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

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/