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 301 to 350 of 6456 in total
Value Type  : Measured
Interaction Map  : High confidence
Filtered  : 1
Rank
description
Network Comparison Type
red
green
network_comparison
151 pre-mrna cleavage complex ii protein clp1. [swissprot;acc:q92989] Subtracted 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
153 hepatocellular carcinoma-associated protein hca3. [refseq;acc:nm_138703]
myosin heavy chain, cardiac muscle alpha isoform (myhc-alpha). [swissprot;acc:p13533] Subtracted 9035 7279.6 1755.4
154 melanoma-associated antigen 3 (mage-3 antigen) (antigen mz2-d). [swissprot;acc:p43357] Divided 23693.7 18263 1.29736
myosin heavy chain, skeletal muscle, fetal (myosin heavy chain iib) (myhc-iib). [swissprot;acc:q9y623] Subtracted 9035 7279.6 1755.4
155 melanoma-associated antigen 11 (mage-11 antigen). [swissprot;acc:p43364] Divided 23693.7 18263 1.29736
myosin heavy chain, skeletal muscle, perinatal (myhc-perinatal). [swissprot;acc:p13535] Subtracted 9035 7279.6 1755.4
156 melanoma-associated antigen 2 (mage-2 antigen). [swissprot;acc:p43356] Divided 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
157 hepatocellular carcinoma-associated protein hca1. [refseq;acc:nm_020932] Divided 23693.7 18263 1.29736
myosin heavy chain, fast skeletal muscle, embryonic (muscle embryonic myosin heavy chain) (smhce). [swissprot;acc:p11055] Subtracted 9035 7279.6 1755.4
158 melanoma-associated antigen 6 (mage-6 antigen) (mage3b). [swissprot;acc:p43360] Divided 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 myosin heavy chain, cardiac muscle beta isoform (myhc-beta). [swissprot;acc:p12883]
necdin. [swissprot;acc:q99608] Divided 23693.7 18263 1.29736
160 dj756n5.1.1 (continues in em:al133324 as dj1161h23.3) (fragment). [sptrembl;acc:q9h430] Subtracted 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
161 melanoma-associated antigen f1 (mage-f1 antigen). [swissprot;acc:q9hay2]
myosin heavy chain, skeletal muscle, extraocular (myhc-eo). [swissprot;acc:q9ukx3] Subtracted 9035 7279.6 1755.4
162 high-mobility group 20a. [refseq;acc:nm_018200] 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
164 1,4-alpha-glucan branching enzyme (ec 2.4.1.18) (glycogen branching enzyme) (brancher enzyme). [swissprot;acc:q04446] Subtracted 4489.19 2765.82 1723.37
melanoma-associated antigen 9 (mage-9 antigen). [swissprot;acc:p43362] Divided 23693.7 18263 1.29736
165 glycogen phosphorylase, brain form (ec 2.4.1.1). [swissprot;acc:p11216] Subtracted 4489.19 2765.82 1723.37
melanoma-associated antigen 8 (mage-8 antigen). [swissprot;acc:p43361] Divided 23693.7 18263 1.29736
166 glycogen phosphorylase, liver form (ec 2.4.1.1). [swissprot;acc:p06737] Subtracted 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
167 melanoma-associated antigen 12 (mage-12 antigen) (mage12f). [swissprot;acc:p43365]
myosin xv (unconventional myosin-15). [swissprot;acc:q9ukn7] Subtracted 4489.19 2765.82 1723.37
168 glycogen phosphorylase, muscle form (ec 2.4.1.1) (myophosphorylase). [swissprot;acc:p11217]
melanoma-associated antigen 1 (mage-1 antigen) (antigen mz2-e). [swissprot;acc:p43355] Divided 23693.7 18263 1.29736
169 formin binding protein 3; fas-ligand associated factor 1; huntingtin-interacting protein a; ny-ren-6 antigen. [refseq;acc:nm_017892] Subtracted 4245.52 5942.75 1697.23
melanoma-associated antigen 10 (mage-10 antigen). [swissprot;acc:p43363] Divided 23693.7 18263 1.29736
170 huntingtin-interacting protein hypa/fbp11 (fragment). [sptrembl;acc:o75404] Subtracted 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
171 dj820b18.1 (similar to nuclear cap binding protein) (fragment). [sptrembl;acc:q8wwk2] Subtracted 4117.67 5801.04 1683.37
melanoma-associated antigen d2 (mage-d2 antigen) (breast cancer associated gene 1 protein) (bcg-1) (11b6) (hepatocellular carcinoma associated protein jcl-1). [swissprot;acc:q9unf1] Divided 23693.7 18263 1.29736
172 serine/threonine protein phosphatase 2a, 55 kda regulatory subunit b, alpha isoform (pp2a, subunit b, b-alpha isoform) (pp2a, subunit b, b55-alpha isoform) (pp2a, subunit b, pr55-alpha isoform) (pp2a, subunit b, r2-alpha isoform). [swissprot;acc:q00007] Subtracted 4556.78 2945.26 1611.52
trophinin. [swissprot;acc:q12816] Divided 23693.7 18263 1.29736
173 breast cancer antiestrogen resistance 3. [refseq;acc:nm_003567] 4579.34 5940.64 1.29727
uncharacterized hematopoietic stem/progenitor cells protein mds026. [sptrembl;acc:q9nz48] Subtracted 4556.79 2945.28 1611.51
174 mad protein (max dimerizer). [swissprot;acc:q05195] Divided 4455.95 5774.03 1.2958
serine/threonine protein phosphatase 2a, 55 kda regulatory subunit b, beta isoform (pp2a, subunit b, b-beta isoform) (pp2a, subunit b, b55- beta isoform) (pp2a, subunit b, pr55-beta isoform) (pp2a, subunit b, r2-beta isoform). [swissprot;acc:q00005] Subtracted 4556.83 2945.38 1611.45
175 max interacting protein 1 (mxi1 protein). [swissprot;acc:p50539] Divided 4456.67 5773.77 1.29553
serine/threonine protein phosphatase 2a, 55 kda regulatory subunit b, gamma isoform (pp2a, subunit b, b-gamma isoform) (pp2a, subunit b, b55-gamma isoform) (pp2a, subunit b, pr55-gamma isoform) (pp2a, subunit b, r2-gamma isoform) (imypno1). [swissprot;acc:q9y2t4] Subtracted 4556.99 2945.8 1611.19

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/