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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Click on the attribute name to hide/unhide it. The green arrows can be used to shift columns left/right. Exact word match is written as =..., regular expressions can be matched with ~.... To select all values larger or equal than use >.... This would be <... for values smaller or equal than. To select all values within a specific range use [...,...].
Rank Value Type Gene description Network Comparison Type Interaction Map red Filtered green network_comparison
Results: HTML CSV LaTeX Showing element 3180 to 3229 of 12912 in total
Network Comparison Type  : Divided
Interaction Map  : High confidence
Filtered  : 1
Rank
Value Type
description
red
green
network_comparison
795 Rooted polymerase (rna) iii (dna directed) (62kd). [refseq;acc:nm_006468] 52.1577 48.9787 1.06491
796 Measured nuclear receptor co-repressor/hdac3 complex subunit tblr1 (tbl1- related protein 1). [swissprot;acc:q9bzk7] 6834.54 7590.49 1.11061
Ranked placental thrombin inhibitor (cytoplasmic antiproteinase) (cap) (protease inhibitor 6) (pi-6). [swissprot;acc:p35237] 224.244 234.511 1.04578
Squared xpmc2 prevents mitotic catastrophe 2 homolog; xenopus prevents mitotic catastrophe 2 homolog. [refseq;acc:nm_020385] 25842.1 30093.4 1.16451
Rooted set domain and mariner transposase fusion gene. [refseq;acc:nm_006515] 54.765 51.4319 1.06481
797 Measured importin beta-1 subunit (karyopherin beta-1 subunit) (nuclear factor p97) (importin 90). [swissprot;acc:q14974] 6834.54 7590.49 1.11061
Ranked cytoplasmic antiproteinase 2 (cap2) (cap-2) (protease inhibitor 8) (serpin b8). [swissprot;acc:p50452] 224.244 234.511 1.04578
Squared limbic system-associated membrane protein precursor (lsamp). [swissprot;acc:q13449] 22535.2 26238.4 1.16433
Rooted structure-specific recognition protein 1 (ssrp1) (recombination signal sequence recognition protein) (t160) (chromatin-specific transcription elongation factor 80 kda subunit) (fact 80 kda subunit). [swissprot;acc:q08945] 54.1622 57.6725 1.06481
798 Measured transducin beta-like 1x protein (transducin-beta-like 1, x-linked). [swissprot;acc:o60907] 6834.54 7590.49 1.11061
Ranked leukocyte elastase inhibitor (lei) (monocyte/neutrophil elastase inhibitor) (m/nei) (ei). [swissprot;acc:p30740] 224.244 234.511 1.04578
Squared opioid binding protein/cell adhesion molecule precursor (obcam) (opioid-binding cell adhesion molecule) (opcml). [swissprot;acc:q14982] 22587.2 26296.1 1.1642
Rooted cd209 antigen-like; putative type ii membrane protein. [refseq;acc:nm_014257] 54.765 51.4319 1.06481
799 Measured transducin beta-like 1y protein (transducin-beta-like 1, y-linked). [swissprot;acc:q9bq87] 6834.54 7590.49 1.11061
Ranked sequestosome 1; ubiquitin-binding protein p62; phosphotyrosine independent ligand for the lck sh2 domain p62. [refseq;acc:nm_003900] 221.965 212.404 1.04501
Squared neurotrimin precursor (hnt). [swissprot;acc:q9p121] 22623.7 26336.8 1.16412
Rooted low affinity immunoglobulin epsilon fc receptor (lymphocyte ige receptor) (fc-epsilon-rii) (cd23) (blast-2) (immunoglobulin e-binding factor). [swissprot;acc:p06734] 54.765 51.4319 1.06481
800 Measured orphan nuclear receptor nr6a1 (germ cell nuclear factor) (gcnf) (retinoid receptor-related testis specific receptor) (rtr). [swissprot;acc:q15406] 6075.55 6746.92 1.1105
Ranked nonspecific lipid-transfer protein, mitochondrial precursor (nsl-tp) (sterol carrier protein 2) (scp-2) (sterol carrier protein x) (scp-x) (scpx). [swissprot;acc:p22307] 221.965 212.404 1.04501
Squared phosphomannomutase 2 (ec 5.4.2.8) (pmm 2). [swissprot;acc:o15305] 22210.6 25839.9 1.1634
Rooted chromatin-specific transcription elongation factor large subunit. [refseq;acc:nm_007192] 54.1622 57.6725 1.06481
801 Measured importin alpha-3 subunit (karyopherin alpha-3 subunit) (srp1-gamma). [swissprot;acc:o00505] 6456.35 7169.75 1.1105
Ranked beta-catenin (pro2286). [swissprot;acc:p35222] 224.445 214.894 1.04445
Squared phosphomannomutase 1 (ec 5.4.2.8) (pmm 1) (pmmh-22). [swissprot;acc:q92871] 22208.7 25833.6 1.16322
Rooted cd209 antigen; dendritic cell-specific icam3-grabbing nonintegrin. [refseq;acc:nm_021155] 54.765 51.4319 1.06481
802 Measured target of egr1, member 1 (nuclear); target of egr1, member 1. [refseq;acc:nm_025077] 6455.66 7168.82 1.11047
Ranked testis-specific protein tex28. [swissprot;acc:o15482] 212.386 221.785 1.04425
Squared pre-mrna processing factor 31 homolog; pre-mrna processing factor 31 homolog (yeast). [refseq;acc:nm_015629] 20131.3 23416.5 1.16319
Rooted 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] 54.6759 51.3516 1.06474
803 Measured importin alpha-4 subunit (karyopherin alpha-4 subunit) (qip1 protein). [swissprot;acc:o00629] 6455.02 7167.96 1.11045
Ranked similar to nuclear protein e3-3 orf1. [sptrembl;acc:q9bu61] 212.386 221.785 1.04425
Squared bifunctional aminoacyl-trna synthetase [includes: glutamyl-trna synthetase (ec 6.1.1.17) (glutamate--trna ligase); prolyl-trna synthetase (ec 6.1.1.15) (proline--trna ligase)]. [swissprot;acc:p07814] 22573.3 26254.5 1.16308
Rooted tfiih basal transcription factor complex p62 subunit (basic transcription factor 62 kda subunit) (btf2-p62) (general transcription factor iih polypeptide 1). [swissprot;acc:p32780] 54.6759 51.3516 1.06474
804 Measured nadh-ubiquinone oxidoreductase b22 subunit (ec 1.6.5.3) (ec 1.6.99.3) (complex i-b22) (ci-b22). [swissprot;acc:q9y6m9] 6770.78 7517.97 1.11036
Ranked a kindred of iglon. [refseq;acc:nm_173808] 212.386 221.785 1.04425
Squared transketolase-like 1 (ec 2.2.1.1) (transketolase 2) (tk 2) (transketolase related protein). [swissprot;acc:p51854] 24954.5 29022.6 1.16302
Rooted 1-acyl-sn-glycerol-3-phosphate acyltransferase beta (ec 2.3.1.51) (1- agp acyltransferase 2) (1-agpat 2) (lysophosphatidic acid acyltransferase-beta) (lpaat-beta) (1-acylglycerol-3-phosphate o- acyltransferase 2). [swissprot;acc:o15120] 74.3877 79.1931 1.0646
805 Measured 60s ribosomal protein l39. [swissprot;acc:p02404] 4708.61 5226.71 1.11003
Ranked ankyrin-repeat family a protein 2 (rfxank-like 2). [swissprot;acc:q9h9e1] 212.386 221.785 1.04425
Squared dna polymerase epsilon, catalytic subunit a (ec 2.7.7.7) (dna polymerase ii subunit a). [swissprot;acc:q07864] 15384.8 17890 1.16284
Rooted 1-acyl-sn-glycerol-3-phosphate acyltransferase alpha (ec 2.3.1.51) (1- agp acyltransferase 1) (1-agpat 1) (lysophosphatidic acid acyltransferase-alpha) (lpaat-alpha) (1-acylglycerol-3-phosphate o- acyltransferase 1) (g15 protein). [swissprot;acc:q99943] 74.3557 79.1513 1.0645
806 Measured 60s ribosomal protein l18a. [swissprot;acc:q02543] 4708.61 5226.71 1.11003
Ranked inflammation-related g protein-coupled receptor ex33. [refseq;acc:nm_020370] 212.386 221.785 1.04425
Squared inositol-1(or 4)-monophosphatase (ec 3.1.3.25) (impase) (imp) (inositol monophosphatase) (lithium-sensitive myo-inositol monophosphatase a1). [swissprot;acc:p29218] 25555.4 29715.4 1.16278
Rooted 40s ribosomal protein s26. [swissprot;acc:p02383] 62.4161 58.6426 1.06435
807 Measured 40s ribosomal protein s19. [swissprot;acc:p39019] 4708.61 5226.71 1.11003
Ranked palmitoyl-protein thioesterase 1 precursor (ec 3.1.2.22) (palmitoyl- protein hydrolase 1). [swissprot;acc:p50897] 212.386 221.785 1.04425
Squared inositol-1(or 4)-monophosphatase 2 (ec 3.1.3.25) (impase 2) (imp 2) (inositol monophosphatase 2) (myo-inositol monophosphatase a2). [swissprot;acc:o14732] 25560.1 29720.6 1.16277
Rooted mitochondrial import inner membrane translocase subunit tim22. [swissprot;acc:q9y584] 62.416 58.6426 1.06435
808 Measured 60s ribosomal protein l31. [swissprot;acc:p12947] 4708.61 5226.71 1.11003

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/