. [refseq;acc:nm_020680] 5412.23 5913.4 501.17
1182 Divided solute carrier family 20 (phosphate transporter), member 1; glvr-1; pit-1; gibbon ape leukemia virus receptor 1. [refseq;acc:nm_005415] 4392.63 4776.19 1.08732
Subtracted nuclear pore complex protein nup98 (nucleoporin nup98) (98 kda nucleoporin). [swissprot;acc:p52948] 5412.23 5913.4 501.17
1183 Divided lipocalin-interacting membrane receptor. [refseq;acc:nm_018113] 4392.63 4776.19 1.08732
Subtracted ammecr1 protein. [refseq;acc:nm_015365] 5412.23 5913.4 501.17
1184 Divided zinc finger protein gli1 (glioma-associated oncogene) (oncogene gli). [swissprot;acc:p08151] 4392.63 4776.19 1.08732
Subtracted mrna-associated protein mrnp 41 (rae1 protein homolog). [swissprot;acc:p78406] 5412.23 5913.4 501.17
1185 Divided suppressor of fused. [refseq;acc:nm_016169] 4392.63 4776.19 1.08732
Subtracted peroxisomal membrane protein pex14 (peroxin-14) (peroxisomal membrane anchor protein pex14) (pts1 receptor docking protein). [swissprot;acc:o75381] 6522.96 7023.77 500.81
1186 Divided zinc finger protein gli3. [swissprot;acc:p10071] 4392.63 4776.19 1.08732
Subtracted mitochondrial gtp binding protein isoform v. [refseq;acc:nm_032620] 6222.8 6723.54 500.74
1187 Divided limb region 1 protein; limb region 1. [refseq;acc:nm_022458] 4392.63 4776.19 1.08732
Subtracted leucyl-trna synthetase. [refseq;acc:nm_020117] 5417.06 5917.79 500.73
1188 Divided gastricsin precursor (ec 3.4.23.3) (pepsinogen c). [swissprot;acc:p20142] 4392.63 4776.19 1.08732
Subtracted probable leucyl-trna synthetase, mitochondrial precursor (ec 6.1.1.4) (leucine--trna ligase) (leurs). [swissprot;acc:q15031] 5417.07 5917.79 500.72
1189 Divided zinc finger protein gli2 (tax helper protein). [swissprot;acc:p10070] 4392.63 4776.19 1.08732
Subtracted nuclear factor, interleukin 3 regulated. [refseq;acc:nm_005384] 5869.24 6367.8 498.56
1190 Divided mitotic spindle assembly checkpoint protein mad2a (mad2-like 1) (hsmad2). [swissprot;acc:q13257] 6599.84 7174.29 1.08704
Subtracted prefoldin subunit 5 (c-myc binding protein mm-1) (myc modulator 1). [swissprot;acc:q99471] 4982.81 5480.91 498.1
1191 Divided probable cation-transporting atpase 1 (ec 3.6.1.-). [swissprot;acc:q9nq11] 6599.84 7174.29 1.08704
Subtracted prefoldin subunit 6 (protein ke2). [swissprot;acc:o15212] 4982.81 5480.91 498.1
1192 Divided tata box binding protein (transcription initiation factor tfiid) (tata-box factor) (tata sequence-binding protein) (tbp). [swissprot;acc:p20226] 6599.84 7174.29 1.08704
Subtracted immature colon carcinoma transcript 1 (digestion substraction 1) (ds- 1). [swissprot;acc:q14197] 5364.32 5862.09 497.77
1193 Divided putative eukaryotic translation initiation factor 3 subunit (eif-3) (fragment). [swissprot;acc:o75153] 5464.9 5940.16 1.08697
Subtracted sequestosome 1; ubiquitin-binding protein p62; phosphotyrosine independent ligand for the lck sh2 domain p62. [refseq;acc:nm_003900] 6322.75 6820.5 497.75
1194 Divided t-complex protein 1, epsilon subunit (tcp-1-epsilon) (cct-epsilon). [swissprot;acc:p48643] 8425.35 7751.57 1.08692
Subtracted nonspecific lipid-transfer protein, mitochondrial precursor (nsl-tp) (sterol carrier protein 2) (scp-2) (sterol carrier protein x) (scp-x) (scpx). [swissprot;acc:p22307] 6322.75 6820.5 497.75
1195 Divided similar to trna synthetase class ii. [refseq;acc:nm_152268] 5439.56 5911.24 1.08671
Subtracted protein ad-016 (protein cgi-116) (x0009). [swissprot;acc:q9y3c0] 6110.09 6607.81 497.72
1196 Divided kappa b-ras 1. [refseq;acc:nm_020345] 5721.19 6217.2 1.0867
Subtracted tbp-associated factor 9l; neuronal cell death-related protein; taf9-like rna polymerase ii, tata box binding protein (tbp)-associated factor, 31 kd; neuronal cell death-related gene in neuron-7; transcription associated factor tafii31l; transcription initiation factor iid, 31kd subunit. [refseq;acc:nm_015975] 7659.42 8156.79 497.37
1197 Divided i-kappa-b-interacting ras-like protein 2. [refseq;acc:nm_017595] 5721.19 6217.2 1.0867
Subtracted tsc22-related inducible leucine zipper protein 2 (tsc-22-like protein thg-1). [swissprot;acc:q9y3q8] 5873.56 6370.31 496.75
1198 Divided snare associated protein snapin. [refseq;acc:nm_012437] 5721.19 6217.2 1.0867
Subtracted sphingolipid delta 4 desaturase; membrane fatty acid (lipid) desaturase; dihydroceramide desaturase. [refseq;acc:nm_003676] 5873.56 6370.31 496.75
1199 Divided serine hydroxymethyltransferase, mitochondrial precursor (ec 2.1.2.1) (serine methylase) (glycine hydroxymethyltransferase) (shmt). [swissprot;acc:p34897] 5449.48 5921.77 1.08667
Subtracted peptide methionine sulfoxide reductase (ec 1.8.4.6) (protein- methionine-s-oxide reductase) (peptide met(o) reductase). [swissprot;acc:q9uj68] 5489.99 5986.63 496.64
1200 Divided xylulokinase homolog; xylulokinase (h. influenzae) homolog. [refseq;acc:nm_005108] 5950.27 6465.72 1.08663
Subtracted phosphoserine aminotransferase (ec 2.6.1.52) (psat). [swissprot;acc:q9y617] 5489.99 5986.63 496.64

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/