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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Network Comparison Type Value Type Gene description Rank green network_comparison red Filtered Interaction Map
Results: HTML CSV LaTeX Showing element 1551 to 1600 of 3228 in total
Network Comparison Type  : Divided
Value Type  : Ranked
Filtered  : 1
Interaction Map  : High confidence
description
Rank
green
network_comparison
red
lin-7 homolog a; vertebrate lin7 homolog 1; tax interaction protein 33; mammalian lin-7 1. [refseq;acc:nm_004664] 1987 222.9 1.00952 225.022
lin-7 homolog b; lin-7b protein; likely ortholog of mouse lin-7b; mammalian lin-7 protein 2; likely orholog of mouse lin 7 homolog b (c. elegans). [refseq;acc:nm_022165] 2001 222.948 1.00929 225.02
lin-7 homolog c; lin-7 protein 3. [refseq;acc:nm_018362] 2027 223.041 1.00885 225.015
lipoamide acyltransferase component of branched-chain alpha-keto acid dehydrogenase complex, mitochondrial precursor (ec 2.3.1.-) (e2) (dihydrolipoamide branched chain transacylase) (bckad e2 subunit). [swissprot;acc:p11182] 2582 213.75 1.00154 213.422
lipoate-protein ligase, mitochondrial precursor (ec 6.-.-.-) (lipoate biosynthesis protein) (lipoyl ligase) (lipoyltransferase). [swissprot;acc:q9y234] 1738 209.258 1.01289 206.595
lipocalin-interacting membrane receptor. [refseq;acc:nm_018113] 2465 235.088 1.00308 235.812
lipoic acid synthetase, mitochondrial (lip-syn) (lipoate synthase) (hussy-01) (fragment). [swissprot;acc:o43766] 1347 209.517 1.02223 204.961
lipopolysaccharide-binding protein precursor (lbp). [swissprot;acc:p18428] 753 235.583 1.04968 224.434
lipopolysaccharide-responsive and beige-like anchor protein (cdc4-like protein) (beige-like protein). [swissprot;acc:p50851] 1569 224.767 1.01646 221.128
liv-1 protein, estrogen regulated. [refseq;acc:nm_012319] 164 249.187 1.19058 209.299
loh1cr12. [refseq;acc:nm_058169] 827 220.579 1.0431 230.087
lon protease homolog, mitochondrial precursor (ec 3.4.21.-) (lon protease-like protein) (lonp) (lonhs). [swissprot;acc:p36776] 1810 225.827 1.01171 223.214
low affinity immunoglobulin epsilon fc receptor (lymphocyte ige receptor) (fc-epsilon-rii) (cd23) (blast-2) (immunoglobulin e-binding factor). [swissprot;acc:p06734] 419 253.197 1.08417 233.539
luc7-like 2; cgi-74 protein; cgi-59 protein. [refseq;acc:nm_016019] 205 200.968 1.13501 228.1
luc7-like; sarcoplasmic reticulum protein luc7b1. [refseq;acc:nm_018032] 206 201.006 1.13472 228.085
lupus la protein (sjogren syndrome type b antigen) (ss-b) (la ribonucleoprotein) (la autoantigen). [swissprot;acc:p05455] 536 227.136 1.06778 242.531
lyl-1 protein (lymphoblastic leukemia derived sequence 1). [swissprot;acc:p12980] 3107 0.00001 1 0.00001
lymphoid enhancer binding factor 1 (lef-1) (t cell-specific transcription factor 1-alpha) (tcf1-alpha). [swissprot;acc:q9uju2] 603 212.945 1.0605 225.829
lysophospholipase i; lysophospholipase 1; lysophospholipid-specific lysophospholipase; acyl-protein thioesterase-1. [refseq;acc:nm_006330] 2410 193.706 1.00362 194.407
lysophospholipase ii; acyl-protein thioesterase. [refseq;acc:nm_007260] 2412
lysosomal acid lipase/cholesteryl ester hydrolase precursor (ec 3.1.1.13) (lal) (acid cholesteryl ester hydrolase) (sterol esterase) (lipase a) (cholesteryl esterase). [swissprot;acc:p38571] 2116 213.14 1.007 214.632
lysosomal alpha-mannosidase precursor (ec 3.2.1.24) (mannosidase, alpha b) (lysosomal acid alpha-mannosidase) (laman) (mannosidase alpha class 2b member 1). [swissprot;acc:o00754] 2210 200.413 1.00645 199.129
lysosomal trafficking regulator (beige homolog). [swissprot;acc:q99698] 2929 0.00001 1 0.00001
lysyl-trna synthetase (ec 6.1.1.6) (lysine--trna ligase) (lysrs). [swissprot;acc:q15046] 1101 226.584 1.02857 220.291
m-phase inducer phosphatase 1 (ec 3.1.3.48) (dual specificity phosphatase cdc25a). [swissprot;acc:p30304] 1343 252.916 1.02231 258.558
m-phase inducer phosphatase 2 (ec 3.1.3.48) (dual specificity phosphatase cdc25b). [swissprot;acc:p30305] 1642 256.531 1.01457 260.269
m-phase inducer phosphatase 3 (ec 3.1.3.48) (dual specificity phosphatase cdc25c). [swissprot;acc:p30307] 1504 254.797 1.01822 259.439
mab-21-like protein 1; mab-21-like 1. [refseq;acc:nm_005584] 2786 0.00001 1 0.00001
mab-21-like protein 2; mab-21-like 2. [refseq;acc:nm_006439] 2783
mad protein (max dimerizer). [swissprot;acc:q05195] 253 204.333 1.11583 228
mago nashi protein homolog. [swissprot;acc:p50606] 2864 0.00001 1 0.00001
maguk p55 subfamily member 2 (mpp2 protein) (discs, large homolog 2). [swissprot;acc:q14168] 1467 232.983 1.01956 228.513
maguk p55 subfamily member 3 (mpp3 protein) (discs, large homolog 3). [swissprot;acc:q13368] 2088 216.433 1.00781 218.124
maguk p55 subfamily member 6 (veli-associated maguk 1) (vam-1). [swissprot;acc:q9nzw5] 1479 232.855 1.0192 228.469
major centromere autoantigen b (centromere protein b) (cenp-b). [swissprot;acc:p07199] 3013 0.00001 1 0.00001
malate dehydrogenase, cytoplasmic (ec 1.1.1.37). [swissprot;acc:p40925] 3213
malate dehydrogenase, mitochondrial precursor (ec 1.1.1.37). [swissprot;acc:p40926] 571 254.099 1.06528 238.529
maleylacetoacetate isomerase (ec 5.2.1.2) (maai) (glutathione s- transferase zeta 1) (ec 2.5.1.18) (gstz1-1). [swissprot;acc:o43708] 954 276.773 1.03487 267.447
malonyl-coa decarboxylase, mitochondrial precursor (ec 4.1.1.9) (mcd). [swissprot;acc:o95822] 1634 212.596 1.01494 215.772
mam domain containing glycosylphosphatidylinositol anchor 1; glycosyl-phosphatidyl-inositol-mam. [refseq;acc:nm_153487] 3070 0.00001 1 0.00001
mannose-6-phosphate isomerase (ec 5.3.1.8) (phosphomannose isomerase) (pmi) (phosphohexomutase). [swissprot;acc:p34949] 1522 223.179 1.01766 219.306
mannose-p-dolichol utilization defect 1 protein (suppressor of lec15 and lec35 glycosylation mutation homolog) (sl15). [swissprot;acc:o75352] 929 218.015 1.03642 225.955
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] 2 28 1.86667 15
map kinase-activated protein kinase 2 (ec 2.7.1.-) (mapk-activated protein kinase 2) (mapkap kinase 2) (mapkapk-2). [swissprot;acc:p49137] 1267 167.177 1.02425 171.231
map/microtubule affinity-regulating kinase 1. [refseq;acc:nm_018650] 922 245.547 1.0372 236.741
map/microtubule affinity-regulating kinase 2 isoform b; elkl motif kinase 1; elkl motif kinase. [refseq;acc:nm_004954] 923
maspin precursor (protease inhibitor 5). [swissprot;acc:p36952] 792 234.511 1.04578 224.244
mast cell carboxypeptidase a precursor (ec 3.4.17.1) (mc-cpa) (carboxypeptidase a3). [swissprot;acc:p15088] 508 190.24 1.07058 177.698
mawd binding protein (unknown protein 32 from 2d-page of liver tissue). [swissprot;acc:p30039] 2411 193.706 1.00362 194.407
max dimerization protein 3; likely ortholog of mouse max dimerization protein 3. [refseq;acc:nm_031300] 259 204.37 1.11562 227.999

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/