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.


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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 [...,...].
Gene Hugo description red green 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
red
green
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] 186.741 181.041 1038 1.03148
15 kda selenoprotein precursor. [swissprot;acc:o60613] 214.522 212.432 1948 1.00984
17 beta-hydroxysteroid dehydrogenase. [sptrembl;acc:q13034] 211.449 217.998 1051 1.03097
26s proteasome non-atpase regulatory subunit 12 (26s proteasome regulatory subunit p55). [swissprot;acc:o00232] 217.241 218.311 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] 196.008 198.154 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] 219.423 222.215 1745 1.01272
40s ribosomal protein s15 (rig protein). [swissprot;acc:p11174] 242.339 266.986 304 1.1017
40s ribosomal protein s18 (ke-3) (ke3). [swissprot;acc:p25232] 242.238 264.11 387 1.09029
40s ribosomal protein s2 (s4) (llrep3 protein). [swissprot;acc:p15880] 241.625 265.136 344 1.0973
40s ribosomal protein s26. [swissprot;acc:p02383] 210.224 226.578 454 1.07779
40s ribosomal protein s27 (metallopan-stimulin 1) (mps-1). [swissprot;acc:p42677] 229.442 235.974 1102 1.02847
40s ribosomal protein s28. [swissprot;acc:p25112] 200.343 198.427 1982 1.00966
40s ribosomal protein s29. [swissprot;acc:p30054] 241.849 267.642 277 1.10665
40s ribosomal protein s3a. [swissprot;acc:p49241] 225.689 234.674 867 1.03981
40s ribosomal protein s4, x isoform (single copy abundant mrna protein) (scr10). [swissprot;acc:p12750] 240.758 266.078 288 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] 224.244 234.511 789 1.04578
60s acidic ribosomal protein p1. [swissprot;acc:p05386] 229.171 238.048 898 1.03874
60s ribosomal protein l10 (qm protein) (tumor suppressor qm) (laminin receptor homolog). [swissprot;acc:p27635] 243.12 266.661 357 1.09683
60s ribosomal protein l10a (csa-19). [swissprot;acc:p53025] 243.24 266.796 356 1.09684
60s ribosomal protein l12 like protein. [sptrembl;acc:o60886] 243.583 267.528 338 1.0983
60s ribosomal protein l12. [swissprot;acc:p30050] 267.527 337
60s ribosomal protein l14 (cag-isl 7). [swissprot;acc:p50914] 242.153 266.673 306 1.10126
60s ribosomal protein l17 (l23). [swissprot;acc:p18621] 241.808 267.335 281 1.10557
60s ribosomal protein l18a. [swissprot;acc:q02543] 234.025 224.958 860 1.04031
60s ribosomal protein l21. [swissprot;acc:p46778] 223.958 217.263 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] 199.129 200.413 2205 1.00645
60s ribosomal protein l23 (l17). [swissprot;acc:p23131] 240.782 265.717 293 1.10356
60s ribosomal protein l23a. [swissprot;acc:p29316] 241.884 265.945 323 1.09947
60s ribosomal protein l37a. [swissprot;acc:p12751] 0.00001 0.00001 2959 1
60s ribosomal protein l39. [swissprot;acc:p02404] 234.025 224.958 859 1.04031
60s ribosomal protein l7. [swissprot;acc:p18124] 235.727 259.984 297 1.1029
60s ribosomal protein l9. [swissprot;acc:p32969] 240.243 263.798 341 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] 215.799 213.865 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] 222.134 225.731 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] 199.928 198.24 2046 1.00851
adenine phosphoribosyltransferase (ec 2.4.2.7) (aprt). [swissprot;acc:p07741] 211.449 217.998 1049 1.03097
adenylate kinase isoenzyme 4, mitochondrial (ec 2.7.4.3) (atp-amp transphosphorylase). [swissprot;acc:p27144] 242.14 265.696 348 1.09728
adp-ribosylation factor-like protein 7 (adp-ribosylation factor-like protein lak). [swissprot;acc:p56559] 218.402 212.904 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] 192.871 193.555 2428 1.00355
alpha-1-acid glycoprotein 2 precursor (agp 2) (orosomucoid 2) (omd 2). [swissprot;acc:p19652] 209.649 204.406 1189 1.02565
alpha-nac protein. [sptrembl;acc:q9h009] 212.028 204.053 889 1.03908
alpha-parvin (calponin-like integrin-linked kinase binding protein) (ch-ilkbp). [swissprot;acc:q9nvd7] 219.354 224.7 1249 1.02437
apobec-1 complementation factor isoform 1; apobec-1 stimulating protein; apo-b rna editing protein. [refseq;acc:nm_014576] 237.302 212.41 248 1.11719
apoptosis inhibitor fksg2. [swissprot;acc:q9hau6] 217.99 212.123 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] 200.158 201.213 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] 229.072 216.576 658 1.0577
ataxin 2-binding protein. [swissprot;acc:q9nwb1] 218.514 215.577 1704 1.01362
ataxin 2; olivopontocerebellar ataxia 2, autosomal dominant. [refseq;acc:nm_002973] 228.105 221.293 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/