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.


Navigation/Query Panel:
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 [...,...].
Value Type Rank Gene description Network Comparison Type Interaction Map Filtered red green network_comparison
Results: HTML CSV LaTeX Showing element 630 to 679 of 29840 in total
Value Type  : Measured
Interaction Map  : High confidence
Rank
description
Network Comparison Type
Filtered
red
green
network_comparison
158 guanine nucleotide-binding protein beta subunit-like protein 12.3 (p205) (receptor of activated protein kinase c 1) (rack1) (receptor for activated c kinase). [swissprot;acc:p25388] Divided 0 1283.48 1649.37 1.28508
melanoma-associated antigen 6 (mage-6 antigen) (mage3b). [swissprot;acc:p43360] 1 23693.7 18263 1.29736
myosin heavy chain, skeletal muscle, adult 1 (myosin heavy chain iix/d) (myhc-iix/d). [swissprot;acc:p12882] Subtracted 9035 7279.6 1755.4
159 lipocalin-interacting membrane receptor. [refseq;acc:nm_018113] Divided 0 734.025 574.372 1.27796
mto1 protein homolog (cgi-02). [swissprot;acc:q9y2z2] Subtracted 1002.2 793.818 208.382
myosin heavy chain, cardiac muscle beta isoform (myhc-beta). [swissprot;acc:p12883] 1 9035 7279.6 1755.4
necdin. [swissprot;acc:q99608] Divided 23693.7 18263 1.29736
160 bystin. [swissprot;acc:q13895] Subtracted 0 2930.88 3135.76 204.88
dj756n5.1.1 (continues in em:al133324 as dj1161h23.3) (fragment). [sptrembl;acc:q9h430] 1 9035 7279.6 1755.4
huntingtin interacting protein c. [refseq;acc:nm_012272] Divided 0 1653.74 1296.38 1.27566
melanoma-associated antigen d1 (mage-d1 antigen) (neurotrophin receptor-interacting mage homolog) (pro2292). [swissprot;acc:q9y5v3] 1 23693.7 18263 1.29736
161 glutamine synthetase (ec 6.3.1.2) (glutamate--ammonia ligase). [swissprot;acc:p15104] Subtracted 0 1230.54 1026.18 204.36
glycine cleavage system h protein, mitochondrial precursor. [swissprot;acc:p23434] Divided 903.767 1152.06 1.27473
melanoma-associated antigen f1 (mage-f1 antigen). [swissprot;acc:q9hay2] 1 23693.7 18263 1.29736
myosin heavy chain, skeletal muscle, extraocular (myhc-eo). [swissprot;acc:q9ukx3] Subtracted 9035 7279.6 1755.4
162 60s ribosomal protein l23 (l17). [swissprot;acc:p23131] 0 1753.85 1956.36 202.51
cysteine endopeptidase aut-like 2 isoform a; autophagy-related cysteine endopeptidase 2; autophagin 2. [refseq;acc:nm_052936] Divided 5734.28 7252.02 1.26468
high-mobility group 20a. [refseq;acc:nm_018200] Subtracted 1 5140.14 6893.53 1753.39
melanoma antigen, family b, 6. [refseq;acc:nm_173523] Divided 23693.7 18263 1.29736
163 likely ortholog of mouse variant polyadenylation protein cstf-64. [refseq;acc:nm_015235] Subtracted 14976.4 13246.6 1729.8
melanoma-associated antigen 4 (mage-4 antigen) (mage-x2) (mage-41). [swissprot;acc:p43358] Divided 23693.7 18263 1.29736
myosin va (myosin 5a) (dilute myosin heavy chain, non-muscle) (myosin heavy chain 12) (myoxin). [swissprot;acc:q9y4i1] 0 7830.62 6193.07 1.26442
rna polymerase i transcription factor rrn3. [refseq;acc:nm_018427] Subtracted 814.485 613.614 200.871
164 1,4-alpha-glucan branching enzyme (ec 2.4.1.18) (glycogen branching enzyme) (brancher enzyme). [swissprot;acc:q04446] 1 4489.19 2765.82 1723.37
aquaporin-cd (aqp-cd) (water channel protein for renal collecting duct) (adh water channel) (aquaporin 2) (collecting duct water channel protein) (wch-cd). [swissprot;acc:p41181] Divided 0 1711.55 1354.26 1.26383
melanoma-associated antigen 9 (mage-9 antigen). [swissprot;acc:p43362] 1 23693.7 18263 1.29736
putative eukaryotic translation initiation factor 1a (eif-1a) (eif- 4c). [swissprot;acc:o75642] Subtracted 0 1475.83 1676.18 200.35
165 glycogen phosphorylase, brain form (ec 2.4.1.1). [swissprot;acc:p11216] 1 4489.19 2765.82 1723.37
melanoma-associated antigen 8 (mage-8 antigen). [swissprot;acc:p43361] Divided 23693.7 18263 1.29736
mto1 protein homolog (cgi-02). [swissprot;acc:q9y2z2] 0 1002.2 793.818 1.26251
prefoldin subunit 3 (von hippel-lindau binding protein 1) (vhl binding protein-1) (vbp-1) (hibbj46). [swissprot;acc:q15765] Subtracted 293 493 200
166 cysteine endopeptidase aut-like isoform b. [refseq;acc:nm_178326] Divided 5629.62 7099.51 1.2611
glycogen phosphorylase, liver form (ec 2.4.1.1). [swissprot;acc:p06737] Subtracted 1 4489.19 2765.82 1723.37
melanoma-associated antigen c1 (mage-c1 antigen) (cancer-testis antigen ct7). [swissprot;acc:o60732] Divided 23693.7 18263 1.29736
zinc finger protein slug (neural crest transcription factor slug) (snail homolog 2). [swissprot;acc:o43623] Subtracted 0 320.012 120.429 199.583
167 daz associated protein 1 isoform b; deleted in azoospermia associated protein 1. [refseq;acc:nm_018959] 671.769 472.945 198.824
melanoma-associated antigen 12 (mage-12 antigen) (mage12f). [swissprot;acc:p43365] Divided 1 23693.7 18263 1.29736
myosin xv (unconventional myosin-15). [swissprot;acc:q9ukn7] Subtracted 4489.19 2765.82 1723.37
transcription factor mafk (erythroid transcription factor nf-e2 p18 subunit). [swissprot;acc:o60675] Divided 0 331.61 417.983 1.26047
168 glycogen phosphorylase, muscle form (ec 2.4.1.1) (myophosphorylase). [swissprot;acc:p11217] Subtracted 1 4489.19 2765.82 1723.37
melanoma-associated antigen 1 (mage-1 antigen) (antigen mz2-e). [swissprot;acc:p43355] Divided 23693.7 18263 1.29736
serpin b12. [swissprot;acc:q96p63] Subtracted 0 199.549 5.56738 193.982
transcription factor mafg (v-maf musculoaponeurotic fibrosarcoma oncogene homolog g) (hmaf). [swissprot;acc:o15525] Divided 334.012 420.355 1.2585
169 formin binding protein 3; fas-ligand associated factor 1; huntingtin-interacting protein a; ny-ren-6 antigen. [refseq;acc:nm_017892] Subtracted 1 4245.52 5942.75 1697.23
gaba-a receptor-associated protein. [sptrembl;acc:q9by60] Divided 0 244 194 1.25773
hurpin (hacat uv-repressible serpin) (protease inhibitor 13) (headpin) (serpin b13). [swissprot;acc:q9uiv8] Subtracted 199.249 5.71669 193.532
melanoma-associated antigen 10 (mage-10 antigen). [swissprot;acc:p43363] Divided 1 23693.7 18263 1.29736
170 alpha-parvin (calponin-like integrin-linked kinase binding protein) (ch-ilkbp). [swissprot;acc:q9nvd7] Subtracted 0 668 475 193
huntingtin-interacting protein hypa/fbp11 (fragment). [sptrembl;acc:o75404] 1 4247.86 5941.88 1694.02
melanoma-associated antigen b1 (mage-b1 antigen) (mage-xp antigen) (dss-ahc critical interval mage superfamily 10) (dam10). [swissprot;acc:p43366] Divided 23693.7 18263 1.29736

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/