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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Gene Filtered green Network Comparison Type Rank description Interaction Map Value Type red network_comparison
Results: HTML CSV LaTeX Showing element 451 to 500 of 38536 in total
Filtered  : 0
Network Comparison Type  : Divided
green
Rank
description
Interaction Map
Value Type
red
network_comparison
10.7125 151 40s ribosomal protein s17. [swissprot;acc:p08708] Low confidence Rooted 9.16047 1.16943
10.7395 411 mitochondrial 28s ribosomal protein s6 (mrp-s6). [swissprot;acc:p82932] 11.5912 1.07931
10.8929 57 dead-box protein. [refseq;acc:nm_018665] High confidence 16.237 1.4906
10.958 108 poly (adp-ribose) glycohydrolase. [refseq;acc:nm_003631] Low confidence 13.9573 1.27371
11.0968 533 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] 10.5792 1.04893
11.2174 95 metaxin 1. [swissprot;acc:q13505] High confidence 14.7289 1.31304
11.258 32 ubiquitin protein ligase. [refseq;acc:nm_130466] 24.0391 2.13529
11.4841 140 williams beuren syndrome chromosome region 20c isoform 1. [refseq;acc:nm_032158] Low confidence 13.586 1.18303
11.4842 139 williams beuren syndrome critical region 20a isoform 2; nol1/nop2/sun gene family member; williams-beuren syndrome critical region protein 20 copy a; williams beuren syndrome chromosome region 20. [refseq;acc:nm_018044] 13.5864 1.18305
11.4844 141 williams-beuren syndrome critical region protein 20 copy b. [refseq;acc:nm_145645] 13.5862 1.18301
11.4849 118 mms19-like (met18 homolog, s. cerevisiae); homolog of yeast mms19; mms19 (met18 s. cerevisiae)-like. [refseq;acc:nm_022362] High confidence 9.1258 1.25851
11.5 176 protocadherin 16 precursor (cadherin 19) (cadherin fibroblast 1). [swissprot;acc:q96jq0] Low confidence Measured 14 1.21739
190 High confidence
11.5571 444 ras-related c3 botulinum toxin substrate 1 (p21-rac1) (ras-like protein tc25). [swissprot;acc:p15154] Low confidence Rooted 12.3602 1.06949
445 ras-related c3 botulinum toxin substrate 3 (p21-rac3). [swissprot;acc:o14658]
11.6055 247 neurocalcin delta. [swissprot;acc:p29554] High confidence 12.8769 1.10955
11.7898 24 beta-carotene dioxygenase 2; putative b,b-carotene-9',10'-dioxygenase. [refseq;acc:nm_031938] Low confidence 23.8747 2.02503
34 phenylethanolamine n-methyltransferase (ec 2.1.1.28) (pnmtase) (noradrenaline n-methyltransferase). [swissprot;acc:p11086] High confidence
35 beta-carotene dioxygenase 2; putative b,b-carotene-9',10'-dioxygenase. [refseq;acc:nm_031938]
11.824 152 huntingtin-interacting protein hypa/fbp11 (fragment). [sptrembl;acc:o75404] 13.8773 1.17366
11.8643 146 formin binding protein 3; fas-ligand associated factor 1; huntingtin-interacting protein a; ny-ren-6 antigen. [refseq;acc:nm_017892] 13.9593 1.17658
11.8854 301 dead (asp-glu-ala-asp) box polypeptide 47; hqp0256 protein. [refseq;acc:nm_016355] 12.7534 1.07303
11.9458 74 sedlin. [swissprot;acc:o14582] Low confidence 8.7827 1.36015
12 134 dead-box protein abstrakt homolog. [swissprot;acc:q9ujv9] High confidence 10 1.2
207 putative rna-binding protein 15 (rna binding motif protein 15) (one-twenty two protein). [swissprot;acc:q96t37] 13.6748 1.13957
12.1701 432 signal-induced proliferation-associated 1-like 1. [refseq;acc:nm_015556] 12.5074 1.02772
12.1722 86 mannosyl-oligosaccharide 1,2-alpha-mannosidase ib (ec 3.2.1.113) (processing alpha-1,2-mannosidase ib) (alpha-1,2-mannosidase ib) (mannosidase alpha class 1a member 2). [swissprot;acc:o60476] 9.13761 1.3321
89 Low confidence
12.2043 165 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] 10.5317 1.15882
12.2755 570 amiloride-sensitive sodium channel gamma-subunit (epithelial na+ channel gamma subunit) (gamma enac) (nonvoltage-gated sodium channel 1 gamma subunit) (scneg) (gamma nach). [swissprot;acc:p51170] 11.7909 1.0411
12.2759 569 amiloride-sensitive cation channel 3 isoform a; testis sodium channel 1; proton-gated cation channel subunit; modulatory subunit of asic2a; amiloride-sensitive cation channel 3, testis. [refseq;acc:nm_004769] 11.7907 1.04115
12.2882 51 nanos (fragment). [sptrembl;acc:q8wy41] High confidence 19.4165 1.58009
60 selenide,water dikinase 2 (ec 2.7.9.3) (selenophosphate synthetase 2) (selenium donor protein 2). [swissprot;acc:q99611] 8.48528 1.44818
63 Low confidence
12.2937 120 syntaxin 1a (neuron-specific antigen hpc-1). [swissprot;acc:q16623] High confidence Squared 6.45653 1.90407
12.3076 106 solute carrier family 26, member 11. [refseq;acc:nm_173626] Low confidence Rooted 15.7383 1.27875
12.3132 80 alpha-parvin (calponin-like integrin-linked kinase binding protein) (ch-ilkbp). [swissprot;acc:q9nvd7] 16.6674 1.35362
12.3994 498 amiloride-sensitive sodium channel delta-subunit (epithelial na+ channel delta subunit) (delta enac) (nonvoltage-gated sodium channel 1 delta subunit) (scned) (delta nach). [swissprot;acc:p51172] 11.7456 1.05566
12.4394 372 secreted modular calcium-binding protein 1. [refseq;acc:nm_022137] High confidence 11.9476 1.04116
568 Low confidence
12.4629 487 pepsin a precursor (ec 3.4.23.1). [swissprot;acc:p00790] High confidence 12.5028 1.0032
12.49 22 succinate dehydrogenase [ubiquinone] cytochrome b small subunit, mitochondrial precursor (cybs) (succinate-ubiquinone reductase membrane anchor subunit) (qps2) (cii-4) (succinate dehydrogenase complex subunit d) (succinate-ubiquinone oxidoreductase cytochrome b small subunit). [swissprot;acc:o14521] 3.16228 3.94968
12.5026 285 40s ribosomal protein s28. [swissprot;acc:p25112] 13.5612 1.08467
12.5624 41 dystrophin. [swissprot;acc:p11532] Squared 98.4011 7.83299
12.5698 17 ptd016 protein. [refseq;acc:nm_016125] Low confidence Rooted 5.47723 2.29492
30 High confidence
12.6095 63 dj820b18.1 (similar to nuclear cap binding protein) (fragment). [sptrembl;acc:q8wwk2] 18.1049 1.43581
12.6188 99 zona pellucida sperm-binding protein 3 precursor (zona pellucida glycoprotein zp3) (zona pellucida protein c) (sperm receptor) (zp3a/zp3b). [swissprot;acc:p21754] Low confidence Squared 26.9318 2.13426
12.6735 221 alanine-glyoxylate aminotransferase 2-like 1. [refseq;acc:nm_031279] Rooted 14.1816 1.119
12.7302 101 b24o18.3 (pom121 membrane glycoprotein (rat homolog)-like 2). [sptrembl;acc:q96kw2] Squared 27.0961 2.12849

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/