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.


Navigation/Query Panel:
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 [...,...].
Gene Rank Network Comparison Type description red Value Type Interaction Map network_comparison green Filtered
Results: HTML CSV LaTeX Showing element 551 to 600 of 8289 in total
Network Comparison Type  : Divided
Value Type  : Measured
Filtered  : 1
Rank
description
red
Interaction Map
network_comparison
green
276 putative rna-binding protein 15 (rna binding motif protein 15) (one-twenty two protein). [swissprot;acc:q96t37] 3119.98 High confidence 1.20953 2579.49
u2 small nuclear ribonucleoprotein a' (u2 snrnp-a'). [swissprot;acc:p09661] 7762.71 Low confidence 1.06011 8229.36
277 dual oxidase 2 precursor; dual oxidase-like domains 2; nicotinamide adenine dinucleotide phosphate oxidase; flavoprotein nadph oxidase; nadph thyroid oxidase 2; nadh/nadph thyroid oxidase p138-tox; nadph oxidase/peroxidase duox2. [refseq;acc:nm_014080] 7900.15 1.0601 8374.91
regulator of g-protein signaling 20 (rgs20) (regulator of gz- selective protein signaling 1) (gz-selective gtpase-activating protein) (g(z)gap). [swissprot;acc:o76081] 3119.98 High confidence 1.20953 2579.49
278 ba395l14.12 (novel protein similar to small nuclear ribonucleoprotein polypeptide a' (snrpa1)). [sptrembl;acc:q9nu36] 7762.96 Low confidence 1.06009 8229.42
transcription factor lbx1. [swissprot;acc:p52954] 3119.98 High confidence 1.20953 2579.49
279 dual oxidase 1 precursor; nadph thyroid oxidase 1; flavoprotein nadph oxidase; nicotinamide adenine dinucleotide phosphate oxidase. [refseq;acc:nm_017434] 7900.92 Low confidence 1.06005 8375.39
mosaic protein lgn. [swissprot;acc:p81274] 3119.98 High confidence 1.20953 2579.49
280 diacylglycerol o-acyltransferase 1 (ec 2.3.1.20) (diglyceride acyltransferase) (acat related gene product 1). [swissprot;acc:o75907] 7902.9 Low confidence 1.05994 8376.6
regulator of g-protein signaling 17 (rgs17). [swissprot;acc:q9ugc6] 3119.98 High confidence 1.20953 2579.49
281 cytochrome b-245 heavy chain (p22 phagocyte b-cytochrome) (neutrophil cytochrome b, 91 kda polypeptide) (cgd91-phox) (gp91-phox) (heme binding membrane glycoprotein gp91phox) (cytochrome b(558) beta chain) (superoxide-generating nadph oxidase heavy chain subunit). [swissprot;acc:p04839] 7904.19 Low confidence 1.05987 8377.38
guanine nucleotide-binding protein g(o), alpha subunit 1. [swissprot;acc:p09471] 3119.98 High confidence 1.20953 2579.49
282 nadph oxidase, ef hand calcium-binding domain 5. [refseq;acc:nm_024505] 7904.14 Low confidence 1.05987 8377.35
rap1 gtpase-activating protein 1 (rap1gap). [swissprot;acc:p47736] 3119.98 High confidence 1.20953 2579.49
283 nadph oxidase 4. [refseq;acc:nm_016931] 7904.2 Low confidence 1.05987 8377.39
polymerase (dna directed) iota; rad30 (s. cerevisiae) homolog b; polymerase (dna-directed), iota. [refseq;acc:nm_007195] 5221.28 High confidence 1.20935 6314.35
284 nadph oxidase 3; nadph oxidase catalytic subunit-like 3. [refseq;acc:nm_015718] 7904.17 Low confidence 1.05987 8377.37
paxillin. [swissprot;acc:p49023] 5221.28 High confidence 1.20935 6314.35
285 nadph oxidase homolog 1 (nox-1) (noh-1) (nadh/nadph mitogenic oxidase subunit p65-mox) (mitogenic oxidase 1) (mox1). [swissprot;acc:q9y5s8] 7904.2 Low confidence 1.05987 8377.39
poly(a) polymerase alpha (ec 2.7.7.19) (pap) (polynucleotide adenylyltransferase alpha) (fragment). [swissprot;acc:p51003] 23326.5 High confidence 1.20885 19296.4
286 exocyst complex component sec5. [swissprot;acc:q96kp1] 23316 1.20878 19288.8
sedlin. [swissprot;acc:o14582] 9059.8 Low confidence 1.05974 9601.05
287 adiponectin receptor 2. [refseq;acc:nm_024551] 7170.39 1.05971 7598.55
poly(a) polymerase gamma (ec 2.7.7.19) (pap gamma) (polynucleotide adenylyltransferase gamma) (srp rna 3' adenylating enzyme). [swissprot;acc:q9bwt3] 23303.1 High confidence 1.2087 19279.5
288 blocked early in transport 1 homolog (s. cerevisiae) like; golgi snare 15 kda protein. [refseq;acc:nm_016526] 8155.32 Low confidence 1.05964 8641.69
cleavage and polyadenylation specificity factor, 73 kda subunit (cpsf 73 kda subunit). [swissprot;acc:q9ukf6] 23422.4 High confidence 1.20857 19380.3
289 splicing factor 3b subunit 1 (spliceosome associated protein 155) (sap 155) (sf3b155) (pre-mrna splicing factor sf3b 155 kda subunit). [swissprot;acc:o75533] 7752.95 Low confidence 1.05951 8214.32
u6 snrna-associated sm-like protein lsm6 (sm protein f). [swissprot;acc:q9y4y8] 4682.88 High confidence 1.20571 5646.19
290 transcription factor e2f1 (e2f-1) (retinoblastoma binding protein 3) (rbbp-3) (prb-binding protein e2f-1) (pbr3) (retinoblastoma-associated protein 1) (rbap-1). [swissprot;acc:q01094] 6885.52 Low confidence 1.05923 7293.37
tuftelin-interacting protein 11 (hspc006). [swissprot;acc:q9ubb9] 4991.48 High confidence 1.20487 6014.08
291 putative glialblastoma cell differentiation-related; putative glialblastoma cell differentiation-related protein. [refseq;acc:nm_016172] 44490.5 1.20481 36927.5
transcription factor e2f2 (e2f-2). [swissprot;acc:q14209] 6885.52 Low confidence 1.05923 7293.37
292 60s ribosomal protein l27. [swissprot;acc:p08526] 7860.4 1.0592 8325.71
nucleotide-binding protein 1 (nbp 1). [swissprot;acc:p53384] 4641.09 High confidence 1.20419 5588.75
293 nucleotide binding protein 2 (nbp 2). [swissprot;acc:q9y5y2]
splicing factor 3b subunit 2 (spliceosome associated protein 145) (sap 145) (sf3b150) (pre-mrna splicing factor sf3b 145 kda subunit). [swissprot;acc:q13435] 7675.19 Low confidence 1.05915 8129.16
294 cleavage stimulation factor subunit 3; cleavage stimulation factor, 3' pre-rna, subunit 3, 77kd. [refseq;acc:nm_001326] 22515.5 High confidence 1.20387 18702.6
ubiquitin-conjugating enzyme e2 g1 (ec 6.3.2.19) (ubiquitin-protein ligase g1) (ubiquitin carrier protein g1) (e217k) (ubc7). [swissprot;acc:q99462] 7590.39 Low confidence 1.05913 8039.23
295 5-methyltetrahydrofolate--homocysteine methyltransferase (ec 2.1.1.13) (methionine synthase, vitamin-b12 dependent) (ms). [swissprot;acc:q99707] 9113.16 1.05895 9650.42
ral guanine nucleotide dissociation stimulator-like 1 (ralgds-like 1). [swissprot;acc:q9nzl6] 13261.9 High confidence 1.20368 11017.8
296 splicing factor 3a subunit 2 (spliceosome associated protein 62) (sap 62) (sf3a66). [swissprot;acc:q15428] 4911.81 1.20306 5909.18
tissue alpha-l-fucosidase precursor (ec 3.2.1.51) (alpha-l-fucosidase i) (alpha-l-fucoside fucohydrolase). [swissprot;acc:p04066] 8417.28 Low confidence 1.05868 8911.22
297 fucosidase, alpha-l- 2, plasma. [refseq;acc:nm_032020] 8414.05 1.05859 8907.06
krueppel-like factor 5 (intestinal-enriched krueppel-like factor) (colon krueppel-like factor) (transcription factor bteb2) (basic transcription element binding protein 2) (bte-binding protein 2) (gc box binding protein 2). [swissprot;acc:q13887] 4911.81 High confidence 1.20306 5909.18
298 fzr1 protein; fizzy-related protein; cdc20-like 1b. [refseq;acc:nm_016263] 8708.47 Low confidence 1.05855 9218.39
u6 snrna-associated sm-like protein lsm2 (small nuclear ribonuclear protein d homolog) (g7b) (snrnp core sm-like protein sm-x5). [swissprot;acc:q9y333] 4633.92 High confidence 1.20262 5572.85
299 anillin, actin binding protein (scraps homolog, drosophila); anillin (drosophila scraps homolog), actin binding protein. [refseq;acc:nm_018685] 8904.93 Low confidence 1.05855 9426.29
ba395l14.12 (novel protein similar to small nuclear ribonucleoprotein polypeptide a' (snrpa1)). [sptrembl;acc:q9nu36] 4914.27 High confidence 1.20203 5907.12
300 nitrogen fixation cluster-like. [refseq;acc:nm_014301] 8667.67 Low confidence 1.0584 9173.88
u2 small nuclear ribonucleoprotein a' (u2 snrnp-a'). [swissprot;acc:p09661] 4914.27 High confidence 1.20203 5907.12

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/