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 Gene description Value Type Network Comparison Type Interaction Map Filtered red green network_comparison
Results: HTML CSV LaTeX Showing element 25776 to 25825 of 29840 in total
Interaction Map  : High confidence
Filtered  : 1
Rank
description
Value Type
Network Comparison Type
red
green
network_comparison
2720 microtubule-associated protein rp/eb family member 3 (protein eb3). [swissprot;acc:q9upy8] Ranked Divided 216.52 216.633 1.00052
2721 bag-family molecular chaperone regulator-2. [swissprot;acc:o95816] Squared 45034.4 44464 1.01283
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] Ranked 221.022 221.116 1.00043
Subtracted 0.094
block 23. [sptrembl;acc:q8nhw5] Rooted Divided 58.3407 58.4056 1.00111
glutamate dehydrogenase 2, mitochondrial precursor (ec 1.4.1.3) (gdh). [swissprot;acc:p49448] Subtracted 67.416 67.4829 0.0669
guanine nucleotide-binding protein g(i), alpha-2 subunit (adenylate cyclase-inhibiting g alpha protein). [swissprot;acc:p04899] Squared 2613.69 2366.62 247.07
oligophrenin-1 like protein (gtpase regulator associated with focal adhesion kinase). [swissprot;acc:q9una1] Measured 3953.53 3972.32 18.79
syntaxin 1a (neuron-specific antigen hpc-1). [swissprot;acc:q16623] Divided 5603.24 5583.64 1.00351
2722 alpha-soluble nsf attachment protein (snap-alpha) (n-ethylmaleimide- sensitive factor attachment protein, alpha). [swissprot;acc:p54920]
glutamate dehydrogenase 1, mitochondrial precursor (ec 1.4.1.3) (gdh). [swissprot;acc:p00367] Rooted Subtracted 67.416 67.4829 0.0669
guanine nucleotide-binding protein g(i), alpha-1 subunit (adenylate cyclase-inhibiting g alpha protein). [swissprot;acc:p04898] Squared 2614.02 2367 247.02
pre-b-cell leukemia transcription factor-2 (homeobox protein pbx2) (g17 protein). [swissprot;acc:p40425] Divided 45034.4 44464 1.01283
senescence marker protein-30 (smp-30) (regucalcin) (rc). [swissprot;acc:q15493] Measured Subtracted 3953.53 3972.32 18.79
similar to ribosomal protein, large, p0. [sptrembl;acc:q96fq9] Rooted Divided 58.3343 58.3966 1.00107
transducin beta-like 2 protein (ws beta-transducin repeats protein) (ws-betatrp) (williams-beuren syndrome chromosome region 13 protein). [swissprot;acc:q9y4p3] Ranked 219.308 219.214 1.00043
Subtracted 0.094
2723 adipocyte plasma membrane-associated protein (bscv protein). [swissprot;acc:q9hdc9] Measured Divided 5603.24 5583.64 1.00351
guanine nucleotide-binding protein g(k), alpha subunit (g(i) alpha-3). [swissprot;acc:p08754] Squared Subtracted 2614.02 2367 247.02
lamin b2. [swissprot;acc:q03252] Ranked Divided 219.323 219.413 1.00041
Subtracted 0.09
oligophrenin 1. [swissprot;acc:o60890] Measured 3953.53 3972.32 18.79
pre-b-cell leukemia transcription factor 4. [refseq;acc:nm_025245] Squared Divided 45034.4 44464 1.01283
succinate dehydrogenase [ubiquinone] flavoprotein subunit, mitochondrial precursor (ec 1.3.5.1) (fp) (flavoprotein subunit of complex ii). [swissprot;acc:p31040] Rooted 64.3749 64.3084 1.00103
Subtracted 0.0665
2724 dead/h (asp-glu-ala-asp/his) box polypeptide 11; dead/h box-11 (chl1-related helicase gene-1); yeast chl1 homolog. [refseq;acc:nm_030655] 72.5366 72.603 0.0664
glutamate dehydrogenase 2, mitochondrial precursor (ec 1.4.1.3) (gdh). [swissprot;acc:p49448] Divided 67.416 67.4829 1.00099
guanine nucleotide-binding protein beta subunit 5 (transducin beta chain 5). [swissprot;acc:o14775] Squared Subtracted 2834 2624.64 209.36
heat shock protein hsp 90-beta (hsp 84) (hsp 90). [swissprot;acc:p08238] Ranked Divided 221.053 220.963 1.00041
Subtracted 0.09
homeobox protein meis3 (meis1-related protein 2) (fragment). [swissprot;acc:q99687] Squared Divided 45034.4 44464 1.01283
n-acetyllactosaminide beta-1,3-n-acetylglucosaminyltransferase (ec 2.4.1.149) (poly-n-acetyllactosamine extension enzyme) (i-beta- 1,3-n-acetylglucosaminyltransferase) (ignt) (udp-glcnac:betagal beta- 1,3-n-acetylglucosaminyltransferase 6). [swissprot;acc:o43505] Measured Subtracted 5332.98 5351.72 18.74
synaptosomal-associated protein 29 (snap-29) (vesicle-membrane fusion protein snap-29) (soluble 29 kda nsf attachment protein). [swissprot;acc:o95721] Divided 5603.24 5583.64 1.00351
2725 doublecortin (lissencephalin-x) (lis-x) (doublin). [swissprot;acc:o43602] Ranked 216.496 216.569 1.00034
germ cell-less. [refseq;acc:nm_022471] Squared 45030.7 44461 1.01281
glutamate dehydrogenase 1, mitochondrial precursor (ec 1.4.1.3) (gdh). [swissprot;acc:p00367] Rooted 67.416 67.4829 1.00099
helicase (fragment). [sptrembl;acc:q92771] Subtracted 72.5359 72.6019 0.066
huntingtin interacting protein e; huntingtin interactor protein e. [refseq;acc:nm_007076] Measured 5332.98 5351.72 18.74
peroxisomal targeting signal 2 receptor (pts2 receptor) (peroxin-7). [swissprot;acc:o00628] Squared 34173.9 33979.8 194.1
rad17 homolog isoform 1; rad17-like protein; cell cycle checkpoint protein (rad17); rf-c activator 1 homolog. [refseq;acc:nm_002873] Ranked 221.001 220.927 0.074
syntaxin 1b. [swissprot;acc:q15531] Measured Divided 5603.24 5583.64 1.00351
2726 adapter-related protein complex 3 beta 1 subunit (beta-adaptin 3a) (ap-3 complex beta-3a subunit) (beta-3a-adaptin). [swissprot;acc:o00203] Squared 30233.2 29898.1 1.01121
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] Ranked Subtracted 221.001 220.927 0.074
b-cell cll/lymphoma 6, member b (zinc finger protein); zinc finger protein 62. [refseq;acc:nm_181844] Rooted 78.2048 78.1394 0.0654
fumarate hydratase, mitochondrial precursor (ec 4.2.1.2) (fumarase). [swissprot;acc:p07954] Measured Divided 5332.98 5351.72 1.00351
mitochondrial import inner membrane translocase subunit tim10. [swissprot;acc:q9y5j8] Subtracted 18.74
rad17 homolog isoform 1; rad17-like protein; cell cycle checkpoint protein (rad17); rf-c activator 1 homolog. [refseq;acc:nm_002873] Ranked Divided 221.001 220.927 1.00033
serine palmitoyltransferase 2 (ec 2.3.1.50) (long chain base biosynthesis protein 2) (lcb 2) (serine-palmitoyl-coa transferase 2) (spt 2). [swissprot;acc:o15270] Rooted 66.27 66.332 1.00094
zinc finger protein 288 (dendritic-derived btb/poz zinc finger protein). [swissprot;acc:q9hc78] Squared Subtracted 34173 33979.3 193.7
2727 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] Ranked Divided 221.001 220.927 1.00033

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/