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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Filtered Value Type green Rank Gene description Network Comparison Type network_comparison Interaction Map red
Results: HTML CSV LaTeX Showing element 451 to 500 of 77072 in total
Filtered  : 0
Value Type  : Measured
green
Rank
description
Network Comparison Type
network_comparison
Interaction Map
red
206.5 434 testis-specific protein tpx-1 precursor (cysteine-rich secretory protein-2) (crisp-2). [swissprot;acc:p16562] Divided 1.02736 High confidence 201
459 Subtracted 5.5
210 117 helicase/primase complex protein. [refseq;acc:nm_138336] Divided 1.35238 Low confidence 284
504 Subtracted 74
219.891 392 60s ribosomal protein l14 (cag-isl 7). [swissprot;acc:p50914] Divided 1.04238 High confidence 229.211
452 Subtracted 9.32
221.565 469 transcription factor btf3 homolog 3. [swissprot;acc:q13892] Divided 1.00822 219.759
490 Subtracted 1.806
224.096 94 myosin vi. [swissprot;acc:q9um54] Divided 1.54338 345.865
95 Low confidence
259 Subtracted 121.769 High confidence
395 Low confidence
226.797 399 similar to lysozyme c-1 (1,4-beta-n-acylmuramidase c, ec 3.2.1.17). [refseq;acc:nm_032517] Divided 1.10398 250.379
723 Subtracted 23.582
226.81 410 glycerol kinase, testis specific 2 (ec 2.7.1.30) (atp:glycerol 3- phosphotransferase) (glycerokinase) (gk). [swissprot;acc:q14410] Divided 1.03704 High confidence 218.71
456 Subtracted 8.1
227.143 408 glycerol kinase, testis specific 1 (ec 2.7.1.30) (atp:glycerol 3- phosphotransferase) (glycerokinase) (gk). [swissprot;acc:q14409] Divided 1.03704 219.031
455 Subtracted 8.112
227.308 409 glycerol kinase (ec 2.7.1.30) (atp:glycerol 3-phosphotransferase) (glycerokinase) (gk). [swissprot;acc:p32189] Divided 1.03704 219.19
454 Subtracted 8.118
234.276 94 poly (adp-ribose) glycohydrolase. [refseq;acc:nm_003631] Divided 1.54599 Low confidence 362.189
379 Subtracted 127.913
241.74 120 proactivator polypeptide precursor [contains: saposin a (protein a); saposin b (sphingolipid activator protein 1) (sap-1) (cerebroside sulfate activator) (csact) (dispersin) (sulfatide/gm1 activator); saposin c (co-beta-glucosidase) (a1 activator) (glucosylceramidase activator) (sphingolipid activator protein 2) (sap-2); saposin d (protein c) (component c)]. [swissprot;acc:p07602] Divided 1.3378 180.7
547 Subtracted 61.04
249.857 487 ras-related c3 botulinum toxin substrate 1 (p21-rac1) (ras-like protein tc25). [swissprot;acc:p15154] Divided 1.00225 High confidence 250.419
488 ras-related c3 botulinum toxin substrate 3 (p21-rac3). [swissprot;acc:o14658]
492 ras-related c3 botulinum toxin substrate 1 (p21-rac1) (ras-like protein tc25). [swissprot;acc:p15154] Subtracted 0.562
493 ras-related c3 botulinum toxin substrate 3 (p21-rac3). [swissprot;acc:o14658]
268.468 572 transcription factor bteb4 (basic transcription element binding- protein 4) (bte-binding protein 4) (krueppel-like factor 16) (novel sp1-like zinc finger transcription factor 2) (transcription factor nslp2). [swissprot;acc:q9bxk1] Divided 1.04582 Low confidence 280.768
781 Subtracted 12.3
277.003 168 transcription factor dp-1 (e2f dimerization partner 1) (drtf1- polypeptide-1) (drtf1). [swissprot;acc:q14186] Divided 1.23006 340.73
542 Subtracted 63.727
279.24 59 f-actin capping protein alpha-2 subunit (capz alpha-2). [swissprot;acc:p47755] Divided 1.85328 High confidence 150.673
246 Subtracted 128.567
290.667 103 transketolase-like 1 (ec 2.2.1.1) (transketolase 2) (tk 2) (transketolase related protein). [swissprot;acc:p51854] Divided 1.47298 197.333
283 Subtracted 93.334
299.876 84 sedlin. [swissprot;acc:o14582] Divided 1.64861 Low confidence 181.896
402 Subtracted 117.98
305.886 70 synbindin (trs23 homolog) (hematopoietic stem/progenitor cell protein 172) (hspc172) (ptd009) (cgi-104). [swissprot;acc:q9y296] Divided 1.82368 167.73
355 Subtracted 138.156
306.727 183 blood group rh(d) polypeptide (rhesus d antigen) (rhxiii) (rh polypeptide 2) (rhpii). [swissprot;acc:q02161] Divided 1.22281 High confidence 375.07
184 blood group rh(ce) polypeptide (rhesus c/e antigens) (rh30a) (rhixb) (rh polypeptide 1) (rhpi). [swissprot;acc:p18577]
326 blood group rh(d) polypeptide (rhesus d antigen) (rhxiii) (rh polypeptide 2) (rhpii). [swissprot;acc:q02161] Subtracted 68.343
327 blood group rh(ce) polypeptide (rhesus c/e antigens) (rh30a) (rhixb) (rh polypeptide 1) (rhpi). [swissprot;acc:p18577]
306.933 185 Divided 1.22281 375.322
325 Subtracted 68.389
315.505 59 nadph oxidase, ef hand calcium-binding domain 5. [refseq;acc:nm_024505] Divided 2.14473 Low confidence 147.107
309 Subtracted 168.398
315.567 60 nadph oxidase homolog 1 (nox-1) (noh-1) (nadh/nadph mitogenic oxidase subunit p65-mox) (mitogenic oxidase 1) (mox1). [swissprot;acc:q9y5s8] Divided 2.14463 147.143
308 Subtracted 168.424

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/