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 Value Type Rank Gene description green Interaction Map Network Comparison Type red network_comparison
Results: HTML CSV LaTeX Showing element 501 to 550 of 19268 in total
Filtered  : 0
Value Type  : Ranked
Rank
description
green
Interaction Map
Network Comparison Type
red
network_comparison
126 bromodomain adjacent to zinc finger domain protein 1a (atp-utilizing chromatin assembly and remodeling factor 1) (hacf1) (atp-dependent chromatin remodelling protein) (williams syndrome transcription factor-related chromatin remodeling factor 180) (wcrf180) (hwalp1) (chrac subunit acf1) (hspc317). [swissprot;acc:q9nrl2] 17562.2 Low confidence Divided 14899.4 1.17872
cytochrome p450 4f2 (ec 1.14.13.30) (cypivf2) (leukotriene-b4 omega- hydroxylase) (leukotriene-b4 20-monooxygenase) (cytochrome p450- ltb-omega). [swissprot;acc:p78329] 10489.3 High confidence Subtracted 12314.9 1825.6
putative protein-tyrosine phosphatase tpte (ec 3.1.3.48). [swissprot;acc:p56180] 14123.3 Low confidence 15945.5 1822.2
ret finger protein 2 (leukemia associated protein 5) (b-cell chronic lymphocytic leukemia tumor suppressor leu5) (putative tumor suppressor rfp2) (tripartite motif protein 13). [swissprot;acc:o60858] 11493.8 High confidence Divided 9722.71 1.18216
127 ccr4-not transcription complex, subunit 7 (ccr4-associated factor 1) (caf1) (btg1 binding factor 1). [swissprot;acc:q9uiv1] 13530.6 Subtracted 11732 1798.6
dna helicase homolog (fragment). [sptrembl;acc:q9y645] 18475.5 Low confidence 16660.8 1814.7
scribble. [refseq;acc:nm_015356] 11814.4 Divided 10041.1 1.1766
trans-prenyltransferase; polyprenyl pyrophosphate synthetase. [refseq;acc:nm_014317] 11119.7 High confidence 9411.34 1.18152
128 60s ribosomal protein l39. [swissprot;acc:p02404] 9794.29 11564.4 1.18073
guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-5 like subunit. [swissprot;acc:q9y3k8] 10879.6 Low confidence 9259.51 1.17496
lifeguard; kiaa0950 protein. [refseq;acc:nm_012306] 12965.5 Subtracted 11161.3 1804.2
ret finger protein 2 (leukemia associated protein 5) (b-cell chronic lymphocytic leukemia tumor suppressor leu5) (putative tumor suppressor rfp2) (tripartite motif protein 13). [swissprot;acc:o60858] 11493.8 High confidence 9722.71 1771.09
129 60s ribosomal protein l39. [swissprot;acc:p02404] 9794.29 11564.4 1770.11
guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-4 subunit. [swissprot;acc:p50150] 10865.5 Low confidence Divided 9248.93 1.17478
isoleucyl-trna synthetase, cytoplasmic (ec 6.1.1.5) (isoleucine--trna ligase) (ilers) (irs). [swissprot;acc:p41252] 12058.6 High confidence 14222.5 1.17945
piwi-like 2; miwi like. [refseq;acc:nm_018068] 15008.1 Low confidence Subtracted 13206.7 1801.4
130 enigma protein; lim domain protein. [refseq;acc:nm_005451] 17069.5 High confidence Divided 14476.2 1.17914
potassium voltage-gated channel, shal-related subfamily, member 2; voltage-sensitive potassium channel; voltage-gated potassium channel kv4.2. [refseq;acc:nm_012281] 13174.5 Subtracted 14922.7 1748.2
scribble. [refseq;acc:nm_015356] 11814.4 Low confidence 10041.1 1773.3
sedlin. [swissprot;acc:o14582] 13646 Divided 16024.9 1.17433
131 dna mismatch repair protein mlh1 (mutl protein homolog 1). [swissprot;acc:p40692] 9873.58 High confidence 8375.43 1.17887
integral membrane protein cii-3b. [sptrembl;acc:o75609] 13204.2 Subtracted 14951.6 1747.4
mitochondrial 39s ribosomal protein l39 (l39mt) (mrp-l39) (mrp-l5) (pred22 protein). [swissprot;acc:q9nyk5] 5609 Low confidence Divided 4793.5 1.17013
transcription factor bteb4 (basic transcription element binding- protein 4) (bte-binding protein 4) (krueppel-like factor 16) (novel sp1-like zinc finger transcription factor 2) (transcription factor nslp2). [swissprot;acc:q9bxk1] 13277.6 Subtracted 15039.8 1762.2
132 glutathione s-transferase theta 2 (ec 2.5.1.18) (gst class-theta). [swissprot;acc:p30712] 10962.4 12716.5 1754.1
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] 14027.1 Divided 16411.9 1.17001
myosin va (myosin 5a) (dilute myosin heavy chain, non-muscle) (myosin heavy chain 12) (myoxin). [swissprot;acc:q9y4i1] 12622.8 High confidence Subtracted 10883 1739.8
rna helicase-related protein; rna helicase-like protein; sf3b125 dead-box protein. [refseq;acc:nm_007372] 22389 Divided 19048 1.1754
133 alpha-amylase, salivary precursor (ec 3.2.1.1) (1,4-alpha-d-glucan glucanohydrolase). [swissprot;acc:p04745] 13113.5 Low confidence 11236.1 1.16709
alpha-parvin (calponin-like integrin-linked kinase binding protein) (ch-ilkbp). [swissprot;acc:q9nvd7] 8009 High confidence 6814 1.17537
mms19-like (met18 homolog, s. cerevisiae); homolog of yeast mms19; mms19 (met18 s. cerevisiae)-like. [refseq;acc:nm_022362] 15405.6 Subtracted 17144.8 1739.2
potassium voltage-gated channel, shal-related subfamily, member 2; voltage-sensitive potassium channel; voltage-gated potassium channel kv4.2. [refseq;acc:nm_012281] 13174.5 Low confidence 14922.7 1748.2
134 cytochrome p450 4f8 (ec 1.14.14.1) (cypivf8). [swissprot;acc:p98187] 10489.3 High confidence Divided 12314.9 1.17404
maspin precursor (protease inhibitor 5). [swissprot;acc:p36952] 15123 Low confidence Subtracted 16853 1730
signal recognition particle 9 kda protein (srp9). [swissprot;acc:p49458] 13890.3 High confidence 12157.6 1732.7
sorcin (22 kda protein) (cp-22) (v19). [swissprot;acc:p30626] 7893.05 Low confidence Divided 9210.38 1.1669
135 bloom's syndrome protein (ec 3.6.1.-) (recq protein-like 3) (dna helicase, recq-like, type 2). [swissprot;acc:p54132] 10603.2 High confidence Subtracted 8871.11 1732.09
cytochrome p450 4f2 (ec 1.14.13.30) (cypivf2) (leukotriene-b4 omega- hydroxylase) (leukotriene-b4 20-monooxygenase) (cytochrome p450- ltb-omega). [swissprot;acc:p78329] 10489.3 Divided 12314.9 1.17404
phosphatidylinositol 4-kinase alpha (ec 2.7.1.67) (pi4-kinase) (ptdins-4-kinase) (pi4k-alpha). [swissprot;acc:p42356] 13250 Low confidence 15432.9 1.16475
serpin b11. [swissprot;acc:q96p15] 15123 Subtracted 16853 1730
136 cytochrome p450 4f12 (ec 1.14.14.1) (cypivf12). [swissprot;acc:q9hcs2] 10506.8 High confidence Divided 12335.3 1.17403
cytoplasmic antiproteinase 2 (cap2) (cap-2) (protease inhibitor 8) (serpin b8). [swissprot;acc:p50452] 15123 Low confidence Subtracted 16853 1730
polyposis locus protein 1-like 1; likely ortholog of mouse polyposis locus protein 1-like 1. [refseq;acc:nm_138393] 11028.8 High confidence 12759.4 1730.6
signal recognition particle 9 kda protein (srp9). [swissprot;acc:p49458] 13977.2 Low confidence Divided 12024.2 1.16242
137 cytochrome p450 4f11 (ec 1.14.14.1) (cypivf11). [swissprot;acc:q9hbi6] 10501 High confidence 12328.5 1.17403
homogentisate 1,2-dioxygenase (ec 1.13.11.5) (homogentisicase) (homogentisate oxygenase) (homogentisic acid oxidase). [swissprot;acc:q93099] 21041 Low confidence Subtracted 19314 1727
lifeguard; kiaa0950 protein. [refseq;acc:nm_012306] 12965.5 Divided 11161.3 1.16165
maspin precursor (protease inhibitor 5). [swissprot;acc:p36952] 15123 High confidence Subtracted 16853 1730
138 beta tubulin 1, class vi. [refseq;acc:nm_030773] 14503.8 Low confidence 12794.3 1709.5
likely ortholog of rat cytochrome p450 4x1. [refseq;acc:nm_178033] 10549.4 High confidence Divided 12384.7 1.17397

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/