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 [...,...].
Filtered Gene Value Type Rank Network Comparison Type Interaction Map red description network_comparison green
Results: HTML CSV LaTeX Showing element 501 to 550 of 19268 in total
Filtered  : 0
Value Type  : Ranked
Rank
Network Comparison Type
Interaction Map
red
description
network_comparison
green
126 Divided High confidence 9722.71 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] 1.18216 11493.8
Low confidence 14899.4 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] 1.17872 17562.2
Subtracted High confidence 12314.9 cytochrome p450 4f2 (ec 1.14.13.30) (cypivf2) (leukotriene-b4 omega- hydroxylase) (leukotriene-b4 20-monooxygenase) (cytochrome p450- ltb-omega). [swissprot;acc:p78329] 1825.6 10489.3
Low confidence 15945.5 putative protein-tyrosine phosphatase tpte (ec 3.1.3.48). [swissprot;acc:p56180] 1822.2 14123.3
127 Divided High confidence 9411.34 trans-prenyltransferase; polyprenyl pyrophosphate synthetase. [refseq;acc:nm_014317] 1.18152 11119.7
Low confidence 10041.1 scribble. [refseq;acc:nm_015356] 1.1766 11814.4
Subtracted High confidence 11732 ccr4-not transcription complex, subunit 7 (ccr4-associated factor 1) (caf1) (btg1 binding factor 1). [swissprot;acc:q9uiv1] 1798.6 13530.6
Low confidence 16660.8 dna helicase homolog (fragment). [sptrembl;acc:q9y645] 1814.7 18475.5
128 Divided High confidence 11564.4 60s ribosomal protein l39. [swissprot;acc:p02404] 1.18073 9794.29
Low confidence 9259.51 guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-5 like subunit. [swissprot;acc:q9y3k8] 1.17496 10879.6
Subtracted High confidence 9722.71 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] 1771.09 11493.8
Low confidence 11161.3 lifeguard; kiaa0950 protein. [refseq;acc:nm_012306] 1804.2 12965.5
129 Divided High confidence 14222.5 isoleucyl-trna synthetase, cytoplasmic (ec 6.1.1.5) (isoleucine--trna ligase) (ilers) (irs). [swissprot;acc:p41252] 1.17945 12058.6
Low confidence 9248.93 guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-4 subunit. [swissprot;acc:p50150] 1.17478 10865.5
Subtracted High confidence 11564.4 60s ribosomal protein l39. [swissprot;acc:p02404] 1770.11 9794.29
Low confidence 13206.7 piwi-like 2; miwi like. [refseq;acc:nm_018068] 1801.4 15008.1
130 Divided High confidence 14476.2 enigma protein; lim domain protein. [refseq;acc:nm_005451] 1.17914 17069.5
Low confidence 16024.9 sedlin. [swissprot;acc:o14582] 1.17433 13646
Subtracted High confidence 14922.7 potassium voltage-gated channel, shal-related subfamily, member 2; voltage-sensitive potassium channel; voltage-gated potassium channel kv4.2. [refseq;acc:nm_012281] 1748.2 13174.5
Low confidence 10041.1 scribble. [refseq;acc:nm_015356] 1773.3 11814.4
131 Divided High confidence 8375.43 dna mismatch repair protein mlh1 (mutl protein homolog 1). [swissprot;acc:p40692] 1.17887 9873.58
Low confidence 4793.5 mitochondrial 39s ribosomal protein l39 (l39mt) (mrp-l39) (mrp-l5) (pred22 protein). [swissprot;acc:q9nyk5] 1.17013 5609
Subtracted High confidence 14951.6 integral membrane protein cii-3b. [sptrembl;acc:o75609] 1747.4 13204.2
Low confidence 15039.8 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] 1762.2 13277.6
132 Divided High confidence 19048 rna helicase-related protein; rna helicase-like protein; sf3b125 dead-box protein. [refseq;acc:nm_007372] 1.1754 22389
Low confidence 16411.9 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] 1.17001 14027.1
Subtracted High confidence 10883 myosin va (myosin 5a) (dilute myosin heavy chain, non-muscle) (myosin heavy chain 12) (myoxin). [swissprot;acc:q9y4i1] 1739.8 12622.8
Low confidence 12716.5 glutathione s-transferase theta 2 (ec 2.5.1.18) (gst class-theta). [swissprot;acc:p30712] 1754.1 10962.4
133 Divided High confidence 6814 alpha-parvin (calponin-like integrin-linked kinase binding protein) (ch-ilkbp). [swissprot;acc:q9nvd7] 1.17537 8009
Low confidence 11236.1 alpha-amylase, salivary precursor (ec 3.2.1.1) (1,4-alpha-d-glucan glucanohydrolase). [swissprot;acc:p04745] 1.16709 13113.5
Subtracted High confidence 17144.8 mms19-like (met18 homolog, s. cerevisiae); homolog of yeast mms19; mms19 (met18 s. cerevisiae)-like. [refseq;acc:nm_022362] 1739.2 15405.6
Low confidence 14922.7 potassium voltage-gated channel, shal-related subfamily, member 2; voltage-sensitive potassium channel; voltage-gated potassium channel kv4.2. [refseq;acc:nm_012281] 1748.2 13174.5
134 Divided High confidence 12314.9 cytochrome p450 4f8 (ec 1.14.14.1) (cypivf8). [swissprot;acc:p98187] 1.17404 10489.3
Low confidence 9210.38 sorcin (22 kda protein) (cp-22) (v19). [swissprot;acc:p30626] 1.1669 7893.05
Subtracted High confidence 12157.6 signal recognition particle 9 kda protein (srp9). [swissprot;acc:p49458] 1732.7 13890.3
Low confidence 16853 maspin precursor (protease inhibitor 5). [swissprot;acc:p36952] 1730 15123
135 Divided High confidence 12314.9 cytochrome p450 4f2 (ec 1.14.13.30) (cypivf2) (leukotriene-b4 omega- hydroxylase) (leukotriene-b4 20-monooxygenase) (cytochrome p450- ltb-omega). [swissprot;acc:p78329] 1.17404 10489.3
Low confidence 15432.9 phosphatidylinositol 4-kinase alpha (ec 2.7.1.67) (pi4-kinase) (ptdins-4-kinase) (pi4k-alpha). [swissprot;acc:p42356] 1.16475 13250
Subtracted High confidence 8871.11 bloom's syndrome protein (ec 3.6.1.-) (recq protein-like 3) (dna helicase, recq-like, type 2). [swissprot;acc:p54132] 1732.09 10603.2
Low confidence 16853 serpin b11. [swissprot;acc:q96p15] 1730 15123
136 Divided High confidence 12335.3 cytochrome p450 4f12 (ec 1.14.14.1) (cypivf12). [swissprot;acc:q9hcs2] 1.17403 10506.8
Low confidence 12024.2 signal recognition particle 9 kda protein (srp9). [swissprot;acc:p49458] 1.16242 13977.2
Subtracted High confidence 12759.4 polyposis locus protein 1-like 1; likely ortholog of mouse polyposis locus protein 1-like 1. [refseq;acc:nm_138393] 1730.6 11028.8
Low confidence 16853 cytoplasmic antiproteinase 2 (cap2) (cap-2) (protease inhibitor 8) (serpin b8). [swissprot;acc:p50452] 1730 15123
137 Divided High confidence 12328.5 cytochrome p450 4f11 (ec 1.14.14.1) (cypivf11). [swissprot;acc:q9hbi6] 1.17403 10501
Low confidence 11161.3 lifeguard; kiaa0950 protein. [refseq;acc:nm_012306] 1.16165 12965.5
Subtracted High confidence 16853 maspin precursor (protease inhibitor 5). [swissprot;acc:p36952] 1730 15123
Low confidence 19314 homogentisate 1,2-dioxygenase (ec 1.13.11.5) (homogentisicase) (homogentisate oxygenase) (homogentisic acid oxidase). [swissprot;acc:q93099] 1727 21041
138 Divided High confidence 12384.7 likely ortholog of rat cytochrome p450 4x1. [refseq;acc:nm_178033] 1.17397 10549.4
Low confidence 8730 zinc finger protein-like 1; zinc-finger protein in men1 region. [refseq;acc:nm_006782] 1.16152 7516

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/