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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Rank Gene Value Type description Network Comparison Type Interaction Map Filtered red green network_comparison
Results: HTML CSV LaTeX Showing element 2451 to 2500 of 12912 in total
Network Comparison Type  : Divided
Interaction Map  : High confidence
Filtered  : 1
Rank
Value Type
description
red
green
network_comparison
613 Squared n-terminal acetyltransferase complex ard1 subunit homolog (ec 2.3.1.-). [swissprot;acc:p41227] 17550.2 20701.1 1.17954
Rooted n-myc proto-oncogene protein. [swissprot;acc:p04198] 57.1971 61.7626 1.07982
614 Measured solute carrier family 4 (anion exchanger), member 1, adaptor protein; kidney anion exchanger adaptor protein; kanadaptin; lung cancer oncogene 3. [refseq;acc:nm_018158] 11222.2 9948.93 1.12798
Ranked homeobox protein hox-a10 (hox-1h) (hox-1.8) (pl). [swissprot;acc:p31260] 214.257 202.125 1.06002
Squared coatomer beta' subunit (beta'-coat protein) (beta'-cop) (p102). [swissprot;acc:p35606] 51527.6 43689.1 1.17942
Rooted ga binding protein alpha chain (gabp-alpha subunit) (transcription factor e4tf1-60) (nuclear respiratory factor-2 subunit alpha). [swissprot;acc:q06546] 57.2007 61.7615 1.07973
615 Measured cyclin-dependent kinases regulatory subunit 2 (cks-2). [swissprot;acc:p33552] 11222.2 9948.93 1.12798
Ranked homeobox protein hox-b9 (hox-2e) (hox-2.5). [swissprot;acc:p17482] 214.257 202.132 1.05999
Squared coatomer gamma subunit (gamma-coat protein) (gamma-cop). [swissprot;acc:q9y678] 51527.6 43689.1 1.17942
Rooted ga binding protein beta-2 chain (gabp-beta-2 subunit) (transcription factor e4tf1-47) (gapbp-2) (nuclear respiratory factor-2 subunit gamma). [swissprot;acc:q06545] 57.2007 61.7615 1.07973
616 Measured catenin (cadherin-associated protein), alpha-like 1; alpha-catulin. [refseq;acc:nm_003798] 11222.2 9948.93 1.12798
Ranked homeobox protein hox-a9 (hox-1g). [swissprot;acc:p31269] 214.257 202.132 1.05999
Squared coatomer zeta-1 subunit (zeta-1 coat protein) (zeta-1 cop) (cgi-120) (hspc181). [swissprot;acc:q9y3c3] 51527.6 43689.1 1.17942
Rooted nadh-ubiquinone oxidoreductase 23 kda subunit, mitochondrial precursor (ec 1.6.5.3) (ec 1.6.99.3) (complex i-23kd) (ci-23kd) (tyky subunit). [swissprot;acc:o00217] 57.2007 61.7615 1.07973
617 Measured dynein intermediate chain 1, cytosolic (dh ic-1) (cytoplasmic dynein intermediate chain 1). [swissprot;acc:o14576] 5162.52 5822.47 1.12783
Ranked homeobox protein hox-c9 (hox-3b). [swissprot;acc:p31274] 214.257 202.135 1.05997
Squared coatomer delta subunit (delta-coat protein) (delta-cop) (archain). [swissprot;acc:p48444] 51527.6 43689.1 1.17942
Rooted elongation of very long chain fatty acids protein 1 (cgi-88). [swissprot;acc:q9bw60] 57.2008 61.7614 1.07973
618 Measured nucleoside diphosphate kinase 3 (ec 2.7.4.6) (ndk 3) (ndp kinase 3) (nm23-h3) (dr-nm23). [swissprot;acc:q13232] 7878.27 8879.08 1.12703
Ranked gamma-aminobutyric-acid receptor gamma-3 subunit precursor (gaba(a) receptor). [swissprot;acc:q99928] 214.256 202.139 1.05994
Squared peptidyl-prolyl cis-trans isomerase e (ec 5.2.1.8) (ppiase e) (rotamase e) (cyclophilin e) (cyclophilin 33). [swissprot;acc:q9unp9] 51527.6 43689.1 1.17942
Rooted myc proto-oncogene protein (c-myc). [swissprot;acc:p01106] 57.208 61.7592 1.07956
619 Measured nucleolar protein nop56 (nucleolar protein 5a). [swissprot;acc:o00567] 3879.99 4371.24 1.12661
Ranked forkhead box protein g1c (forkhead-related protein fkhl3) (hfk3) (fragment). [swissprot;acc:q14488] 214.256 202.139 1.05994
Squared coatomer zeta-2 subunit (zeta-2 coat protein) (zeta-2 cop). [swissprot;acc:q9p299] 51527.6 43689.1 1.17942
Rooted dendritic cell protein. [refseq;acc:nm_006360] 63.847 68.8873 1.07894
620 Measured ferritin heavy chain (ferritin h subunit). [swissprot;acc:p02794] 6227.87 7012.9 1.12605
Ranked gamma-aminobutyric-acid receptor gamma-1 subunit precursor (gaba(a) receptor). [swissprot;acc:q8n1c3] 214.256 202.14 1.05994
Squared homeobox protein hox-d9 (hox-4c) (hox-5.2). [swissprot;acc:p28356] 32208.8 37986.6 1.17939
Rooted potential carboxypeptidase-like protein x2 precursor. [swissprot;acc:q8n436] 63.847 68.8873 1.07894
621 Measured ftsj homolog 3; likely ortholog of mouse ectoplacental cone, invasive trophoblast giant cells, extraembryonic ectoderm and chorion sequence 3. [refseq;acc:nm_017647] 4115.39 4633.96 1.12601
Ranked gamma-aminobutyric-acid receptor alpha-2 subunit precursor (gaba(a) receptor). [swissprot;acc:p47869] 214.256 202.14 1.05994
Squared nadh-ubiquinone oxidoreductase b14 subunit (ec 1.6.5.3) (ec 1.6.99.3) (complex i-b14) (ci-b14). [swissprot;acc:p56556] 32193.3 37967.7 1.17937
Rooted carboxypeptidase n catalytic chain precursor (ec 3.4.17.3) (arginine carboxypeptidase) (kininase 1) (serum carboxypeptidase n) (scpn) (anaphylatoxin inactivator) (plasma carboxypeptidase b). [swissprot;acc:p15169] 63.847 68.8873 1.07894
622 Measured mitochondrial ferritin; ferritin heavy chain-like; ferritin h subunit. [refseq;acc:nm_177478] 6228.42 7013.21 1.126
Ranked gamma-aminobutyric-acid receptor alpha-6 subunit precursor (gaba(a) receptor). [swissprot;acc:q16445] 214.256 202.14 1.05994
Squared gamma-aminobutyric-acid receptor gamma-3 subunit precursor (gaba(a) receptor). [swissprot;acc:q99928] 32192.5 37966.8 1.17937
Rooted cpz gene product. [refseq;acc:nm_003652] 63.847 68.8873 1.07894
623 Measured cellular repressor of e1a-stimulated genes 2. [refseq;acc:nm_153836] 6228.39 7013.19 1.126
Ranked gamma-aminobutyric-acid receptor gamma-2 subunit precursor (gaba(a) receptor). [swissprot;acc:p18507] 214.256 202.14 1.05994
Squared similar to expressed sequence aa415817. [sptrembl;acc:q8n4q9] 32193.3 37967.7 1.17937
Rooted carboxypeptidase h precursor (ec 3.4.17.10) (cph) (carboxypeptidase e) (cpe) (enkephalin convertase) (prohormone processing carboxypeptidase). [swissprot;acc:p16870] 63.847 68.8873 1.07894
624 Measured dj681n20.2 (novel protein similar to ferritin, light polypeptide (ftl)). [sptrembl;acc:q9byw6] 6228.39 7013.19 1.126
Ranked interleukin-1 receptor-associated kinase 4; interleukin-1 receptor associated kinase 4. [refseq;acc:nm_016123] 214.256 202.139 1.05994
Squared forkhead box protein g1c (forkhead-related protein fkhl3) (hfk3) (fragment). [swissprot;acc:q14488] 32192.5 37966.8 1.17937
Rooted potential carboxypeptidase x precursor (ec 3.4.17.-) (metallocarboxypeptidase cpx-1). [swissprot;acc:q96sm3] 63.847 68.8873 1.07894
625 Measured disks large-associated protein 1 (dap-1) (guanylate kinase-associated protein) (hgkap) (sap90/psd-95-associated protein 1) (sapap1) (psd- 95/sap90 binding protein 1). [swissprot;acc:o14490] 6228.39 7013.19 1.126
Ranked gamma-aminobutyric-acid receptor alpha-4 subunit precursor (gaba(a) receptor). [swissprot;acc:p48169] 214.256 202.14 1.05994
Squared gamma-aminobutyric-acid receptor gamma-1 subunit precursor (gaba(a) receptor). [swissprot;acc:q8n1c3] 32192.6 37966.9 1.17937
Rooted serine protease htra2, mitochondrial precursor (ec 3.4.21.-) (high temperature requirement protein a2) (htra2) (omi stress-regulated endoprotease) (serine proteinase omi). [swissprot;acc:o43464] 59.6678 64.3767 1.07892

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/