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.


Navigation/Query Panel:
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 Value Type description Network Comparison Type Filtered green Rank Interaction Map red network_comparison
Results: HTML CSV LaTeX Showing element 451 to 500 of 38536 in total
Value Type  : Measured
Network Comparison Type  : Divided
description
Filtered
green
Rank
Interaction Map
red
network_comparison
abhydrolase domain containing protein 2 (protein phps1-2). [swissprot;acc:p08910] 1 6145.14 2223 High confidence 5864.49 1.04786
8409 1501 Low confidence 8132.07 1.03405
abl-interactor 2; abl-interacting protein 1 (sh3-containing protein); abl binding protein 3; arg protein tyrosine kinase-binding protein; abl-interactor protein 2b; similar to spectrin sh3 domain binding protein 1. [refseq;acc:nm_005759] 6269.44 1333 High confidence 5803.95 1.0802
8615.12 5008 Low confidence 8608.57 1.00076
abl-philin 2. [refseq;acc:nm_032327] 0 29 83 48 1.65517
1 8230.81 3147 8010.89 1.02745
acetyl-coa acetyltransferase, mitochondrial precursor (ec 2.3.1.9) (acetoacetyl-coa thiolase) (t2). [swissprot;acc:p24752] 7263.48 2304 High confidence 6946.38 1.04565
8352.98 2803 Low confidence 8116.77 1.0291
acetyl-coa carboxylase 1 (ec 6.4.1.2) (acc-alpha) [includes: biotin carboxylase (ec 6.3.4.14)]. [swissprot;acc:q13085] 7768.35 1514 High confidence 7232.14 1.07414
8660.53 1236 Low confidence 8359.88 1.03596
acetyl-coa carboxylase 2 (ec 6.4.1.2) (acc-beta) [includes: biotin carboxylase (ec 6.3.4.14)]. [swissprot;acc:o00763] 7775.21 1509 High confidence 7237.39 1.07431
8661.79 1231 Low confidence 8360.8 1.036
acetyl-coenzyme a acetyltransferase 2; acetoacetyl coenzyme a thiolase. [refseq;acc:nm_005891] 8173.95 3498 7966.69 1.02602
acetyl-coenzyme a synthetase, cytoplasmic (ec 6.2.1.1) (acetate--coa ligase) (acyl-activating enzyme) (acetyl-coa synthetase) (acs) (acecs). [swissprot;acc:q9nr19] 7317.15 2342 High confidence 7007.72 1.04416
8363.76 2801 Low confidence 8127.23 1.0291
acetyl-coenzyme a transporter. [refseq;acc:nm_004733] 8356.16 3505 8144.55 1.02598
acid ceramidase precursor (ec 3.5.1.23) (acylsphingosine deacylase) (n-acylsphingosine amidohydrolase) (ac) (putative 32 kda heart protein) (php32). [swissprot;acc:q13510] 7261.98 1893 High confidence 6830.4 1.06319
8403.98 1103 Low confidence 8103.05 1.03714
acid sphingomyelinase-like phosphodiesterase 3a (ec 3.1.4.-) (asm-like phosphodiesterase 3a) (fragment). [swissprot;acc:q92484] 8250.36 2945 8023.46 1.02828
acid sphingomyelinase-like phosphodiesterase 3b precursor (ec 3.1.4.-) (asm-like phosphodiesterase 3b). [swissprot;acc:q92485] 2953
acidic 82 kda protein mrna. [refseq;acc:nm_014597] 8103.49 4512 7957.9 1.0183
acidic leucine-rich nuclear phosphoprotein 32 family member a (potent heat-stable protein phosphatase 2a inhibitor i1pp2a) (hla-dr associated protein i) (phapi) (acidic nuclear phosphoprotein pp32) (cerebellar leucine rich acidic nuclear protein). [swissprot;acc:p39687] 7935.35 932 7637.56 1.03899
acidic leucine-rich nuclear phosphoprotein 32 family member b (phapi2 protein) (silver-stainable protein ssp29) (acidic protein rich in leucines). [swissprot;acc:q92688] 935
acidic leucine-rich nuclear phosphoprotein 32 family member c (tumorigenic protein pp32r1). [swissprot;acc:o43423] 0 53 98 35 1.51429
1 7935.35 931 7637.56 1.03899
acidic leucine-rich nuclear phosphoprotein 32 family member d (tumorigenic protein pp32r2). [swissprot;acc:o95626] 0 53 99 35 1.51429
1 7935.35 933 7637.56 1.03899
aconitate hydratase, mitochondrial precursor (ec 4.2.1.3) (citrate hydro-lyase) (aconitase). [swissprot;acc:q99798] 8523.75 3609 8312.07 1.02547
acrc protein; putative nuclear protein. [refseq;acc:nm_052957] 0 1119.1 345 1272.43 1.13701
3340.03 177 High confidence 4131.06 1.23683
1 6335.95 1172 5826.32 1.08747
8346.74 2162 Low confidence 8091.44 1.03155
actin binding lim protein 2. [refseq;acc:nm_032432] 6340.86 1012 High confidence 5791.82 1.0948
7921.78 1805 Low confidence 7670 1.03283
actin, alpha cardiac. [swissprot;acc:p04270] 8251.68 4021 8073.06 1.02213
actin, aortic smooth muscle (alpha-actin 2). [swissprot;acc:p03996] 0 2071.52 818 2076.36 1.00234
1 8251.74 4022 8073.12 1.02213
actin, cytoplasmic 2 (gamma-actin). [swissprot;acc:p02571] 0 739.623 378 High confidence 703.068 1.05199
2058.14 714 Low confidence 2090.86 1.0159
1 6512.64 1354 High confidence 6036.22 1.07893
8213.1 3418 Low confidence 8001.89 1.0264
actin, gamma-enteric smooth muscle (alpha-actin 3). [swissprot;acc:p12718] 8251.74 4020 8073.12 1.02213
actin-binding lim protein 1 isoform a; lim actin-binding protein 1; limatin; actin-binding lim protein. [refseq;acc:nm_002313] 6340.86 1020 High confidence 5791.82 1.0948
7921.78 1809 Low confidence 7670 1.03283
actin-like protein 2 (actin-related protein 2). [swissprot;acc:o15142] 5744.89 1778 High confidence 5386.37 1.06656
8289.58 1962 Low confidence 8030.15 1.03231
actin-like protein 3 (actin-related protein 3) (actin-2). [swissprot;acc:p32391] 5744.89 1783 High confidence 5386.37 1.06656
8120.1 1136 Low confidence 7831.22 1.03689
actin-related protein 2/3 complex subunit 1a (sop2-like protein). [swissprot;acc:q92747] 5744.89 1786 High confidence 5386.37 1.06656
8289.89 3039 Low confidence 8064.64 1.02793

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/