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 Hugo description green red Rank Value Type Network Comparison Type network_comparison Interaction Map Filtered
Results: HTML CSV LaTeX Showing element 1 to 50 of 3228 in total
Hugo  : no value
Value Type  : Ranked
Network Comparison Type  : Divided
Interaction Map  : High confidence
Filtered  : 1
description
green
red
Rank
network_comparison
1-acyl-sn-glycerol-3-phosphate acyltransferase alpha (ec 2.3.1.51) (1- agp acyltransferase 1) (1-agpat 1) (lysophosphatidic acid acyltransferase-alpha) (lpaat-alpha) (1-acylglycerol-3-phosphate o- acyltransferase 1) (g15 protein). [swissprot;acc:q99943] 181.041 186.741 1038 1.03148
15 kda selenoprotein precursor. [swissprot;acc:o60613] 212.432 214.522 1948 1.00984
17 beta-hydroxysteroid dehydrogenase. [sptrembl;acc:q13034] 217.998 211.449 1051 1.03097
26s proteasome non-atpase regulatory subunit 12 (26s proteasome regulatory subunit p55). [swissprot;acc:o00232] 218.311 217.241 2316 1.00493
3 beta-hydroxysteroid dehydrogenase (fragments). [sptrembl;acc:q9udk8] 0.00001 0.00001 2756 1
3 beta-hydroxysteroid dehydrogenase/delta 5-->4-isomerase type i (3beta-hsd i) (trophoblast antigen fdo161g) [includes: 3-beta-hydroxy- delta(5)-steroid dehydrogenase (ec 1.1.1.145) (3-beta-hydroxy-5-ene steroid dehydrogenase) (progesterone reductase); steroid delta- isomerase (ec 5.3.3.1) (delta-5-3-ketosteroid isomerase)]. [swissprot;acc:p14060] 2802
3-hydroxyisobutyryl-coenzyme a hydrolase. [refseq;acc:nm_014362] 198.154 196.008 1852 1.01095
4-aminobutyrate aminotransferase, mitochondrial precursor (ec 2.6.1.19) (gamma-amino-n-butyrate transaminase) (gaba transaminase) (gaba aminotransferase) (gaba-at) (gaba-t). [swissprot;acc:p80404] 222.215 219.423 1745 1.01272
40s ribosomal protein s15 (rig protein). [swissprot;acc:p11174] 266.986 242.339 304 1.1017
40s ribosomal protein s18 (ke-3) (ke3). [swissprot;acc:p25232] 264.11 242.238 387 1.09029
40s ribosomal protein s2 (s4) (llrep3 protein). [swissprot;acc:p15880] 265.136 241.625 344 1.0973
40s ribosomal protein s26. [swissprot;acc:p02383] 226.578 210.224 454 1.07779
40s ribosomal protein s27 (metallopan-stimulin 1) (mps-1). [swissprot;acc:p42677] 235.974 229.442 1102 1.02847
40s ribosomal protein s28. [swissprot;acc:p25112] 198.427 200.343 1982 1.00966
40s ribosomal protein s29. [swissprot;acc:p30054] 267.642 241.849 277 1.10665
40s ribosomal protein s3a. [swissprot;acc:p49241] 234.674 225.689 867 1.03981
40s ribosomal protein s4, x isoform (single copy abundant mrna protein) (scr10). [swissprot;acc:p12750] 266.078 240.758 288 1.10517
40s ribosomal protein sa (p40) (34/67 kda laminin receptor) (colon carcinoma laminin-binding protein) (nem/1chd4) (multidrug resistance- associated protein mgr1-ag). [swissprot;acc:p08865] 234.511 224.244 789 1.04578
60s acidic ribosomal protein p1. [swissprot;acc:p05386] 238.048 229.171 898 1.03874
60s ribosomal protein l10 (qm protein) (tumor suppressor qm) (laminin receptor homolog). [swissprot;acc:p27635] 266.661 243.12 357 1.09683
60s ribosomal protein l10a (csa-19). [swissprot;acc:p53025] 266.796 243.24 356 1.09684
60s ribosomal protein l12 like protein. [sptrembl;acc:o60886] 267.528 243.583 338 1.0983
60s ribosomal protein l12. [swissprot;acc:p30050] 267.527 337
60s ribosomal protein l14 (cag-isl 7). [swissprot;acc:p50914] 266.673 242.153 306 1.10126
60s ribosomal protein l17 (l23). [swissprot;acc:p18621] 267.335 241.808 281 1.10557
60s ribosomal protein l18a. [swissprot;acc:q02543] 224.958 234.025 860 1.04031
60s ribosomal protein l21. [swissprot;acc:p46778] 217.263 223.958 1054 1.03082
60s ribosomal protein l22 (epstein-barr virus small rna associated protein) (eber associated protein) (eap) (heparin binding protein hbp15). [swissprot;acc:p35268] 200.413 199.129 2205 1.00645
60s ribosomal protein l23 (l17). [swissprot;acc:p23131] 265.717 240.782 293 1.10356
60s ribosomal protein l23a. [swissprot;acc:p29316] 265.945 241.884 323 1.09947
60s ribosomal protein l37a. [swissprot;acc:p12751] 0.00001 0.00001 2959 1
60s ribosomal protein l39. [swissprot;acc:p02404] 224.958 234.025 859 1.04031
60s ribosomal protein l7. [swissprot;acc:p18124] 259.984 235.727 297 1.1029
60s ribosomal protein l9. [swissprot;acc:p32969] 263.798 240.243 341 1.09805
acyl-coa dehydrogenase, short/branched chain specific, mitochondrial precursor (ec 1.3.99.-) (sbcad) (2-methyl branched chain acyl-coa dehydrogenase) (2-mebcad) (2-methylbutyryl-coenzyme a dehydrogenase) (2-methylbutyryl-coa dehydrogenase). [swissprot;acc:p45954] 213.865 215.799 2019 1.00904
adapter-related protein complex 1 sigma 1b subunit (sigma-adaptin 1b) (adaptor protein complex ap-1 sigma-1b subunit) (golgi adaptor ha1/ap1 adaptin sigma-1b subunit) (clathrin assembly protein complex 1 sigma- 1b small chain) (sigma 1b subunit of ap-1 clathrin) (dc22). [swissprot;acc:p56377] 225.731 222.134 1595 1.01619
adapter-related protein complex 3 beta 2 subunit (beta-adaptin 3b) (ap-3 complex beta-3b subunit) (beta-3b-adaptin) (neuron-specific vesicle coat protein beta-nap). [swissprot;acc:q13367] 198.24 199.928 2046 1.00851
adenine phosphoribosyltransferase (ec 2.4.2.7) (aprt). [swissprot;acc:p07741] 217.998 211.449 1049 1.03097
adenylate kinase isoenzyme 4, mitochondrial (ec 2.7.4.3) (atp-amp transphosphorylase). [swissprot;acc:p27144] 265.696 242.14 348 1.09728
adp-ribosylation factor-like protein 7 (adp-ribosylation factor-like protein lak). [swissprot;acc:p56559] 212.904 218.402 1186 1.02582
alcohol dehydrogenase class iii chi chain (ec 1.1.1.1) (glutathione- dependent formaldehyde dehydrogenase) (ec 1.2.1.1) (fdh). [swissprot;acc:p11766] 193.555 192.871 2428 1.00355
alpha-1-acid glycoprotein 2 precursor (agp 2) (orosomucoid 2) (omd 2). [swissprot;acc:p19652] 204.406 209.649 1189 1.02565
alpha-nac protein. [sptrembl;acc:q9h009] 204.053 212.028 889 1.03908
alpha-parvin (calponin-like integrin-linked kinase binding protein) (ch-ilkbp). [swissprot;acc:q9nvd7] 224.7 219.354 1249 1.02437
apobec-1 complementation factor isoform 1; apobec-1 stimulating protein; apo-b rna editing protein. [refseq;acc:nm_014576] 212.41 237.302 248 1.11719
apoptosis inhibitor fksg2. [swissprot;acc:q9hau6] 212.123 217.99 1111 1.02766
arsenical pump-driving atpase (ec 3.6.3.16) (arsenite-translocating atpase) (arsenical resistance atpase) (arsenite-transporting atpase) (arsa) (asna-i). [swissprot;acc:o43681] 201.213 200.158 2291 1.00527
aspartate beta-hydroxylase isoform b; junctin isoform 1; junctate; aspartyl/asparaginyl-beta-hydroxylase; peptide-aspartate beta-dioxygenase; humbug. [refseq;acc:nm_032468] 216.576 229.072 658 1.0577
ataxin 2-binding protein. [swissprot;acc:q9nwb1] 215.577 218.514 1704 1.01362
ataxin 2; olivopontocerebellar ataxia 2, autosomal dominant. [refseq;acc:nm_002973] 221.293 228.105 1059 1.03078

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/