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 - Divided Values

Type II network, divided values. Interestingly most of the proteins in the first 100 positions in this table would occur in the divided ranks table between position 100 and 200, indicating a difference in emphasis between the two simulations but not in the overall function. The fully annotated table, include Ensembl gene identifiers and network values can be found in the supplementary data.


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Rank Gene Hugo Network Comparison Type description Value Type Interaction Map Filtered red green network_comparison
Results: HTML CSV LaTeX Showing element 2462 to 2511 of 6456 in total
Value Type  : Ranked
Interaction Map  : High confidence
Filtered  : 1
Rank
Hugo
Network Comparison Type
description
red
green
network_comparison
1231 SDHB Subtracted succinate dehydrogenase [ubiquinone] iron-sulfur protein, mitochondrial precursor (ec 1.3.5.1) (ip) (iron-sulfur subunit of complex ii). [swissprot;acc:p21912] 207.931 213.175 5.244
1232 no value alpha-1-acid glycoprotein 2 precursor (agp 2) (orosomucoid 2) (omd 2). [swissprot;acc:p19652] 209.649 204.406 5.243
PYCR1 Divided pyrroline-5-carboxylate reductase (ec 1.5.1.2) (p5cr) (p5c reductase). [swissprot;acc:p32322] 172.543 168.417 1.0245
1233 no value 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
SEPT1 Subtracted septin 1 (larp) (serologically defined breast cancer antigen ny-br- 24). [swissprot;acc:q8wyj6] 142.077 136.846 5.231
1234 PGAM2 Divided 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] 212.724 207.637 1.0245
UBB Subtracted ubiquitin. [swissprot;acc:p02248] 209.6 204.372 5.228
1235 no value Divided keratin associated protein 9-4; keratin associated protein 9.4. [refseq;acc:nm_033191] 219.356 224.723 1.02447
COPA Subtracted coatomer alpha subunit (alpha-coat protein) (alpha-cop) (hepcop) (hep-cop) [contains: xenin (xenopsin-related peptide); proxenin]. [swissprot;acc:p53621] 177.432 182.647 5.215
1236 no value Divided keratin associated protein 4-10; keratin associated protein 4.10. [refseq;acc:nm_033060] 219.354 224.699 1.02437
VBP1 Subtracted prefoldin subunit 3 (von hippel-lindau binding protein 1) (vhl binding protein-1) (vbp-1) (hibbj46). [swissprot;acc:q15765] 226.439 221.26 5.179
1237 no value Divided keratin associated protein 4-2; keratin associated protein 4.2. [refseq;acc:nm_033062] 219.354 224.699 1.02437
PFDN2 Subtracted prefoldin subunit 2 (hspc231). [swissprot;acc:q9uhv9] 226.439 221.26 5.179
1238 no value Divided keratin associated protein 4.3 (fragment). [sptrembl;acc:q9byr4] 219.354 224.699 1.02437
UXT Subtracted uxt protein (ubiquitously expressed transcript protein) (hspc024). [swissprot;acc:q9ubk9] 226.439 221.26 5.179
1239 no value Divided keratin associated protein 2-4; keratin associated protein 2.4. [refseq;acc:nm_033184] 219.354 224.699 1.02437
STAT4 Subtracted signal transducer and activator of transcription 4. [swissprot;acc:q14765] 222.573 227.751 5.178
1240 no value Divided keratin associated protein 4-14; keratin associated protein 4.14. [refseq;acc:nm_033059] 219.354 224.7 1.02437
STAT1 Subtracted signal transducer and activator of transcription 1-alpha/beta (transcription factor isgf-3 components p91/p84). [swissprot;acc:p42224] 222.574 227.752 5.178
1241 no value Divided keratin associated protein 4.9 (fragment). [sptrembl;acc:q9byq8] 219.354 224.7 1.02437
STAT3 Subtracted signal transducer and activator of transcription 3 (acute-phase response factor). [swissprot;acc:p40763] 222.573 227.75 5.177
1242 no value Divided keratin associated protein 4-12; keratin associated protein 4.12. [refseq;acc:nm_031854] 219.354 224.7 1.02437
RALGDS Subtracted ral guanine nucleotide dissociation stimulator (ralgef) (ralgds). [swissprot;acc:q12967] 162.055 156.884 5.171
1243 no value Divided keratin associated protein 1.5. [refseq;acc:nm_031957] 219.354 224.699 1.02437
STAT6 Subtracted signal transducer and activator of transcription 6 (il-4 stat). [swissprot;acc:p42226] 222.569 227.739 5.17
1244 STARD6 Divided star-related lipid transfer protein 6 (stard6) (start domain- containing protein 6). [swissprot;acc:p59095] 219.354 224.7 1.02437
TPD52L1 Subtracted tumor protein d53 (hd53) (d52-like 1). [swissprot;acc:q16890] 206.774 211.936 5.162
1245 KRTAP5-8 Divided keratin, ultra high-sulfur matrix protein b (uhs keratin b) (uhs kerb). [swissprot;acc:o75690] 219.354 224.699 1.02437
TPD52 Subtracted tumor protein d52 (n8 protein). [swissprot;acc:p55327] 206.771 211.926 5.155
1246 no value Divided keratin, ultra high-sulfur matrix protein a (uhs keratin a) (uhs kera). [swissprot;acc:p26371] 219.354 224.699 1.02437
SESN3 Subtracted sestrin 3. [swissprot;acc:p58005] 218.368 213.219 5.149
1247 SESN2 sestrin 2 (hi95). [swissprot;acc:p58004]
STARD5 Divided star-related lipid transfer protein 5 (stard5) (start domain- containing protein 5). [swissprot;acc:q9nsy2] 219.354 224.7 1.02437
1248 CYP4A11 Subtracted cytochrome p450 4a11 precursor (ec 1.14.15.3) (cypiva11) (fatty acid omega-hydroxylase) (p-450 hk omega) (lauric acid omega-hydroxylase) (cyp4aii) (p450-hl-omega). [swissprot;acc:q02928] 218.368 213.22 5.148
KRTAP4-4 Divided keratin associated protein 4.4. [refseq;acc:nm_032524] 219.354 224.699 1.02437
1249 no value alpha-parvin (calponin-like integrin-linked kinase binding protein) (ch-ilkbp). [swissprot;acc:q9nvd7] 224.7
CYP4F3 Subtracted cytochrome p450 4f3 (ec 1.14.13.30) (cypivf3) (leukotriene-b4 omega- hydroxylase) (leukotriene-b4 20-monooxygenase) (cytochrome p450- ltb-omega). [swissprot;acc:q08477] 218.368 213.22 5.148
1250 CYP4F8 cytochrome p450 4f8 (ec 1.14.14.1) (cypivf8). [swissprot;acc:p98187]
LIMS1 Divided pinch protein (particularly interesting new cys-his protein) (lim and senescent cell antigen-like domains 1). [swissprot;acc:p48059] 219.354 224.7 1.02437
1251 CYP4X1 Subtracted likely ortholog of rat cytochrome p450 4x1. [refseq;acc:nm_178033] 218.368 213.22 5.148
ILK Divided integrin-linked protein kinase 1 (ec 2.7.1.-) (ilk-1) (59 kda serine/threonine protein kinase) (p59ilk). [swissprot;acc:q13418] 219.354 224.7 1.02437
1252 CYP4F12 Subtracted cytochrome p450 4f12 (ec 1.14.14.1) (cypivf12). [swissprot;acc:q9hcs2] 218.368 213.22 5.148
STARD4 Divided star-related lipid transfer protein 4 (stard4) (start domain- containing protein 4). [swissprot;acc:q96dr4] 219.354 224.7 1.02437
1253 CYP4F2 Subtracted cytochrome p450 4f2 (ec 1.14.13.30) (cypivf2) (leukotriene-b4 omega- hydroxylase) (leukotriene-b4 20-monooxygenase) (cytochrome p450- ltb-omega). [swissprot;acc:p78329] 218.368 213.22 5.148
RSU1 Divided ras suppressor protein 1 (rsu-1) (rsp-1). [swissprot;acc:q15404] 219.354 224.7 1.02437
1254 CYP4F11 Subtracted cytochrome p450 4f11 (ec 1.14.14.1) (cypivf11). [swissprot;acc:q9hbi6] 218.368 213.22 5.148
G3BP1 Divided ras-gtpase-activating protein binding protein 1 (gap sh3-domain binding protein 1) (g3bp-1). [swissprot;acc:q13283] 219.354 224.7 1.02437
1255 CYP4A22 Subtracted dj18d14.4 (cytochrome p450, subfamily iva, polypeptide 11). [sptrembl;acc:q9ntl5] 218.368 213.22 5.148
G3BP2 Divided ras-gtpase-activating protein binding protein 2 (gap sh3-domain binding protein 2) (g3bp-2). [swissprot;acc:q9un86] 219.354 224.7 1.02437
1256 no value keratin associated protein 1-3; keratin associated protein 1.3. [refseq;acc:nm_030966] 224.699

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
- Hugo is the HGNC identifier if it exists
- 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/