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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Value Type Gene Rank description red green Network Comparison Type Interaction Map network_comparison Filtered
Results: HTML CSV LaTeX Showing element 501 to 550 of 7460 in total
Value Type  : Ranked
Interaction Map  : High confidence
Rank
description
red
green
Network Comparison Type
network_comparison
Filtered
126 associated molecule with the sh3 domain of stam (amsh) like protein. [refseq;acc:nm_020799] 94 114 Divided 1.21277 1
cytochrome p450 4f2 (ec 1.14.13.30) (cypivf2) (leukotriene-b4 omega- hydroxylase) (leukotriene-b4 20-monooxygenase) (cytochrome p450- ltb-omega). [swissprot;acc:p78329] 12314.9 10489.3 Subtracted 1825.6 0
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] 285.684 252.234 33.45 1
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] 9722.71 11493.8 Divided 1.18216 0
127 ccr4-not transcription complex, subunit 7 (ccr4-associated factor 1) (caf1) (btg1 binding factor 1). [swissprot;acc:q9uiv1] 11732 13530.6 Subtracted 1798.6
cullin homolog 2 (cul-2). [swissprot;acc:q13617] 285.684 252.234 33.45 1
putative breast adenocarcinoma marker (32kd). [refseq;acc:nm_014453] 94 114 Divided 1.21277
trans-prenyltransferase; polyprenyl pyrophosphate synthetase. [refseq;acc:nm_014317] 9411.34 11119.7 1.18152 0
128 60s ribosomal protein l39. [swissprot;acc:p02404] 11564.4 9794.29 1.18073
associated molecule with the sh3 domain of stam. [refseq;acc:nm_006463] 94 114 1.21277 1
presenilin 1 (ps-1) (s182 protein). [swissprot;acc:p49768] 285.684 252.234 Subtracted 33.45
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] 9722.71 11493.8 1771.09 0
129 60s ribosomal protein l39. [swissprot;acc:p02404] 11564.4 9794.29 1770.11
cullin homolog 1 (cul-1). [swissprot;acc:q13616] 285.684 252.234 33.45 1
isoleucyl-trna synthetase, cytoplasmic (ec 6.1.1.5) (isoleucine--trna ligase) (ilers) (irs). [swissprot;acc:p41252] 14222.5 12058.6 Divided 1.17945 0
neuroendocrine differentiation factor; comparative gene identification transcript 149. [refseq;acc:nm_016079] 94 114 1.21277 1
130 enigma protein; lim domain protein. [refseq;acc:nm_005451] 14476.2 17069.5 1.17914 0
palmitoyl-protein thioesterase 2 precursor (ec 3.1.2.22) (palmitoyl- protein hydrolase 2) (ppt-2) (g14). [swissprot;acc:q9umr5] 242.735 276.059 Subtracted 33.324 1
potassium voltage-gated channel, shal-related subfamily, member 2; voltage-sensitive potassium channel; voltage-gated potassium channel kv4.2. [refseq;acc:nm_012281] 14922.7 13174.5 1748.2 0
protein hspc134 (protein cda04). [swissprot;acc:q9by43] 94 114 Divided 1.21277 1
131 dna mismatch repair protein mlh1 (mutl protein homolog 1). [swissprot;acc:p40692] 8375.43 9873.58 1.17887 0
egf-like-domain, multiple 7; neu1 protein. [refseq;acc:nm_016215] 242.718 276.018 Subtracted 33.3 1
integral membrane protein cii-3b. [sptrembl;acc:o75609] 14951.6 13204.2 1747.4 0
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] 294.053 242.562 Divided 1.21228 1
132 dj820b18.1 (similar to nuclear cap binding protein) (fragment). [sptrembl;acc:q8wwk2] 229.406 196.695 Subtracted 32.711
myosin va (myosin 5a) (dilute myosin heavy chain, non-muscle) (myosin heavy chain 12) (myoxin). [swissprot;acc:q9y4i1] 10883 12622.8 1739.8 0
rna helicase-related protein; rna helicase-like protein; sf3b125 dead-box protein. [refseq;acc:nm_007372] 19048 22389 Divided 1.1754
tob2 protein (transducer of erbb-2 2). [swissprot;acc:q14106] 350 290 1.2069 1
133 alpha-parvin (calponin-like integrin-linked kinase binding protein) (ch-ilkbp). [swissprot;acc:q9nvd7] 6814 8009 1.17537 0
formin binding protein 3; fas-ligand associated factor 1; huntingtin-interacting protein a; ny-ren-6 antigen. [refseq;acc:nm_017892] 226.887 194.72 Subtracted 32.167 1
mms19-like (met18 homolog, s. cerevisiae); homolog of yeast mms19; mms19 (met18 s. cerevisiae)-like. [refseq;acc:nm_022362] 17144.8 15405.6 1739.2 0
tob1 protein (transducer of erbb-2 1). [swissprot;acc:p50616] 350 290 Divided 1.2069 1
134 cytochrome p450 4f8 (ec 1.14.14.1) (cypivf8). [swissprot;acc:p98187] 12314.9 10489.3 1.17404 0
dab2 interacting protein; ngap-like protein; doc-2/dab2 interactive protein. [refseq;acc:nm_032552] 350 290 1.2069 1
huntingtin-interacting protein hypa/fbp11 (fragment). [sptrembl;acc:o75404] 226.884 194.79 Subtracted 32.094
signal recognition particle 9 kda protein (srp9). [swissprot;acc:p49458] 12157.6 13890.3 1732.7 0
135 bloom's syndrome protein (ec 3.6.1.-) (recq protein-like 3) (dna helicase, recq-like, type 2). [swissprot;acc:p54132] 8871.11 10603.2 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] 12314.9 10489.3 Divided 1.17404
cytoplasmic polyadenylation element binding protein 4. [refseq;acc:nm_030627] 350 290 1.2069 1
forkhead box p4; fork head-related protein like a; winged-helix repressor foxp4. [refseq;acc:nm_138457] 263.215 231.407 Subtracted 31.808
136 cytochrome p450 4f12 (ec 1.14.14.1) (cypivf12). [swissprot;acc:q9hcs2] 12335.3 10506.8 Divided 1.17403 0
cytoplasmic polyadenylation element binding protein 3. [refseq;acc:nm_014912] 350 290 1.2069 1
forkhead box protein p1 (hspc215). [swissprot;acc:q9h334] 263.215 231.407 Subtracted 31.808
polyposis locus protein 1-like 1; likely ortholog of mouse polyposis locus protein 1-like 1. [refseq;acc:nm_138393] 12759.4 11028.8 1730.6 0
137 cytochrome p450 4f11 (ec 1.14.14.1) (cypivf11). [swissprot;acc:q9hbi6] 12328.5 10501 Divided 1.17403
forkhead box protein p3 (zinc finger protein jm2) (scurfin). [swissprot;acc:q9bzs1] 263.191 231.394 Subtracted 31.797 1
maspin precursor (protease inhibitor 5). [swissprot;acc:p36952] 16853 15123 1730 0
ras gtpase-activating protein ngap (ras protein activator like 1). [swissprot;acc:q9ujf2] 350 290 Divided 1.2069 1
138 cg9578-like; yeast ypr037w and worm c02c2.6 predicted proteins-like. [refseq;acc:nm_152902] 174.667 205.556 Subtracted 30.889
likely ortholog of rat cytochrome p450 4x1. [refseq;acc:nm_178033] 12384.7 10549.4 Divided 1.17397 0

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/