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 601 to 650 of 16578 in total
Value Type  : Measured
Filtered  : 1
Rank
description
Network Comparison Type
Interaction Map
red
green
network_comparison
151 cathepsin z precursor (ec 3.4.22.-) (cathepsin x) (cathepsin p). [swissprot;acc:q9ubr2] Divided Low confidence 7136.14 7751.87 1.08628
core1 udp-galactose:n-acetylgalactosamine-alpha-r beta 1,3-galac. [refseq;acc:nm_020156] Subtracted 10492.4 9804.73 687.67
pre-mrna cleavage complex ii protein clp1. [swissprot;acc:q92989] High confidence 14830.5 13050.3 1780.2
sh2 domain containing 3c; novel sh2-containing protein 3; sh2 domain-containing 3c; likely ortholog of mouse cas/hef1-associated signal transducer. [refseq;acc:nm_005489] Divided 4578.09 5939.91 1.29746
152 high-mobility group 20b; sox-like transcriptional factor; swi/snf-related matrix-associated actin-dependent regulator of chromatin subfamily e, member 1-related. [refseq;acc:nm_006339] Subtracted 5136.78 6895.98 1759.2
melanoma antigen, family d, 4 isoform 1; mage1 protein; mage-e1 protein; maged4 protein. [refseq;acc:nm_030801] Divided 23693.7 18263 1.29736
neurochondrin. [refseq;acc:nm_014284] Subtracted Low confidence 10492.4 9804.73 687.67
nipsnap2 protein (glioblastoma amplified sequence). [swissprot;acc:o75323] Divided 5538.35 6016.13 1.08627
153 hepatocellular carcinoma-associated protein hca3. [refseq;acc:nm_138703] High confidence 23693.7 18263 1.29736
myosin heavy chain, cardiac muscle alpha isoform (myhc-alpha). [swissprot;acc:p13533] Subtracted 9035 7279.6 1755.4
nipsnap1 protein. [swissprot;acc:q9bpw8] Divided Low confidence 5544.97 6022.42 1.08611
ubiquitin-activating enzyme e1c (uba3 homolog, yeast); ubiquitin-activating enzyme e1c (homologous to yeast uba3). [refseq;acc:nm_003968] Subtracted 7628.44 8310.74 682.3
154 beta-arrestin 2 (arrestin, beta 2). [swissprot;acc:p32121] 7692.29 8370.25 677.96
melanoma-associated antigen 3 (mage-3 antigen) (antigen mz2-d). [swissprot;acc:p43357] Divided High confidence 23693.7 18263 1.29736
monocarboxylate transporter 8 (mct 8) (x-linked pest-containing transporter) (mct 7). [swissprot;acc:p36021] Low confidence 10553.9 11452.8 1.08517
myosin heavy chain, skeletal muscle, fetal (myosin heavy chain iib) (myhc-iib). [swissprot;acc:q9y623] Subtracted High confidence 9035 7279.6 1755.4
155 beta-arrestin 1 (arrestin, beta 1). [swissprot;acc:p49407] Low confidence 7693.93 8366.42 672.49
melanoma-associated antigen 11 (mage-11 antigen). [swissprot;acc:p43364] Divided High confidence 23693.7 18263 1.29736
myosin heavy chain, skeletal muscle, perinatal (myhc-perinatal). [swissprot;acc:p13535] Subtracted 9035 7279.6 1755.4
solute carrier family 16 (monocarboxylic acid transporters), member 10; t-type amino acid transporter 1. [refseq;acc:nm_018593] Divided Low confidence 10553.7 11452.6 1.08517
156 melanoma-associated antigen 2 (mage-2 antigen). [swissprot;acc:p43356] High confidence 23693.7 18263 1.29736
myosin heavy chain, skeletal muscle, adult 2 (myosin heavy chain iia) (myhc-iia). [swissprot;acc:q9ukx2] Subtracted 9035 7279.6 1755.4
ras-related gtp binding c; rag c protein. [refseq;acc:nm_022157] Low confidence 9371.08 10040.2 669.12
tho complex 3. [refseq;acc:nm_032361] Divided 7401.51 8028.16 1.08467
157 hepatocellular carcinoma-associated protein hca1. [refseq;acc:nm_020932] High confidence 23693.7 18263 1.29736
high-mobility group 20a. [refseq;acc:nm_018200] Subtracted Low confidence 7248.24 7916.96 668.72
myosin heavy chain, fast skeletal muscle, embryonic (muscle embryonic myosin heavy chain) (smhce). [swissprot;acc:p11055] High confidence 9035 7279.6 1755.4
vacuolar assembly protein vps41 homolog (s53). [swissprot;acc:p49754] Divided Low confidence 7497.17 8131.56 1.08462
158 melanoma-associated antigen 6 (mage-6 antigen) (mage3b). [swissprot;acc:p43360] High confidence 23693.7 18263 1.29736
mitochondrial tumor suppressor gene 1; transcription factor mtsg1; at2 receptor-interacting protein 1; erythroid differentiation-related gene. [refseq;acc:nm_020749] Low confidence 6434.71 6976.28 1.08416
myosin heavy chain, skeletal muscle, adult 1 (myosin heavy chain iix/d) (myhc-iix/d). [swissprot;acc:p12882] Subtracted High confidence 9035 7279.6 1755.4
ubiquitin activating enzyme e1-like protein. [refseq;acc:nm_006395] Low confidence 10491.4 9831.19 660.21
159 brain protein 44. [swissprot;acc:o95563] Divided 10392.1 11259.7 1.08349
myosin heavy chain, cardiac muscle beta isoform (myhc-beta). [swissprot;acc:p12883] Subtracted High confidence 9035 7279.6 1755.4
necdin. [swissprot;acc:q99608] Divided 23693.7 18263 1.29736
son protein (son3) (negative regulatory element-binding protein) (nre- binding protein) (dbp-5) (bax antagonist selected in saccharomyces 1) (bass1) (protein c21orf50). [swissprot;acc:p18583] Subtracted Low confidence 4900.7 5555.81 655.11
160 dj756n5.1.1 (continues in em:al133324 as dj1161h23.3) (fragment). [sptrembl;acc:q9h430] High confidence 9035 7279.6 1755.4
melanoma-associated antigen d1 (mage-d1 antigen) (neurotrophin receptor-interacting mage homolog) (pro2292). [swissprot;acc:q9y5v3] Divided 23693.7 18263 1.29736
methylenetetrahydrofolate reductase (ec 1.5.1.20). [swissprot;acc:p42898] Low confidence 10452.8 11320.8 1.08304
ribosomal protein s6 kinase-like 1. [refseq;acc:nm_031464] Subtracted 7013 7662.77 649.77
161 melanoma-associated antigen f1 (mage-f1 antigen). [swissprot;acc:q9hay2] Divided High confidence 23693.7 18263 1.29736
monocarboxylate transporter 6 (mct 6) (mct 5). [swissprot;acc:o15375] Low confidence 10351.8 11210.8 1.08298
myosin heavy chain, skeletal muscle, extraocular (myhc-eo). [swissprot;acc:q9ukx3] Subtracted High confidence 9035 7279.6 1755.4
ribosomal protein s6 kinase, 52kda, polypeptide 1; ribosomal protein s6 kinase, 52kd, polypeptide 1. [refseq;acc:nm_012424] Low confidence 7020.48 7667.34 646.86
162 cytohesin 1 (sec7 homolog b2-1). [swissprot;acc:q15438] Divided 12424.3 11472.3 1.08298
gaba-a receptor-associated protein. [sptrembl;acc:q9by60] Subtracted 10519.4 9877.88 641.52
high-mobility group 20a. [refseq;acc:nm_018200] High confidence 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

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/