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 277 to 326 of 3730 in total
Value Type  : Measured
Network Comparison Type  : Divided
Interaction Map  : High confidence
Rank
description
Filtered
red
green
network_comparison
139 associated molecule with the sh3 domain of stam (amsh) like protein. [refseq;acc:nm_020799] 0 736.737 561.038 1.31317
potassium channel-interacting protein 4 isoform 4; calsenilin-like protein. [refseq;acc:nm_147183] 1 2759.61 2099.49 1.31442
140 kv channel interacting protein 2 isoform 4; a-type potassium channel modulatory protein 2; cardiac voltage gated potassium channel modulatory subunit. [refseq;acc:nm_173193] 2760.28 2100.27 1.31425
vacuolar atp synthase subunit g 2 (ec 3.6.3.14) (v-atpase g subunit 2) (vacuolar proton pump g subunit 2) (v-atpase 13 kda subunit 2). [swissprot;acc:o95670] 0 934.726 1222.89 1.30829
141 ccr4-not transcription complex, subunit 7 (ccr4-associated factor 1) (caf1) (btg1 binding factor 1). [swissprot;acc:q9uiv1] 1161.88 891.114 1.30385
small nuclear ribonucleoprotein sm d2 (snrnp core protein d2) (sm-d2). [swissprot;acc:p43330] 1 4405.4 5782.08 1.3125
142 metalloprotease 1; metalloprotease 1 (pitrilysin family). [refseq;acc:nm_014889] 9276.47 7090.37 1.30832
presenilin-like protein 1 (ec 3.4.99.-) (sppl2b protein). [swissprot;acc:q8tct7] 0 874 1139 1.3032
143 beta-1,4 mannosyltransferase. [refseq;acc:nm_019109] 1 9275.1 7089.65 1.30826
putative rna-binding protein 15 (rna binding motif protein 15) (one-twenty two protein). [swissprot;acc:q96t37] 0 187 144 1.29861
144 sad1/unc-84 protein-like 1. [swissprot;acc:o94901] 1 3349.9 4362.61 1.30231
uridine kinase-like 1. [swissprot;acc:q9nwz5] 0 633.433 821.711 1.29723
145 likely ortholog of rat cytochrome p450 4x1. [refseq;acc:nm_178033] 287.903 372.961 1.29544
ubiquitin activating enzyme e1-like protein. [refseq;acc:nm_006395] 1 16771.5 12889.1 1.30122
146 associated molecule with the sh3 domain of stam (amsh) like protein. [refseq;acc:nm_020799] 11068 8508.5 1.30082
cytochrome p450 4f12 (ec 1.14.14.1) (cypivf12). [swissprot;acc:q9hcs2] 0 291.639 377.574 1.29466
147 cytochrome p450 4f11 (ec 1.14.14.1) (cypivf11). [swissprot;acc:q9hbi6] 292.152 378.206 1.29455
putative breast adenocarcinoma marker (32kd). [refseq;acc:nm_014453] 1 11068 8508.5 1.30082
148 associated molecule with the sh3 domain of stam. [refseq;acc:nm_006463]
cytochrome p450 4f8 (ec 1.14.14.1) (cypivf8). [swissprot;acc:p98187] 0 293.178 379.474 1.29435
149 cytochrome p450 4f2 (ec 1.14.13.30) (cypivf2) (leukotriene-b4 omega- hydroxylase) (leukotriene-b4 20-monooxygenase) (cytochrome p450- ltb-omega). [swissprot;acc:p78329]
neuroendocrine differentiation factor; comparative gene identification transcript 149. [refseq;acc:nm_016079] 1 11068 8508.5 1.30082
150 metaxin 1. [swissprot;acc:q13505] 0 933.395 723.368 1.29035
protein hspc134 (protein cda04). [swissprot;acc:q9by43] 1 11068 8508.5 1.30082
151 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] 4578.09 5939.91 1.29746
udp-glucuronosyltransferase 2b17 precursor, microsomal (ec 2.4.1.17) (udpgt) (c19-steroid specific udp-glucuronosyltransferase). [swissprot;acc:o75795] 0 2230.13 1729.7 1.28932
152 melanoma antigen, family d, 4 isoform 1; mage1 protein; mage-e1 protein; maged4 protein. [refseq;acc:nm_030801] 1 23693.7 18263 1.29736
udp-glucuronosyltransferase 2b11 precursor, microsomal (ec 2.4.1.17) (udpgt). [swissprot;acc:o75310] 0 2230.13 1729.7 1.28932
153 hepatocellular carcinoma-associated protein hca3. [refseq;acc:nm_138703] 1 23693.7 18263 1.29736
udp-glucuronosyltransferase 2b4 precursor, microsomal (ec 2.4.1.17) (udpgt) (hyodeoxycholic acid) (hlug25) (udpgth-1). [swissprot;acc:p06133] 0 2230.13 1729.7 1.28932
154 glutamyl aminopeptidase (ec 3.4.11.7) (eap) (aminopeptidase a) (apa) (differentiation antigen gp160). [swissprot;acc:q07075]
melanoma-associated antigen 3 (mage-3 antigen) (antigen mz2-d). [swissprot;acc:p43357] 1 23693.7 18263 1.29736
155 melanoma-associated antigen 11 (mage-11 antigen). [swissprot;acc:p43364]
udp-glucuronosyltransferase 2b10 precursor, microsomal (ec 2.4.1.17) (udpgt). [swissprot;acc:p36537] 0 2230.13 1729.7 1.28932
156 melanoma-associated antigen 2 (mage-2 antigen). [swissprot;acc:p43356] 1 23693.7 18263 1.29736
udp-glucuronosyltransferase 2b15 precursor, microsomal (ec 2.4.1.17) (udpgt) (udpgth-3) (hlug4). [swissprot;acc:p54855] 0 2230.13 1729.7 1.28932
157 hepatocellular carcinoma-associated protein hca1. [refseq;acc:nm_020932] 1 23693.7 18263 1.29736
mannosyl-oligosaccharide 1,2-alpha-mannosidase ib (ec 3.2.1.113) (processing alpha-1,2-mannosidase ib) (alpha-1,2-mannosidase ib) (mannosidase alpha class 1a member 2). [swissprot;acc:o60476] 0 261.105 336.584 1.28908
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] 1283.48 1649.37 1.28508
melanoma-associated antigen 6 (mage-6 antigen) (mage3b). [swissprot;acc:p43360] 1 23693.7 18263 1.29736
159 lipocalin-interacting membrane receptor. [refseq;acc:nm_018113] 0 734.025 574.372 1.27796
necdin. [swissprot;acc:q99608] 1 23693.7 18263 1.29736
160 huntingtin interacting protein c. [refseq;acc:nm_012272] 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 glycine cleavage system h protein, mitochondrial precursor. [swissprot;acc:p23434] 0 903.767 1152.06 1.27473
melanoma-associated antigen f1 (mage-f1 antigen). [swissprot;acc:q9hay2] 1 23693.7 18263 1.29736
162 cysteine endopeptidase aut-like 2 isoform a; autophagy-related cysteine endopeptidase 2; autophagin 2. [refseq;acc:nm_052936] 0 5734.28 7252.02 1.26468
melanoma antigen, family b, 6. [refseq;acc:nm_173523] 1 23693.7 18263 1.29736
163 melanoma-associated antigen 4 (mage-4 antigen) (mage-x2) (mage-41). [swissprot;acc:p43358]
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

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/