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 [...,...].
Gene Rank Interaction Map Filtered description Value Type Network Comparison Type green red network_comparison
Results: HTML CSV LaTeX Showing element 501 to 550 of 7460 in total
Interaction Map  : High confidence
Value Type  : Ranked
Rank
Filtered
description
Network Comparison Type
green
red
network_comparison
126 0 cytochrome p450 4f2 (ec 1.14.13.30) (cypivf2) (leukotriene-b4 omega- hydroxylase) (leukotriene-b4 20-monooxygenase) (cytochrome p450- ltb-omega). [swissprot;acc:p78329] Subtracted 10489.3 12314.9 1825.6
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] Divided 11493.8 9722.71 1.18216
1 associated molecule with the sh3 domain of stam (amsh) like protein. [refseq;acc:nm_020799] 114 94 1.21277
f-box protein fbw7 isoform 2; archipelago, drosophila, homolog of; f-box protein fbw7; f-box protein sel-10; homolog of c elegans sel-10. [refseq;acc:nm_018315] Subtracted 252.234 285.684 33.45
127 0 ccr4-not transcription complex, subunit 7 (ccr4-associated factor 1) (caf1) (btg1 binding factor 1). [swissprot;acc:q9uiv1] 13530.6 11732 1798.6
trans-prenyltransferase; polyprenyl pyrophosphate synthetase. [refseq;acc:nm_014317] Divided 11119.7 9411.34 1.18152
1 cullin homolog 2 (cul-2). [swissprot;acc:q13617] Subtracted 252.234 285.684 33.45
putative breast adenocarcinoma marker (32kd). [refseq;acc:nm_014453] Divided 114 94 1.21277
128 0 60s ribosomal protein l39. [swissprot;acc:p02404] 9794.29 11564.4 1.18073
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] Subtracted 11493.8 9722.71 1771.09
1 associated molecule with the sh3 domain of stam. [refseq;acc:nm_006463] Divided 114 94 1.21277
presenilin 1 (ps-1) (s182 protein). [swissprot;acc:p49768] Subtracted 252.234 285.684 33.45
129 0 60s ribosomal protein l39. [swissprot;acc:p02404] 9794.29 11564.4 1770.11
isoleucyl-trna synthetase, cytoplasmic (ec 6.1.1.5) (isoleucine--trna ligase) (ilers) (irs). [swissprot;acc:p41252] Divided 12058.6 14222.5 1.17945
1 cullin homolog 1 (cul-1). [swissprot;acc:q13616] Subtracted 252.234 285.684 33.45
neuroendocrine differentiation factor; comparative gene identification transcript 149. [refseq;acc:nm_016079] Divided 114 94 1.21277
130 0 enigma protein; lim domain protein. [refseq;acc:nm_005451] 17069.5 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] Subtracted 13174.5 14922.7 1748.2
1 palmitoyl-protein thioesterase 2 precursor (ec 3.1.2.22) (palmitoyl- protein hydrolase 2) (ppt-2) (g14). [swissprot;acc:q9umr5] 276.059 242.735 33.324
protein hspc134 (protein cda04). [swissprot;acc:q9by43] Divided 114 94 1.21277
131 0 dna mismatch repair protein mlh1 (mutl protein homolog 1). [swissprot;acc:p40692] 9873.58 8375.43 1.17887
integral membrane protein cii-3b. [sptrembl;acc:o75609] Subtracted 13204.2 14951.6 1747.4
1 egf-like-domain, multiple 7; neu1 protein. [refseq;acc:nm_016215] 276.018 242.718 33.3
son protein (son3) (negative regulatory element-binding protein) (nre- binding protein) (dbp-5) (bax antagonist selected in saccharomyces 1) (bass1) (protein c21orf50). [swissprot;acc:p18583] Divided 242.562 294.053 1.21228
132 0 myosin va (myosin 5a) (dilute myosin heavy chain, non-muscle) (myosin heavy chain 12) (myoxin). [swissprot;acc:q9y4i1] Subtracted 12622.8 10883 1739.8
rna helicase-related protein; rna helicase-like protein; sf3b125 dead-box protein. [refseq;acc:nm_007372] Divided 22389 19048 1.1754
1 dj820b18.1 (similar to nuclear cap binding protein) (fragment). [sptrembl;acc:q8wwk2] Subtracted 196.695 229.406 32.711
tob2 protein (transducer of erbb-2 2). [swissprot;acc:q14106] Divided 290 350 1.2069
133 0 alpha-parvin (calponin-like integrin-linked kinase binding protein) (ch-ilkbp). [swissprot;acc:q9nvd7] 8009 6814 1.17537
mms19-like (met18 homolog, s. cerevisiae); homolog of yeast mms19; mms19 (met18 s. cerevisiae)-like. [refseq;acc:nm_022362] Subtracted 15405.6 17144.8 1739.2
1 formin binding protein 3; fas-ligand associated factor 1; huntingtin-interacting protein a; ny-ren-6 antigen. [refseq;acc:nm_017892] 194.72 226.887 32.167
tob1 protein (transducer of erbb-2 1). [swissprot;acc:p50616] Divided 290 350 1.2069
134 0 cytochrome p450 4f8 (ec 1.14.14.1) (cypivf8). [swissprot;acc:p98187] 10489.3 12314.9 1.17404
signal recognition particle 9 kda protein (srp9). [swissprot;acc:p49458] Subtracted 13890.3 12157.6 1732.7
1 dab2 interacting protein; ngap-like protein; doc-2/dab2 interactive protein. [refseq;acc:nm_032552] Divided 290 350 1.2069
huntingtin-interacting protein hypa/fbp11 (fragment). [sptrembl;acc:o75404] Subtracted 194.79 226.884 32.094
135 0 bloom's syndrome protein (ec 3.6.1.-) (recq protein-like 3) (dna helicase, recq-like, type 2). [swissprot;acc:p54132] 10603.2 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] Divided 10489.3 12314.9 1.17404
1 cytoplasmic polyadenylation element binding protein 4. [refseq;acc:nm_030627] 290 350 1.2069
forkhead box p4; fork head-related protein like a; winged-helix repressor foxp4. [refseq;acc:nm_138457] Subtracted 231.407 263.215 31.808
136 0 cytochrome p450 4f12 (ec 1.14.14.1) (cypivf12). [swissprot;acc:q9hcs2] Divided 10506.8 12335.3 1.17403
polyposis locus protein 1-like 1; likely ortholog of mouse polyposis locus protein 1-like 1. [refseq;acc:nm_138393] Subtracted 11028.8 12759.4 1730.6
1 cytoplasmic polyadenylation element binding protein 3. [refseq;acc:nm_014912] Divided 290 350 1.2069
forkhead box protein p1 (hspc215). [swissprot;acc:q9h334] Subtracted 231.407 263.215 31.808
137 0 cytochrome p450 4f11 (ec 1.14.14.1) (cypivf11). [swissprot;acc:q9hbi6] Divided 10501 12328.5 1.17403
maspin precursor (protease inhibitor 5). [swissprot;acc:p36952] Subtracted 15123 16853 1730
1 forkhead box protein p3 (zinc finger protein jm2) (scurfin). [swissprot;acc:q9bzs1] 231.394 263.191 31.797
ras gtpase-activating protein ngap (ras protein activator like 1). [swissprot;acc:q9ujf2] Divided 290 350 1.2069
138 0 likely ortholog of rat cytochrome p450 4x1. [refseq;acc:nm_178033] 10549.4 12384.7 1.17397
serpin b11. [swissprot;acc:q96p15] Subtracted 15123 16853 1730

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/