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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Click on the attribute name to hide/unhide it. The green arrows can be used to shift columns left/right. Exact word match is written as =..., regular expressions can be matched with ~.... To select all values larger or equal than use >.... This would be <... for values smaller or equal than. To select all values within a specific range use [...,...].
Rank Gene description Value Type Network Comparison Type Interaction Map Filtered red green network_comparison
Results: HTML CSV LaTeX Showing element 630 to 679 of 8289 in total
Value Type  : Measured
Network Comparison Type  : Divided
Filtered  : 1
Rank
description
Interaction Map
red
green
network_comparison
315 tuftelin-interacting protein 11 (hspc006). [swissprot;acc:q9ubb9] Low confidence 7696.96 8141.6 1.05777
316 serine/threonine protein phosphatase pp1-alpha 1 catalytic subunit (ec 3.1.3.16) (pp-1a). [swissprot;acc:p08129] High confidence 21370.8 17896.5 1.19413
spliceosomal u5 snrnp-specific 15 kda protein (dim1 protein homolog) (thioredoxin-like u5 snrnp protein u5-15kd). [swissprot;acc:o14834] Low confidence 7712.29 8157.72 1.05776
317 adiponectin receptor 2. [refseq;acc:nm_024551] High confidence 3153.1 3762.56 1.19329
phd finger protein 12; phd zinc finger transcription factor. [refseq;acc:nm_020889] Low confidence 10745.7 10160 1.05765
318 augmenter of liver regeneration (herv1 protein). [swissprot;acc:p55789] 9057.26 9578.24 1.05752
nuclear dna-binding protein; small unique nuclear receptor corepressor; c1d dna-binding protein. [refseq;acc:nm_006333] High confidence 34190.9 40795.8 1.19318
319 epsin 1; eh domain-binding mitotic phosphoprotein. [refseq;acc:nm_013333] Low confidence 8527.78 9018.27 1.05752
ras-related gtp binding a; ras-related gtp-binding protein. [refseq;acc:nm_006570] High confidence 20911 24908.5 1.19117
320 ras-related gtp binding c; rag c protein. [refseq;acc:nm_022157]
striatin. [swissprot;acc:o43815] Low confidence 7006.35 7408.73 1.05743
321 ras-related gtp binding b short isoform; gtp-binding protein ragb. [refseq;acc:nm_006064] High confidence 20911 24908.5 1.19117
serine/threonine-protein kinase kkialre (ec 2.7.1.-) (cyclin-dependent kinase-like 1). [swissprot;acc:q00532] Low confidence 7701.35 8143.34 1.05739
322 anillin, actin binding protein (scraps homolog, drosophila); anillin (drosophila scraps homolog), actin binding protein. [refseq;acc:nm_018685] High confidence 20911 24908.5 1.19117
pantothenate kinase 4 (ec 2.7.1.33) (pantothenic acid kinase 4) (hpank4). [swissprot;acc:q9nve7] Low confidence 9070.12 9590.3 1.05735
323 hcdi protein. [refseq;acc:nm_020195]
u6 snrna-associated sm-like protein lsm4 (glycine-rich protein) (grp). [swissprot;acc:q9y4z0] High confidence 4620.76 5501.94 1.1907
324 deoxyribonuclease ii beta isoform 1 precursor; deoxyribonuclease ii beta; endonuclease dlad. [refseq;acc:nm_021233] 28136.5 33457.6 1.18912
ras-related protein rab-37. [swissprot;acc:q96ax2] Low confidence 10730.1 10148.2 1.05734
325 septin-like protein kiaa0202 (fragment). [swissprot;acc:q92599] High confidence 16177.9 19235.4 1.18899
splicing factor 3a subunit 3 (spliceosome associated protein 61) (sap 61) (sf3a60). [swissprot;acc:q12874] Low confidence 7754.47 8197.69 1.05716
326 atp-dependent rna helicase ddx24 (dead-box protein 24). [swissprot;acc:q9gzr7] High confidence 3432.96 4081.21 1.18883
splicing factor 3 subunit 1 (spliceosome associated protein 114) (sap 114) (sf3a120). [swissprot;acc:q15459] Low confidence 7754.47 8197.69 1.05716
327 dolichyl-diphosphooligosaccharide--protein glycosyltransferase 48 kda subunit precursor (ec 2.4.1.119) (oligosaccharyl transferase 48 kda subunit) (ddost 48 kda subunit). [swissprot;acc:p39656] 7559.1 7989.86 1.05699
septin 10 isoform 1. [refseq;acc:nm_144710] High confidence 16067.4 19094.4 1.18839
328 apoptosis inhibitor 5; fibroblast growth factor 2-interacting factor 2; api5-like 1. [refseq;acc:nm_006595] Low confidence 7723.13 8161.44 1.05675
brain protein 44. [swissprot;acc:o95563] High confidence 15999.1 19007.1 1.18801
329 septin 7 (cdc10 protein homolog). [swissprot;acc:q16181]
serine racemase (ec 5.1.1.-). [swissprot;acc:q9gzt4] Low confidence 9152.21 9670.96 1.05668
330 septin 6. [swissprot;acc:q14141] High confidence 15959.9 18957.1 1.1878
striatin 4 (zinedin). [swissprot;acc:q9nrl3] Low confidence 7018.98 7416.34 1.05661
331 epsin 2 isoform b; eps15 binding protein. [refseq;acc:nm_014964] 8488.37 8967.42 1.05644
pre-mrna cleavage complex ii protein pcf11 (fragment). [swissprot;acc:o94913] High confidence 20287.2 17083.8 1.18751
332 pleiotropic regulator 1 (prl1homolog, arabidopsis); pleiotropic regulator 1 (prl1, arabidopsis homolog). [refseq;acc:nm_002669] 5051.16 5975.51 1.183
sec14-like protein 2 (alpha-tocopherol associated protein) (tap) (htap) (supernatant protein factor) (spf) (squalene transfer protein). [swissprot;acc:o76054] Low confidence 9272.87 9795.53 1.05636
333 nuclear matrix protein nmp200 related to splicing factor prp19. [refseq;acc:nm_014502] High confidence 5039.63 5961.83 1.18299
vacuolar proton translocating atpase 116 kda subunit a isoform 2 (v-atpase 116-kda isoform a2) (tj6). [swissprot;acc:q9y487] Low confidence 8639.75 9126.51 1.05634
334 sec14-like protein 1. [swissprot;acc:q92503] 9271.66 9793.93 1.05633
septin 4 (peanut-like protein 2) (brain protein h5) (cell division control-related protein 2) (hcdcrel-2) (bradeion beta) (ce5b3 beta) (cerebral protein-7) (hucep-7). [swissprot;acc:o43236] High confidence 14924.4 17655.2 1.18298
335 probable atp-dependent 61 kda nucleolar rna helicase (dead-box protein 21). [swissprot;acc:q9ny93] 3494.31 4129.6 1.18181
vacuolar proton translocating atpase 116 kda subunit a isoform 3 (v- atpase 116-kda isoform a3) (osteoclastic proton pump 116 kda subunit) (oc-116 kda) (oc116) (t-cell immune regulator 1) (t cell immune response cdna7 protein) (tirc7). [swissprot;acc:q13488] Low confidence 8636.95 9122.21 1.05618
336 cgi-121 protein; prpk (p53-related protein kinase)-binding protein. [refseq;acc:nm_016058] 9142.34 9654.91 1.05607
dna polymerase epsilon p12 subunit (dna polymerase epsilon subunit 4). [swissprot;acc:q9nr33] High confidence 3751.3 4431.34 1.18128
337 homeobox protein hox-c4 (hox-3e) (cp19). [swissprot;acc:p09017] 20446.1 24136.4 1.18049
mitochondrial gtp binding protein isoform v. [refseq;acc:nm_032620] Low confidence 9204.48 9720.58 1.05607
338 homeobox protein hox-b4 (hox-2f) (hox-2.6). [swissprot;acc:p17483] High confidence 20446.1 24136.4 1.18049
ubiquitin-like protein sumo-1 conjugating enzyme (ec 6.3.2.19) (sumo- 1-protein ligase) (ubiquitin carrier protein) (ubiquitin-conjugating enzyme ubce2a) (p18). [swissprot;acc:p50550] Low confidence 9229.69 9745 1.05583
339 homeobox protein hox-c5 (hox-3d) (cp11). [swissprot;acc:q00444] High confidence 20446.1 24136.4 1.18049
isocitrate dehydrogenase [nadp], mitochondrial precursor (ec 1.1.1.42) (oxalosuccinate decarboxylase) (idh) (nadp+-specific icdh) (idp) (icd-m). [swissprot;acc:p48735] Low confidence 9114.82 9621.71 1.05561
340 homeobox protein hox-c6 (hox-3c) (hho.c8) (cp25). [swissprot;acc:p09630] High confidence 20446.1 24136.4 1.18049

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/