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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Gene green Value Type Rank Filtered Network Comparison Type description network_comparison Interaction Map red
Results: HTML CSV LaTeX Showing element 3180 to 3229 of 38536 in total
Network Comparison Type  : Divided
green
Value Type
Rank
Filtered
description
network_comparison
Interaction Map
red
26.7764 Rooted 497 0 myosin va (myosin 5a) (dilute myosin heavy chain, non-muscle) (myosin heavy chain 12) (myoxin). [swissprot;acc:q9y4i1] 1.05597 Low confidence 28.2752
26.7806 375 germ cell-less. [refseq;acc:nm_022471] 1.0399 High confidence 27.8491
26.8089 467 adenylate kinase isoenzyme 4, mitochondrial (ec 2.7.4.3) (atp-amp transphosphorylase). [swissprot;acc:p27144] 1.01107 26.5153
26.8141 357 3-ketoacyl-coa thiolase, peroxisomal precursor (ec 2.3.1.16) (beta- ketothiolase) (acetyl-coa acyltransferase) (peroxisomal 3-oxoacyl- coa thiolase). [swissprot;acc:p09110] 1.04688 28.0711
26.8253 206 testis-specific chromodomain y protein 1. [swissprot;acc:q9y6f8] 1.12901 Low confidence 30.2859
26.8271 207 testis-specific chromodomain protein y protein 2. [swissprot;acc:q9y6f7] 1.12898 30.2872
26.828 66 elongation of very long chain fatty acids protein 2. [swissprot;acc:q9nxb9] 1.4185 18.9129
26.8335 185 coatomer beta' subunit (beta'-coat protein) (beta'-cop) (p102). [swissprot;acc:p35606] 1.14291 High confidence 30.6682
26.8342 183 ribosomal protein s6 kinase-like 1. [refseq;acc:nm_031464] 1.14342 Low confidence 30.6827
26.838 481 zinc finger protein slug (neural crest transcription factor slug) (snail homolog 2). [swissprot;acc:o43623] 1.06061 25.3044
26.8697 273 vacuolar atp synthase subunit g 2 (ec 3.6.3.14) (v-atpase g subunit 2) (vacuolar proton pump g subunit 2) (v-atpase 13 kda subunit 2). [swissprot;acc:o95670] 1.09235 High confidence 24.598
26.8784 209 chromodomain y-like protein 2. [refseq;acc:nm_152342] 1.12826 Low confidence 30.3257
26.8952 582 60s ribosomal protein l9. [swissprot;acc:p32969] 1.03818 25.906
26.9186 227 jm5 protein. [refseq;acc:nm_007075] 1.1178 24.0817
26.9306 312 adenine phosphoribosyltransferase (ec 2.4.2.7) (aprt). [swissprot;acc:p07741] 1.0652 High confidence 25.2821
313 estradiol 17 beta-dehydrogenase 1 (ec 1.1.1.62) (17-beta-hsd 1) (placental 17-beta-hydroxysteroid dehydrogenase) (20 alpha- hydroxysteroid dehydrogenase) (20-alpha-hsd) (e2dh). [swissprot;acc:p14061]
26.9488 182 e1a binding protein p400; p400 swi2/snf2-related protein; cagh32 protein; trinucleotide repeat containing 12. [refseq;acc:nm_015409] 1.14353 Low confidence 30.8167
26.9708 501 kynureninase (ec 3.7.1.3) (l-kynurenine hydrolase). [swissprot;acc:q16719] 1.05422 25.5837
26.9929 320 mevalonate kinase (ec 2.7.1.36) (mk). [swissprot;acc:q03426] 1.06334 High confidence 28.7027
27.0433 412 dead-box protein 3, y-chromosomal. [swissprot;acc:o15523] 1.0793 Low confidence 29.1877
518 60s ribosomal protein l21. [swissprot;acc:p46778] 1.05095 25.7322
519 solute carrier family 26 member 6 (pendrin-like protein 1) (pendrin l1). [swissprot;acc:q9bxs9]
27.0924 73 nadh-ubiquinone oxidoreductase mlrq subunit (ec 1.6.5.3) (ec 1.6.99.3) (complex i-mlrq) (ci-mlrq). [swissprot;acc:o00483] 1.3649 19.8494
27.1011 614 crooked neck-like protein 1 (crooked neck homolog) (hcrn) (cgi-201) (mstp021). [swissprot;acc:q9bzj0] 1.03299 27.9952
27.182 655 coatomer beta' subunit (beta'-coat protein) (beta'-cop) (p102). [swissprot;acc:p35606] 1.02686 27.912
27.1942 836 40s ribosomal protein s27 (metallopan-stimulin 1) (mps-1). [swissprot;acc:p42677] 1.00023 27.188
27.2079 415 nuclear rna export factor 5 (tap-like protein 1) (tapl-1). [swissprot;acc:q9h1b4] 1.07835 29.3397
27.2466 748 60s ribosomal protein l12. [swissprot;acc:p30050] 1.01359 26.8813
27.2528 746 dj999l4.1 (novel protein similar to ribosomal protein l12 (rpl12)). [sptrembl;acc:q9nq02] 1.01368 26.8851
27.2559 744 60s ribosomal protein l12 like protein. [sptrembl;acc:o60886] 1.01372 26.8871
27.2805 Squared 5 1 junctophilin 3 (junctophilin type 3) (jp-3). [swissprot;acc:q8wxh2] 11.544 High confidence 314.926
6 junctophilin 2 (junctophilin type 2) (jp-2). [swissprot;acc:q9br39]
7 sphingomyelin phosphodiesterase 2 (ec 3.1.4.12) (neutral sphingomyelinase) (nsmase) (n-smase) (lyso-platelet activating factor- phospholipase c) (lyso-paf-plc). [swissprot;acc:o60906]
8 db83 protein. [swissprot;acc:p57088]
27.2883 Rooted 609 0 dna-crosslink repair gene snm1. [refseq;acc:nm_014881] 1.03345 Low confidence 28.2011
610 t-cell activation protein phosphatase 2c. [refseq;acc:nm_139283]
27.3392 828 ribosomal protein s27-like protein; 40s ribosomal protein s27 isoform. [refseq;acc:nm_015920] 1.00128 27.3043
27.3399 599 ubiquitin and ribosomal protein s27a precursor; ubiquitin carboxyl extension protein 80; 40s ribosomal protein s27a; ubiquitin; ubiquitin-cep80. [refseq;acc:nm_002954] 1.03553 26.4018
27.399 416 40s ribosomal protein s2 (s4) (llrep3 protein). [swissprot;acc:p15880] 1.07826 25.4103
27.4107 713 rna binding protein. [refseq;acc:nm_032509] 1.01833 26.9172
27.4116 256 glycine cleavage system h protein, mitochondrial precursor. [swissprot;acc:p23434] 1.10462 High confidence 24.8155
27.4612 587 elav-like protein 3 (hu-antigen c) (huc) (paraneoplastic cerebellar degeneration-associated antigen) (paraneoplastic limbic encephalitis antigen 21). [swissprot;acc:q14576] 1.03756 Low confidence 28.4926
27.5154 127 fructose-1,6-bisphosphatase isozyme 2 (ec 3.1.3.11) (d-fructose-1,6- bisphosphate 1-phosphohydrolase) (fbpase). [swissprot;acc:o00757] 1.21624 33.4653
27.6157 524 ethanolamine-phosphate cytidylyltransferase (ec 2.7.7.14) (phosphorylethanolamine transferase) (ctp:phosphoethanolamine cytidylyltransferase). [swissprot;acc:q99447] 1.05043 26.2898
27.6396 467 swi/snf related, matrix associated, actin dependent regulator of chromatin subfamily d member 1 (swi/snf complex 60 kda subunit) (brg1- associated factor 60a). [swissprot;acc:q96gm5] 1.06384 25.9809
27.662 635 glucosamine--fructose-6-phosphate aminotransferase [isomerizing] 1 (ec 2.6.1.16) (hexosephosphate aminotransferase 1) (d-fructose-6- phosphate amidotransferase 1) (gfat 1) (gfat1). [swissprot;acc:q06210] 1.02912 28.4675
27.6672 516 integrin beta-3 precursor (platelet membrane glycoprotein iiia) (gpiiia) (cd61 antigen). [swissprot;acc:p05106] 1.05127 26.3179
27.6684 766 creatine kinase, ubiquitous mitochondrial precursor (ec 2.7.3.2) (u- mtck) (mia-ck) (acidic-type mitochondrial creatine kinase). [swissprot;acc:p12532] 1.01076 27.3739
27.6917 449 protein phosphatase methylesterase-1. [refseq;acc:nm_016147] 1.06742 25.9427
27.7265 248 dna mismatch repair protein mlh1 (mutl protein homolog 1). [swissprot;acc:p40692] 1.10868 High confidence 30.7397

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/