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 351 to 400 of 16578 in total
Value Type  : Ranked
Filtered  : 1
Rank
description
Network Comparison Type
Interaction Map
red
green
network_comparison
88 potassium voltage-gated channel, shal-related subfamily, member 1; shal-type potassium channel; voltage-gated potassium channel kv4.1. [refseq;acc:nm_004979] Divided Low confidence 225.428 244.701 1.0855
regulator of g-protein signaling 19 (rgs19) (g-alpha interacting protein) (gaip protein). [swissprot;acc:p49795] Subtracted High confidence 249.663 298.263 48.6
89 melanoma-associated antigen 6 (mage-6 antigen) (mage3b). [swissprot;acc:p43360] Divided 88.2482 110.265 1.24949
putative rna-binding protein 15 (rna binding motif protein 15) (one-twenty two protein). [swissprot;acc:q96t37] Subtracted 249.663 298.263 48.6
retinoblastoma-associated factor 600. [refseq;acc:nm_020765] Low confidence 165.535 149.799 15.736
star-related lipid transfer protein 7 (stard7) (start domain- containing protein 7) (gtt1 protein). [swissprot;acc:q9nqz5] Divided 228.743 210.764 1.0853
90 necdin. [swissprot;acc:q99608] High confidence 88.2482 110.265 1.24949
neuralized-like. [refseq;acc:nm_004210] Subtracted Low confidence 232.704 216.996 15.708
regulator of g-protein signaling 20 (rgs20) (regulator of gz- selective protein signaling 1) (gz-selective gtpase-activating protein) (g(z)gap). [swissprot;acc:o76081] High confidence 249.663 298.263 48.6
tbp-associated factor 2; taf2 rna polymerase ii, tata box binding protein (tbp)-associated factor, 150 kd; tata box binding protein (tbp)-associated factor, rna polymerase ii, b, 150kd; cofactor of initiator function, 150kd subunit. [refseq;acc:nm_003184] Divided Low confidence 237.567 219.229 1.08365
91 melanoma-associated antigen d1 (mage-d1 antigen) (neurotrophin receptor-interacting mage homolog) (pro2292). [swissprot;acc:q9y5v3] High confidence 88.2482 110.265 1.24949
mouse mammary turmor virus receptor homolog 1. [refseq;acc:nm_152832] Subtracted Low confidence 227.429 211.97 15.459
oligophrenin 1. [swissprot;acc:o60890] Divided 233.837 215.973 1.08271
transcription factor lbx1. [swissprot;acc:p52954] Subtracted High confidence 249.663 298.263 48.6
92 melanoma-associated antigen f1 (mage-f1 antigen). [swissprot;acc:q9hay2] Divided 88.2482 110.265 1.24949
mosaic protein lgn. [swissprot;acc:p81274] Subtracted 249.663 298.263 48.6
oligophrenin-1 like protein (gtpase regulator associated with focal adhesion kinase). [swissprot;acc:q9una1] Divided Low confidence 233.592 215.846 1.08222
transcription factor e2f1 (e2f-1) (retinoblastoma binding protein 3) (rbbp-3) (prb-binding protein e2f-1) (pbr3) (retinoblastoma-associated protein 1) (rbap-1). [swissprot;acc:q01094] Subtracted 220.497 205.364 15.133
93 dab2 interacting protein; ngap-like protein; doc-2/dab2 interactive protein. [refseq;acc:nm_032552] Divided 247.334 228.84 1.08082
melanoma antigen, family b, 6. [refseq;acc:nm_173523] High confidence 88.2482 110.265 1.24949
regulator of g-protein signaling 17 (rgs17). [swissprot;acc:q9ugc6] Subtracted 249.663 298.263 48.6
transcription factor e2f2 (e2f-2). [swissprot;acc:q14209] Low confidence 220.497 205.364 15.133
94 adiponectin receptor 2. [refseq;acc:nm_024551] 219.277 204.212 15.065
guanine nucleotide-binding protein g(o), alpha subunit 1. [swissprot;acc:p09471] High confidence 249.663 298.263 48.6
melanoma-associated antigen 4 (mage-4 antigen) (mage-x2) (mage-41). [swissprot;acc:p43358] Divided 88.2482 110.265 1.24949
ras gtpase-activating protein ngap (ras protein activator like 1). [swissprot;acc:q9ujf2] Low confidence 247.087 228.693 1.08043
95 amino acid transporter xat2; likely ortholog of mouse aspartate/glutamate transporter 1 (agt1). [refseq;acc:nm_138817] 200.497 185.679 1.0798
Subtracted 14.818
melanoma-associated antigen 9 (mage-9 antigen). [swissprot;acc:p43362] Divided High confidence 88.2482 110.265 1.24949
rap1 gtpase-activating protein 1 (rap1gap). [swissprot;acc:p47736] Subtracted 249.663 298.263 48.6
96 cyclic-amp-dependent transcription factor atf-3 (activating transcription factor 3). [swissprot;acc:p18847] 201.949 153.671 48.278
melanoma-associated antigen 8 (mage-8 antigen). [swissprot;acc:p43361] Divided 88.2482 110.265 1.24949
y+l amino acid transporter 1 (y(+)l-type amino acid transporter 1) (y+lat-1) (y+lat1) (monocyte amino acid permease 2) (mop-2). [swissprot;acc:q9um01] Low confidence 200.497 185.679 1.0798
Subtracted 14.818
97 amyloid beta a4 precursor protein-binding family a member 1 (neuron- specific x11 protein) (neuronal munc18-1-interacting protein 1) (mint-1) (adapter protein x11alpha). [swissprot;acc:q02410] High confidence 271.752 225.68 46.072
cystine/glutamate transporter (amino acid transport system xc-) (xct) (calcium channel blocker resistance protein ccbr1). [swissprot;acc:q9upy5] Divided Low confidence 200.497 185.679 1.0798
Subtracted 14.818
melanoma-associated antigen c1 (mage-c1 antigen) (cancer-testis antigen ct7). [swissprot;acc:o60732] Divided High confidence 88.2482 110.265 1.24949
98 melanoma-associated antigen 12 (mage-12 antigen) (mage12f). [swissprot;acc:p43365]
proto-oncogene protein c-fos (cellular oncogene fos) (g0/g1 switch regulatory protein 7). [swissprot;acc:p01100] Subtracted 204.641 160.957 43.684
solute carrier family 7 (cationic amino acid transporter, y+ system), member 6. [refseq;acc:nm_003983] Divided Low confidence 200.497 185.679 1.0798
Subtracted 14.818
99 eukaryotic translation initiation factor 4b (eif-4b). [swissprot;acc:p23588] Divided 1.0798
Subtracted 14.818
jun dimerization protein. [refseq;acc:nm_130469] High confidence 204.641 160.957 43.684
melanoma-associated antigen 1 (mage-1 antigen) (antigen mz2-e). [swissprot;acc:p43355] Divided 88.2482 110.265 1.24949
100 b(0,+)-type amino acid transporter 1 (b(0,+)at) (glycoprotein- associated amino acid transporter b0,+at1). [swissprot;acc:p82251] Low confidence 200.497 185.679 1.0798
Subtracted 14.818
fos-related antigen 2. [swissprot;acc:p15408] High confidence 204.641 161.046 43.595
melanoma-associated antigen 10 (mage-10 antigen). [swissprot;acc:p43363] Divided 88.2482 110.265 1.24949

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/