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 green Value Type Gene Network Comparison Type red Interaction Map Rank description
Results: HTML CSV LaTeX Showing element 551 to 600 of 77072 in total
Filtered  : 0
Network Comparison Type  : Divided
network_comparison
green
Value Type
red
Interaction Map
Rank
description
1 0.00001 Squared 0.00001 Low confidence 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]
Rooted High confidence 494 histone h2a.c/d/i/n/p (h2a.1) (h2a/c) (h2a/d) (h2a/i) (h2a/n) (h2a/p) (h2a.1b). [swissprot;acc:p02261]
495 histone h2a.a (h2a/a) (h2a.2). [swissprot;acc:p28001]
496 mitochondrial 28s ribosomal protein s6 (mrp-s6). [swissprot;acc:p82932]
497 histone h2a; h2a histone family, member r. [refseq;acc:nm_170745]
498 translin-associated protein x (translin-associated factor x). [swissprot;acc:q99598]
499 homogentisate 1,2-dioxygenase (ec 1.13.11.5) (homogentisicase) (homogentisate oxygenase) (homogentisic acid oxidase). [swissprot;acc:q93099]
500 rwd domain containing 1; ptd013 protein; cgi-24 protein. [refseq;acc:nm_015952]
501 h2a histone family, member j isoform 1. [refseq;acc:nm_018267]
502 brca1 associated protein. [refseq;acc:nm_006768]
Low confidence 837 gamma-glutamyltranspeptidase 2 (ec 2.3.2.2) (gamma-glutamyltransferase 2) (fragment). [swissprot;acc:p36268]
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
1.00005 1589.95 Measured 1589.87 myosin heavy chain, cardiac muscle alpha isoform (myhc-alpha). [swissprot;acc:p13533]
1.00007 13844.1 Ranked 13845 protein phosphatase inhibitor 2 (ipp-2). [swissprot;acc:p41236]
1.00008 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]
1.0001 1573.69 Measured 1573.54 Low confidence 835 ethanolamine-phosphate cytidylyltransferase (ec 2.7.7.14) (phosphorylethanolamine transferase) (ctp:phosphoethanolamine cytidylyltransferase). [swissprot;acc:q99447]
1.00015 2710.41 2710.81 834 tbp-associated factor 9l; neuronal cell death-related protein; taf9-like rna polymerase ii, tata box binding protein (tbp)-associated factor, 31 kd; neuronal cell death-related gene in neuron-7; transcription associated factor tafii31l; transcription initiation factor iid, 31kd subunit. [refseq;acc:nm_015975]
1.00017 6792.32 Squared 6791.15 High confidence 492 dj153g14.2 (possible ca binding protein similar to nefa) (fragment). [sptrembl;acc:q9ujn8]
1.0002 9357.07 Measured 9355.21 Low confidence 833 ganglioside induced differentiation associated protein 2; likely ortholog of mouse ganglioside-induced differentiation-associated-protein 2. [refseq;acc:nm_017686]
1.00023 27.1942 Rooted 27.188 836 40s ribosomal protein s27 (metallopan-stimulin 1) (mps-1). [swissprot;acc:p42677]
1.00032 11478.8 Ranked 11482.5 835 dead (asp-glu-ala-asp) box polypeptide 47; hqp0256 protein. [refseq;acc:nm_016355]
1.00033 3507.42 Measured 3506.27 832 signal recognition particle receptor alpha subunit (sr-alpha) (docking protein alpha) (dp-alpha). [swissprot;acc:p08240]
1.00038 33.6926 Rooted 33.7054 835 ero1-like. [refseq;acc:nm_014584]
1.00041 42.6315 42.6139 High confidence 491 clathrin heavy chain 2 (clh-22). [swissprot;acc:p53675]
16322.5 Ranked 16315.8 Low confidence 834 rna helicase-related protein; rna helicase-like protein; sf3b125 dead-box protein. [refseq;acc:nm_007372]
1.00059 25.9014 Rooted 25.9167 putative forkhead box protein kiaa1041. [swissprot;acc:q9upw0]
2411.78 Measured 2410.35 High confidence 493 pyruvate dehydrogenase e1 component alpha subunit, testis-specific form, mitochondrial precursor (ec 1.2.4.1) (pdhe1-a type ii). [swissprot;acc:p29803]
1.00065 1242.41 1243.22 Low confidence 831 hexokinase, type i (ec 2.7.1.1) (hk i) (brain form hexokinase). [swissprot;acc:p19367]
1.00068 28.7389 Rooted 28.7585 833 ran-binding protein 2-like 1 isoform 2; sperm membrane protein bs-63; ran-binding protein 2-like 1. [refseq;acc:nm_032260]
1.00071 26139.1 Squared 26120.5 835 importin alpha-2 subunit (karyopherin alpha-2 subunit) (srp1-alpha) (rag cohort protein 1). [swissprot;acc:p52292]
1.00074 3462.18 Measured 3464.75 830 pyruvate dehydrogenase e1 component alpha subunit, testis-specific form, mitochondrial precursor (ec 1.2.4.1) (pdhe1-a type ii). [swissprot;acc:p29803]
1.00078 12904.6 Ranked 12894.5 833 dj850e9.1 (novel c2h2 type zinc finger protein similar to drosophila scratch (scrt), slug and xenopus snail) (fragment). [sptrembl;acc:q9nq03]
1.00082 28.7 Rooted 28.7235 832 ubiquitin activating enzyme e1-like protein. [refseq;acc:nm_006395]
1.00085 22.2092 22.228 831 transcription factor btf3 homolog 3. [swissprot;acc:q13892]
1.00086 1465.37 Measured 1464.11 829 alpha-nac protein. [sptrembl;acc:q9h009]
1.0009 3041.93 Squared 3044.68 834 scratch; scratch 1. [refseq;acc:nm_031309]

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/