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 2451 to 2500 of 8289 in total
Value Type  : Ranked
Network Comparison Type  : Divided
Filtered  : 1
Rank
description
Interaction Map
red
green
network_comparison
1226 sodium/potassium-transporting atpase alpha-1 chain precursor (ec 3.6.3.9) (sodium pump 1) (na+/k+ atpase 1). [swissprot;acc:p05023] Low confidence 203.499 198.964 1.02279
ubiquitin-conjugating enzyme e2e 3; ubiquitin carrier protein; ubiquitin-protein ligase. [refseq;acc:nm_006357] High confidence 166.846 170.989 1.02483
1227 pyrroline 5-carboxylate reductase isoform. [refseq;acc:nm_013328] 172.365 168.219 1.02465
sodium/potassium-transporting atpase alpha-2 chain precursor (ec 3.6.3.9) (sodium pump 2) (na+/k+ atpase 2). [swissprot;acc:p50993] Low confidence 203.499 198.964 1.02279
1228 calmodulin-related protein nb-1 (calmodulin-like protein) (clp). [swissprot;acc:p27482] 201.109 196.63 1.02278
glutamate--cysteine ligase regulatory subunit (ec 6.3.2.2) (gamma- glutamylcysteine synthetase) (gamma-ecs) (gcs light chain) (glutamate--cysteine ligase modifier subunit). [swissprot;acc:p48507] High confidence 213.079 218.325 1.02462
1229 adp-ribosylation factor 1. [swissprot;acc:p32889] Low confidence 202.83 198.315 1.02277
glutamate--cysteine ligase catalytic subunit (ec 6.3.2.2) (gamma- glutamylcysteine synthetase) (gamma-ecs) (gcs heavy chain). [swissprot;acc:p48506] High confidence 213.079 218.325 1.02462
1230 interleukin-4 induced protein 1 precursor (fig-1 protein). [swissprot;acc:q96rq9] 219.55 214.288 1.02456
zinc finger protein zic 3 (zinc finger protein of the cerebellum 3). [swissprot;acc:o60481] Low confidence 204.929 200.371 1.02275
1231 mitochondrial import receptor subunit tom22 homolog (translocase of outer membrane 22 kda subunit homolog) (htom22) (1c9-2). [swissprot;acc:q9ns69] 202.8 198.291 1.02274
putative phosphoglycerate mutase 3 (ec 5.4.2.1) (ec 5.4.2.4) (ec 3.1.3.13). [swissprot;acc:q8n0y7] High confidence 212.724 207.637 1.0245
1232 dna repair protein rad51 homolog 1 (hrad51) (hsrad51). [swissprot;acc:q06609] Low confidence 200.818 196.355 1.02273
pyrroline-5-carboxylate reductase (ec 1.5.1.2) (p5cr) (p5c reductase). [swissprot;acc:p32322] High confidence 172.543 168.417 1.0245
1233 phosphoglycerate mutase 1 (ec 5.4.2.1) (ec 5.4.2.4) (ec 3.1.3.13) (phosphoglycerate mutase isozyme b) (pgam-b) (bpg-dependent pgam 1). [swissprot;acc:p18669] 212.724 207.637
zinc finger protein zic 1 (zinc finger protein of the cerebellum 1). [swissprot;acc:q15915] Low confidence 204.913 200.361 1.02272
1234 cg9578-like; yeast ypr037w and worm c02c2.6 predicted proteins-like. [refseq;acc:nm_152902] 194.777 199.203
phosphoglycerate mutase 2 (ec 5.4.2.1) (ec 5.4.2.4) (ec 3.1.3.13) (phosphoglycerate mutase isozyme m) (pgam-m) (bpg-dependent pgam 2) (muscle-specific phosphoglycerate mutase). [swissprot;acc:p15259] High confidence 212.724 207.637 1.0245
1235 keratin associated protein 9-4; keratin associated protein 9.4. [refseq;acc:nm_033191] 219.356 224.723 1.02447
wiskott-aldrich syndrome protein interacting protein (wasp interacting protein) (prpl-2 protein). [swissprot;acc:o43516] Low confidence 199.238 194.813 1.02271
1236 keratin associated protein 4-10; keratin associated protein 4.10. [refseq;acc:nm_033060] High confidence 219.354 224.699 1.02437
mstp028 protein. [refseq;acc:nm_031954] Low confidence 204.242 199.707 1.02271
1237 keratin associated protein 4-2; keratin associated protein 4.2. [refseq;acc:nm_033062] High confidence 219.354 224.699 1.02437
phosphatidylinositol 4-kinase type-ii beta; likely ortholog of mouse phosphatidylinositol 4-kinase type 2 beta. [refseq;acc:nm_018323] Low confidence 198.635 194.227 1.0227
1238 ccr4-not transcription complex, subunit 7 (ccr4-associated factor 1) (caf1) (btg1 binding factor 1). [swissprot;acc:q9uiv1] 202.15 197.664
keratin associated protein 4.3 (fragment). [sptrembl;acc:q9byr4] High confidence 219.354 224.699 1.02437
1239 keratin associated protein 2-4; keratin associated protein 2.4. [refseq;acc:nm_033184]
[pyruvate dehydrogenase [lipoamide]]-phosphatase 2, mitochondrial precursor (ec 3.1.3.43) (pdp 2) (pyruvate dehydrogenase phosphatase, catalytic subunit 2) (pdpc 2). [swissprot;acc:q9p2j9] Low confidence 202.786 198.286 1.02269
1240 dna topoisomerase ii, alpha isozyme (ec 5.99.1.3). [swissprot;acc:p11388] 201.458 196.99 1.02268
keratin associated protein 4-14; keratin associated protein 4.14. [refseq;acc:nm_033059] High confidence 219.354 224.7 1.02437
1241 dna topoisomerase ii, beta isozyme (ec 5.99.1.3). [swissprot;acc:q02880] Low confidence 201.449 196.981 1.02268
keratin associated protein 4.9 (fragment). [sptrembl;acc:q9byq8] High confidence 219.354 224.7 1.02437
1242 keratin associated protein 4-12; keratin associated protein 4.12. [refseq;acc:nm_031854]
polymerase delta-interacting protein 1; tnfaip1-like. [refseq;acc:nm_178863] Low confidence 204.227 199.699 1.02267
1243 keratin associated protein 1.5. [refseq;acc:nm_031957] High confidence 219.354 224.699 1.02437
tumor necrosis factor, alpha-induced protein 1, endothelial (b12 protein). [swissprot;acc:q13829] Low confidence 204.228 199.7 1.02267
1244 phosphatidylinositol 4-kinase type ii. [refseq;acc:nm_018425] 198.639 194.235
star-related lipid transfer protein 6 (stard6) (start domain- containing protein 6). [swissprot;acc:p59095] High confidence 219.354 224.7 1.02437
1245 keratin, ultra high-sulfur matrix protein b (uhs keratin b) (uhs kerb). [swissprot;acc:o75690] 224.699
proline synthetase co-transcribed bacterial homolog protein. [swissprot;acc:o94903] Low confidence 200.278 195.84 1.02266
1246 keratin, ultra high-sulfur matrix protein a (uhs keratin a) (uhs kera). [swissprot;acc:p26371] High confidence 219.354 224.699 1.02437
[pyruvate dehydrogenase [lipoamide]]-phosphatase 1, mitochondrial precursor (ec 3.1.3.43) (pdp 1) (pyruvate dehydrogenase phosphatase, catalytic subunit 1) (pdpc 1). [swissprot;acc:q9p0j1] Low confidence 202.791 198.299 1.02265
1247 ccr4-not transcription complex, subunit 8 (caf1-like protein) (califp). [swissprot;acc:q9uff9] 202.14 197.663
star-related lipid transfer protein 5 (stard5) (start domain- containing protein 5). [swissprot;acc:q9nsy2] High confidence 219.354 224.7 1.02437
1248 dna replication licensing factor mcm5 (cdc46 homolog) (p1-cdc46). [swissprot;acc:p33992] Low confidence 202.294 197.813 1.02265
keratin associated protein 4.4. [refseq;acc:nm_032524] High confidence 219.354 224.699 1.02437
1249 alpha-parvin (calponin-like integrin-linked kinase binding protein) (ch-ilkbp). [swissprot;acc:q9nvd7] 224.7
midasin (midas-containing protein). [swissprot;acc:q9nu22] Low confidence 202.087 197.614 1.02264
1250 3-hydroxyanthranilate 3,4-dioxygenase (ec 1.13.11.6) (3-hao) (3-hydroxyanthranilic acid dioxygenase) (3-hydroxyanthranilate oxygenase). [swissprot;acc:p46952] 180.665 176.667 1.02263
pinch protein (particularly interesting new cys-his protein) (lim and senescent cell antigen-like domains 1). [swissprot;acc:p48059] High confidence 219.354 224.7 1.02437

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/