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 [...,...].
Filtered network_comparison Gene Network Comparison Type green Value Type red Interaction Map Rank description
Results: HTML CSV LaTeX Showing element 51 to 100 of 77072 in total
Filtered  : 0
Network Comparison Type  : Subtracted
network_comparison
green
Value Type
red
Interaction Map
Rank
description
0 0 Rooted 0 Low confidence 838 gamma-glutamyltransferase-like activity 4; gamma-glutamyltranspeptidase-like. [refseq;acc:nm_080920]
839 cobw-like protein. [refseq;acc:nm_018491]
840 translin-associated protein x (translin-associated factor x). [swissprot;acc:q99598]
841 gamma-glutamyltransferase. [sptrembl;acc:q14390]
842 gamma-glutamyltranspeptidase 1 precursor (ec 2.3.2.2) (gamma- glutamyltransferase 1) (cd224 antigen). [swissprot;acc:p19440]
843 gamma-glutamyltranspeptidase 5 precursor (ec 2.3.2.2) (gamma- glutamyltransferase 5) (ggt-rel). [swissprot;acc:p36269]
394 Ranked 394 High confidence 500 huntingtin interacting protein e; huntingtin interactor protein e. [refseq;acc:nm_007076]
Low confidence 840
17901.1 Squared 17901.1 High confidence 493 3 beta-hydroxysteroid dehydrogenase (fragments). [sptrembl;acc:q9udk8]
Low confidence 836
0.00219609 0 0.00219609 835 tbc1 domain family, member 8 (with gram domain); vascular rab-gap/tbc-containing. [refseq;acc:nm_007063]
0.005 62.8986 Rooted 62.8936 High confidence 492 imp2 inner mitochondrial membrane protease-like; inner mitochondrial membrane peptidase 2 like. [refseq;acc:nm_032549]
493 microsomal signal peptidase 18 kda subunit (ec 3.4.-.-) (spase 18 kda subunit) (spc18) (endopeptidase sp18). [swissprot;acc:p21378]
0.0062 27.1942 27.188 Low confidence 836 40s ribosomal protein s27 (metallopan-stimulin 1) (mps-1). [swissprot;acc:p42677]
0.0128 33.6926 33.7054 835 ero1-like. [refseq;acc:nm_014584]
0.0153 25.9014 25.9167 834 putative forkhead box protein kiaa1041. [swissprot;acc:q9upw0]
0.0176 42.6315 42.6139 High confidence 491 clathrin heavy chain 2 (clh-22). [swissprot;acc:p53675]
0.0188 22.2092 22.228 Low confidence 833 transcription factor btf3 homolog 3. [swissprot;acc:q13892]
0.0196 28.7389 28.7585 832 ran-binding protein 2-like 1 isoform 2; sperm membrane protein bs-63; ran-binding protein 2-like 1. [refseq;acc:nm_032260]
0.023 24.4079 24.4309 High confidence 490 arsenical pump-driving atpase (ec 3.6.3.16) (arsenite-translocating atpase) (arsenical resistance atpase) (arsenite-transporting atpase) (arsa) (asna-i). [swissprot;acc:o43681]
0.0235 28.7 28.7235 Low confidence 831 ubiquitin activating enzyme e1-like protein. [refseq;acc:nm_006395]
0.0287 25.883 25.9117 830 forkhead box protein j1 (forkhead-related protein fkhl13) (hepatocyte nuclear factor 3 forkhead homolog 4) (hfh-4). [swissprot;acc:q92949]
0.0294 22.9676 22.997 High confidence 489 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]
0.0349 27.3392 27.3043 Low confidence 829 ribosomal protein s27-like protein; 40s ribosomal protein s27 isoform. [refseq;acc:nm_015920]
0.0355 28.6975 28.733 828 ran-binding protein 2-like 1 isoform 2; sperm membrane protein bs-63; ran-binding protein 2-like 1. [refseq;acc:nm_032260]
0.037239 0.145878 Squared 0.108639 High confidence 492 4-aminobutyrate aminotransferase, mitochondrial precursor (ec 2.6.1.19) (gamma-amino-n-butyrate transaminase) (gaba transaminase) (gaba aminotransferase) (gaba-at) (gaba-t). [swissprot;acc:p80404]
0.0385 20.9563 Rooted 20.9948 Low confidence 827 dead-box protein. [refseq;acc:nm_018665]
0.0397632 0.0854438 Squared 0.125207 High confidence 491 adp-ribosylation factor-like protein 7 (adp-ribosylation factor-like protein lak). [swissprot;acc:p56559]
Low confidence 834
0.0399 12.4629 Rooted 12.5028 High confidence 488 pepsin a precursor (ec 3.4.23.1). [swissprot;acc:p00790]
0.04 0 Squared 0.04 Low confidence 833 homogentisate 1,2-dioxygenase (ec 1.13.11.5) (homogentisicase) (homogentisate oxygenase) (homogentisic acid oxidase). [swissprot;acc:q93099]
0.041 22.8963 Rooted 22.8553 826 ba395l14.12 (novel protein similar to small nuclear ribonucleoprotein polypeptide a' (snrpa1)). [sptrembl;acc:q9nu36]
0.0423 28.8142 28.7719 825 dj408b20.3 (novel protein similar to 60s acidic ribosomal protein p2 (rplp2)). [sptrembl;acc:q9h5a9]
0.046153 0.227456 Squared 0.273609 832 adapter-related protein complex 2 alpha 1 subunit (alpha-adaptin a) (adaptor protein complex ap-2 alpha-1 subunit) (clathrin assembly protein complex 2 alpha-a large chain) (100 kda coated vesicle protein a) (plasma membrane adaptor ha2/ap2 adaptin alpha a subunit). [swissprot;acc:o95782]
0.0478 26.3602 Rooted 26.3124 824 my016 protein. [sptrembl;acc:q9h3k6]
0.0511 25.3889 25.44 High confidence 487 dj470l14.3 (novel protein similar to the arp2/3 protein complex subunit p21-arc (arc21)). [sptrembl;acc:q9h5b6]
0.0521 25.8508 25.9029 Low confidence 823 forkhead box protein f1 (forkhead-related protein fkhl5) (forkhead- related transcription factor 1) (freac-1) (forkhead-related activator- 1). [swissprot;acc:q12946]
0.05248 6.30196 6.24948 High confidence 486 adapter-related protein complex 1 sigma 1b subunit (sigma-adaptin 1b) (adaptor protein complex ap-1 sigma-1b subunit) (golgi adaptor ha1/ap1 adaptin sigma-1b subunit) (clathrin assembly protein complex 1 sigma- 1b small chain) (sigma 1b subunit of ap-1 clathrin) (dc22). [swissprot;acc:p56377]
0.0530177 0.0532544 Squared 0.000236686 490 protein transport protein sec24c (sec24-related protein c). [swissprot;acc:p53992]
0.0534 31.685 Rooted 31.7384 Low confidence 822 histone h1.4 (histone h1b). [swissprot;acc:p10412]
0.0554 18.4766 18.532 821 glycogenin-2 (ec 2.4.1.186) (gn-2) (gn2). [swissprot;acc:o15488]
0.058935 0.378698 Squared 0.437633 831 probable mitochondrial import receptor subunit tom7 homolog (translocase of outer membrane 7 kda subunit homolog) (protein ad- 014). [swissprot;acc:q9p0u1]
0.0609467 0.0318343 0.092781 High confidence 489 protocadherin 16 precursor (cadherin 19) (cadherin fibroblast 1). [swissprot;acc:q96jq0]
Low confidence 830
0.0615 26.7508 Rooted 26.6893 820 40s ribosomal protein s26. [swissprot;acc:p02383]
0.0622 25.8368 25.899 819 forkhead box protein d4 (forkhead-related protein fkhl9) (forkhead- related transcription factor 5) (freac-5) (myeloid factor-alpha). [swissprot;acc:q12950]
0.0639 21.5864 21.5225 818 tubulin beta-5 chain (tubulin 5 beta). [swissprot;acc:p04350]
0.0643 25.834 25.8983 817 forkhead box protein d4b (myeloid factor-gamma). [swissprot;acc:q8wxt5]
0.0653 25.8326 25.8979 816 forkhead box protein d4-like 1. [swissprot;acc:q9nu39]
0.069 30.6032 30.6722 815 limbic system-associated membrane protein precursor (lsamp). [swissprot;acc:q13449]

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/