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.


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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 Gene description Value Type Network Comparison Type Interaction Map Filtered red green network_comparison
Results: HTML CSV LaTeX Showing element 3530 to 3579 of 6456 in total
Value Type  : Ranked
Interaction Map  : High confidence
Filtered  : 1
Rank
description
Network Comparison Type
red
green
network_comparison
1765 t-complex 11. [refseq;acc:nm_018679] Subtracted 206.595 209.258 2.663
1766 c-1-tetrahydrofolate synthase, cytoplasmic (c1-thf synthase) [includes: methylenetetrahydrofolate dehydrogenase (ec 1.5.1.5); methenyltetrahydrofolate cyclohydrolase (ec 3.5.4.9); formyltetrahydrofolate synthetase (ec 6.3.4.3)]. [swissprot;acc:p11586] Divided 228.932 231.732 1.01223
tubulin gamma-2 chain (gamma-2 tubulin). [swissprot;acc:q9nrh3] Subtracted 206.595 209.258 2.663
1767 60s ribosomal protein l24 (l30). [swissprot;acc:p38663] Divided 201.288 198.86 1.01221
homeobox protein prh (hematopoietically expressed homeobox) (homeobox protein hex). [swissprot;acc:q03014] Subtracted 198.014 195.385 2.629
1768 estradiol 17 beta-dehydrogenase 4 (ec 1.1.1.62) (17-beta-hsd 4) (17-beta-hydroxysteroid dehydrogenase 4). [swissprot;acc:p51659] Divided 185.276 187.534 1.01219
lon protease homolog, mitochondrial precursor (ec 3.4.21.-) (lon protease-like protein) (lonp) (lonhs). [swissprot;acc:p36776] Subtracted 223.214 225.827 2.613
1769 5'-methylthioadenosine phosphorylase (ec 2.4.2.28) (mta phosphorylase) (mtapase). [swissprot;acc:q13126] Divided 223.016 225.734 1.01219
nucleoporin like 1. [refseq;acc:nm_014089] Subtracted 216.878 214.286 2.592
1770 adaptor-related protein complex 1, mu 1 subunit (mu-adaptin 1) (adaptor protein complex ap-1 mu-1 subunit) (golgi adaptor ha1/ap1 adaptin mu-1 subunit) (clathrin assembly protein assembly protein complex 1 medium chain 1) (clathrin coat assembly protein ap47) (clathrin coat associated protein ap47) (ap-mu chain family member mu1a). [swissprot;acc:q9bxs5] Divided 221.082 223.778 1.01219
rho guanine nucleotide exchange factor 4 isoform a; apc-stimulated guanine nucleotide exchange factor. [refseq;acc:nm_015320] Subtracted 216.878 214.286 2.592
1771 cdc42 guanine exchange factor 9; hpem-2 collybistin. [refseq;acc:nm_015185]
putative ribosomal rna methyltransferase 1 (ec 2.1.1.-) (rrna (uridine-2'-o-)-methyltransferase) (jm23 protein). [swissprot;acc:q9uet6] Divided 223.016 225.734 1.01219
1772 dna mismatch repair protein mlh3 (mutl protein homolog 3). [swissprot;acc:q9uhc1] Subtracted 206.058 203.485 2.573
spectrin beta chain, brain 2 (spectrin, non-erythroid beta chain 2) (beta-iii spectrin). [swissprot;acc:o15020] Divided 223.032 225.739 1.01214
1773 elav-like protein 3 (hu-antigen c) (huc) (paraneoplastic cerebellar degeneration-associated antigen) (paraneoplastic limbic encephalitis antigen 21). [swissprot;acc:q14576] Subtracted 217.866 215.295 2.571
spectrin beta chain, brain 1 (spectrin, non-erythroid beta chain 1) (beta-ii spectrin) (fodrin beta chain). [swissprot;acc:q01082] Divided 223.032 225.739 1.01214
1774 elav-like protein 4 (paraneoplastic encephalomyelitis antigen hud) (hu-antigen d). [swissprot;acc:p26378] Subtracted 217.766 215.199 2.567
phosphoacetylglucosamine mutase (ec 5.4.2.3) (pagm) (acetylglucosamine phosphomutase) (n-acetylglucosamine-phosphate mutase) (phosphoglucomutase 3). [swissprot;acc:o95394] Divided 223.032 225.739 1.01214
1775 elav-like protein 2 (hu-antigen b) (hub) (elav-like neuronal protein 1) (nervous system-specific rna binding protein hel-n1). [swissprot;acc:q12926] Subtracted 217.724 215.158 2.566
serine palmitoyltransferase 1 (ec 2.3.1.50) (long chain base biosynthesis protein 1) (lcb 1) (serine-palmitoyl-coa transferase 1) (spt 1) (spt1). [swissprot;acc:o15269] Divided 207.757 210.274 1.01212
1776 elav-like protein 1 (hu-antigen r) (hur). [swissprot;acc:q15717] Subtracted 217.807 215.242 2.565
nucleoporin like 1. [refseq;acc:nm_014089] Divided 216.878 214.286 1.0121
1777 6-phosphofructokinase, type c (ec 2.7.1.11) (phosphofructokinase 1) (phosphohexokinase) (phosphofructo-1-kinase isozyme c) (pfk-c) (6-phosphofructokinase, platelet type). [swissprot;acc:q01813] Subtracted 240.317 242.881 2.564
rho guanine nucleotide exchange factor 4 isoform a; apc-stimulated guanine nucleotide exchange factor. [refseq;acc:nm_015320] Divided 216.878 214.286 1.0121
1778 cdc42 guanine exchange factor 9; hpem-2 collybistin. [refseq;acc:nm_015185]
cug triplet repeat rna-binding protein 1 (cug-bp1) (rna-binding protein brunol-2) (deadenylation factor cug-bp) (50 kda nuclear polyadenylated rna-binding protein) (eden-bp). [swissprot;acc:q92879] Subtracted 217.984 215.441 2.543
1779 pre-b-cell leukemia transcription factor-1 (homeobox protein pbx1) (homeobox protein prl). [swissprot;acc:p40424] Divided 206.332 203.874 1.01206
ribonuclease hi large subunit (ec 3.1.26.-) (rnase hi large subunit) (rnase h(35)) (ribonuclease h2) (rnase h2). [swissprot;acc:o75792] Subtracted 210.997 213.539 2.542
1780 cug triplet repeat, rna binding protein 2; elav-type rna-binding protein; cug triplet repeat,rna-binding protein 2; cug triplet repeat, rna-binding protein 2; neuroblastoma apoptosis-related rna-binding protein. [refseq;acc:nm_006561] 217.984 215.442
germ cell-less. [refseq;acc:nm_022471] Divided 206.335 203.877 1.01206
1781 dpy-30-like protein. [swissprot;acc:q9c005] Subtracted 220.462 217.926 2.536
pre-b-cell leukemia transcription factor-3 (homeobox protein pbx3). [swissprot;acc:p40426] Divided 206.332 203.874 1.01206
1782 hyporthetical protein mgc27169. [refseq;acc:nm_176782]
rab coupling protein; rab-interacting recycling protein; rab effector protein; rab11-family interacting protein 1. [refseq;acc:nm_025151] Subtracted 220.462 217.926 2.536
1783 gamma-snap-associated factor 1; rab11-interacting protein. [refseq;acc:nm_015470]
homeobox protein meis1. [swissprot;acc:o00470] Divided 206.332 203.874 1.01206
1784 homeobox protein meis2 (meis1-related protein 1). [swissprot;acc:o14770]
neighbor of cox4. [swissprot;acc:o43402] Subtracted 220.462 217.926 2.536
1785 bag-family molecular chaperone regulator-2. [swissprot;acc:o95816] Divided 206.332 203.874 1.01206
protein c14orf122 (cgi-112). [swissprot;acc:q9y3b6] Subtracted 220.462 217.926 2.536
1786 potential phospholipid-transporting atpase iia (ec 3.6.1.-). [swissprot;acc:o75110]
pre-b-cell leukemia transcription factor-2 (homeobox protein pbx2) (g17 protein). [swissprot;acc:p40425] Divided 206.332 203.874 1.01206
1787 alpha-actinin 2 (alpha actinin skeletal muscle isoform 2) (f-actin cross linking protein). [swissprot;acc:p35609] Subtracted 217.016 214.481 2.535
pre-b-cell leukemia transcription factor 4. [refseq;acc:nm_025245] Divided 206.332 203.874 1.01206
1788 dual-specificity tyrosine-phosphorylation regulated kinase 1a (ec 2.7.1.-) (protein kinase minibrain homolog) (mnbh) (hp86) (dual specificity yak1-related kinase). [swissprot;acc:q13627] Subtracted 217.011 214.481 2.53
homeobox protein meis3 (meis1-related protein 2) (fragment). [swissprot;acc:q99687] Divided 206.332 203.874 1.01206
1789 elongation protein 4 homolog; pax6 neighbor gene; chromosome 11 open reading frame 19. [refseq;acc:nm_019040] Subtracted 217.011 214.481 2.53
ribonuclease hi large subunit (ec 3.1.26.-) (rnase hi large subunit) (rnase h(35)) (ribonuclease h2) (rnase h2). [swissprot;acc:o75792] Divided 210.997 213.539 1.01205
1790 dna topoisomerase ii, alpha isozyme (ec 5.99.1.3). [swissprot;acc:p11388] 203.759 201.349 1.01197

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/