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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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 [...,...].
Rank Value Type Gene description Network Comparison Type Filtered Interaction Map red network_comparison green
Results: HTML CSV LaTeX Showing element 1 to 50 of 38536 in total
Network Comparison Type  : Divided
Rank
Value Type
description
Filtered
Interaction Map
red
network_comparison
green
1 Measured lysosome-associated membrane glycoprotein 1 precursor (lamp-1) (cd107a antigen). [swissprot;acc:p11279] 1 Low confidence 2399.5 4.4149 543.5
mitochondrial 28s ribosomal protein s32 (s32mt) (mrp-s32) (ptd007) (hspc204). [swissprot;acc:q9y6g3] 0 High confidence 364 36400000 0.00001
Low confidence
rad50-interacting protein 1. [refseq;acc:nm_021930] 1 High confidence 450.5 5.31521 2394.5
Ranked adp-ribosylation factor gtpase-activating protein 3 (arf gap 3). [swissprot;acc:q9np61] 0 4294 3.70633 15915
carboxypeptidase d precursor (ec 3.4.17.-) (gp180). [swissprot;acc:o75976] 1 Low confidence 16 2 32
mln 64 protein (star-related lipid transfer protein 3) (stard3) (start domain-containing protein 3) (cab1 protein). [swissprot;acc:q14849] 0 5865 2.55362 14977
putative glialblastoma cell differentiation-related; putative glialblastoma cell differentiation-related protein. [refseq;acc:nm_016172] 1 High confidence 10 2.4 24
Squared cab2. [refseq;acc:nm_033419] 0 0.00001 716592 7.16592
homeobox protein hox-c4 (hox-3e) (cp19). [swissprot;acc:p09017] Low confidence 187479 1.87479
lysosome-associated membrane glycoprotein 1 precursor (lamp-1) (cd107a antigen). [swissprot;acc:p11279] 1 1362.75 19.4914 69.9153
rad50-interacting protein 1. [refseq;acc:nm_021930] High confidence 48.0356 28.2513 1357.07
Rooted lysosome-associated membrane glycoprotein 1 precursor (lamp-1) (cd107a antigen). [swissprot;acc:p11279] Low confidence 48.9847 2.10117 23.3131
mitochondrial 28s ribosomal protein s32 (s32mt) (mrp-s32) (ptd007) (hspc204). [swissprot;acc:q9y6g3] 0 High confidence 19.0788 1907880 0.00001
Low confidence
rad50-interacting protein 1. [refseq;acc:nm_021930] 1 High confidence 21.225 2.30547 48.9336
2 Measured cab2. [refseq;acc:nm_033419] 0 0.00001 17400000 174
cell division protein kinase 4 (ec 2.7.1.37) (cyclin-dependent kinase 4) (psk-j3). [swissprot;acc:p11802] 1 Low confidence 2399.5 4.4149 543.5
homeobox protein hox-c4 (hox-3e) (cp19). [swissprot;acc:p09017] 0 0.00001 8900000 89
rho-related btb domain-containing protein 2 (deleted in breast cancer 2 gene protein) (p83). [swissprot;acc:q9byz6] 1 High confidence 450.5 5.31521 2394.5
Ranked lysosome-associated membrane glycoprotein 1 precursor (lamp-1) (cd107a antigen). [swissprot;acc:p11279] Low confidence 223 1.47982 330
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] High confidence 15 1.86667 28
mitochondrial 28s ribosomal protein s32 (s32mt) (mrp-s32) (ptd007) (hspc204). [swissprot;acc:q9y6g3] 0 Low confidence 8906 2.45711 21883
mln 64 protein (star-related lipid transfer protein 3) (stard3) (start domain-containing protein 3) (cab1 protein). [swissprot;acc:q14849] High confidence 5865 2.55362 14977
Squared cell division protein kinase 4 (ec 2.7.1.37) (cyclin-dependent kinase 4) (psk-j3). [swissprot;acc:p11802] 1 Low confidence 1362.75 19.4914 69.9153
homeobox protein hox-c6 (hox-3c) (hho.c8) (cp25). [swissprot;acc:p09630] 0 0.00001 187479 1.87479
nuclear receptor co-repressor/hdac3 complex subunit tblr1 (tbl1- related protein 1). [swissprot;acc:q9bzk7] High confidence 5.61325 561325 0.00001
rho-related btb domain-containing protein 2 (deleted in breast cancer 2 gene protein) (p83). [swissprot;acc:q9byz6] 1 48.0356 28.2513 1357.07
Rooted cell division protein kinase 4 (ec 2.7.1.37) (cyclin-dependent kinase 4) (psk-j3). [swissprot;acc:p11802] Low confidence 48.9847 2.10117 23.3131
homeobox protein hox-c4 (hox-3e) (cp19). [swissprot;acc:p09017] 0 0.00001 943398 9.43398
nuclear receptor co-repressor/hdac3 complex subunit tblr1 (tbl1- related protein 1). [swissprot;acc:q9bzk7] High confidence 12.4097 1240970 0.00001
rho-related btb domain-containing protein 2 (deleted in breast cancer 2 gene protein) (p83). [swissprot;acc:q9byz6] 1 21.225 2.30547 48.9336
3 Measured cell division protein kinase 6 (ec 2.7.1.37) (serine/threonine protein kinase plstire). [swissprot;acc:q00534] Low confidence 2399.5 4.4149 543.5
homeobox protein hlx1 (homeobox protein hb24). [swissprot;acc:q14774] High confidence 2597.5 3.71868 698.5
homeobox protein hox-c6 (hox-3c) (hho.c8) (cp25). [swissprot;acc:p09630] 0 Low confidence 0.00001 8900000 89
pyridoxine 5'-phosphate oxidase. [refseq;acc:nm_018129] High confidence 10900000 109
Ranked cell division protein kinase 4 (ec 2.7.1.37) (cyclin-dependent kinase 4) (psk-j3). [swissprot;acc:p11802] 1 Low confidence 223 1.47982 330
cytohesin 1 (sec7 homolog b2-1). [swissprot;acc:q15438] High confidence 15 1.86667 28
neurogenic locus notch homolog protein 1 precursor (notch 1) (hn1) (translocation-associated notch protein tan-1). [swissprot;acc:p46531] 0 Low confidence 9607 2.14604 20617
nif3-like protein 1 (amyotrophic lateral sclerosis 2 chromosomal region candidate gene protein 1) (my018 protein) (mds015). [swissprot;acc:q9gzt8] High confidence 4475.84 2.47638 11083.9
Squared cell division protein kinase 6 (ec 2.7.1.37) (serine/threonine protein kinase plstire). [swissprot;acc:q00534] 1 Low confidence 1362.75 19.4914 69.9153
homeobox protein hlx1 (homeobox protein hb24). [swissprot;acc:q14774] High confidence 1596.92 13.8285 115.48
homeobox protein hox-a4 (hox-1d) (hox-1.4). [swissprot;acc:q00056] 0 Low confidence 0.00001 187479 1.87479
transducin beta-like 1y protein (transducin-beta-like 1, y-linked). [swissprot;acc:q9bq87] High confidence 5.61325 561325 0.00001
Rooted cell division protein kinase 6 (ec 2.7.1.37) (serine/threonine protein kinase plstire). [swissprot;acc:q00534] 1 Low confidence 48.9847 2.10117 23.3131
homeobox protein hlx1 (homeobox protein hb24). [swissprot;acc:q14774] High confidence 50.9657 1.92839 26.4292
homeobox protein hox-c6 (hox-3c) (hho.c8) (cp25). [swissprot;acc:p09630] 0 Low confidence 0.00001 943398 9.43398
transducin beta-like 1y protein (transducin-beta-like 1, y-linked). [swissprot;acc:q9bq87] High confidence 12.4097 1240970 0.00001
4 Measured hbs1-like. [refseq;acc:nm_006620] 1 2597.5 3.71868 698.5
homeobox protein hox-a4 (hox-1d) (hox-1.4). [swissprot;acc:q00056] 0 Low confidence 0.00001 8900000 89

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.

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