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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Rank Gene description Value Type Interaction Map Network Comparison Type Filtered green network_comparison red
Results: HTML CSV LaTeX Showing element 501 to 550 of 7460 in total
Value Type  : Ranked
Interaction Map  : High confidence
Rank
description
Network Comparison Type
Filtered
green
network_comparison
red
126 associated molecule with the sh3 domain of stam (amsh) like protein. [refseq;acc:nm_020799] Divided 1 114 1.21277 94
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 0 10489.3 1825.6 12314.9
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] 1 252.234 33.45 285.684
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 0 11493.8 1.18216 9722.71
127 ccr4-not transcription complex, subunit 7 (ccr4-associated factor 1) (caf1) (btg1 binding factor 1). [swissprot;acc:q9uiv1] Subtracted 13530.6 1798.6 11732
cullin homolog 2 (cul-2). [swissprot;acc:q13617] 1 252.234 33.45 285.684
putative breast adenocarcinoma marker (32kd). [refseq;acc:nm_014453] Divided 114 1.21277 94
trans-prenyltransferase; polyprenyl pyrophosphate synthetase. [refseq;acc:nm_014317] 0 11119.7 1.18152 9411.34
128 60s ribosomal protein l39. [swissprot;acc:p02404] 9794.29 1.18073 11564.4
associated molecule with the sh3 domain of stam. [refseq;acc:nm_006463] 1 114 1.21277 94
presenilin 1 (ps-1) (s182 protein). [swissprot;acc:p49768] Subtracted 252.234 33.45 285.684
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] 0 11493.8 1771.09 9722.71
129 60s ribosomal protein l39. [swissprot;acc:p02404] 9794.29 1770.11 11564.4
cullin homolog 1 (cul-1). [swissprot;acc:q13616] 1 252.234 33.45 285.684
isoleucyl-trna synthetase, cytoplasmic (ec 6.1.1.5) (isoleucine--trna ligase) (ilers) (irs). [swissprot;acc:p41252] Divided 0 12058.6 1.17945 14222.5
neuroendocrine differentiation factor; comparative gene identification transcript 149. [refseq;acc:nm_016079] 1 114 1.21277 94
130 enigma protein; lim domain protein. [refseq;acc:nm_005451] 0 17069.5 1.17914 14476.2
palmitoyl-protein thioesterase 2 precursor (ec 3.1.2.22) (palmitoyl- protein hydrolase 2) (ppt-2) (g14). [swissprot;acc:q9umr5] Subtracted 1 276.059 33.324 242.735
potassium voltage-gated channel, shal-related subfamily, member 2; voltage-sensitive potassium channel; voltage-gated potassium channel kv4.2. [refseq;acc:nm_012281] 0 13174.5 1748.2 14922.7
protein hspc134 (protein cda04). [swissprot;acc:q9by43] Divided 1 114 1.21277 94
131 dna mismatch repair protein mlh1 (mutl protein homolog 1). [swissprot;acc:p40692] 0 9873.58 1.17887 8375.43
egf-like-domain, multiple 7; neu1 protein. [refseq;acc:nm_016215] Subtracted 1 276.018 33.3 242.718
integral membrane protein cii-3b. [sptrembl;acc:o75609] 0 13204.2 1747.4 14951.6
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 1 242.562 1.21228 294.053
132 dj820b18.1 (similar to nuclear cap binding protein) (fragment). [sptrembl;acc:q8wwk2] Subtracted 196.695 32.711 229.406
myosin va (myosin 5a) (dilute myosin heavy chain, non-muscle) (myosin heavy chain 12) (myoxin). [swissprot;acc:q9y4i1] 0 12622.8 1739.8 10883
rna helicase-related protein; rna helicase-like protein; sf3b125 dead-box protein. [refseq;acc:nm_007372] Divided 22389 1.1754 19048
tob2 protein (transducer of erbb-2 2). [swissprot;acc:q14106] 1 290 1.2069 350
133 alpha-parvin (calponin-like integrin-linked kinase binding protein) (ch-ilkbp). [swissprot;acc:q9nvd7] 0 8009 1.17537 6814
formin binding protein 3; fas-ligand associated factor 1; huntingtin-interacting protein a; ny-ren-6 antigen. [refseq;acc:nm_017892] Subtracted 1 194.72 32.167 226.887
mms19-like (met18 homolog, s. cerevisiae); homolog of yeast mms19; mms19 (met18 s. cerevisiae)-like. [refseq;acc:nm_022362] 0 15405.6 1739.2 17144.8
tob1 protein (transducer of erbb-2 1). [swissprot;acc:p50616] Divided 1 290 1.2069 350
134 cytochrome p450 4f8 (ec 1.14.14.1) (cypivf8). [swissprot;acc:p98187] 0 10489.3 1.17404 12314.9
dab2 interacting protein; ngap-like protein; doc-2/dab2 interactive protein. [refseq;acc:nm_032552] 1 290 1.2069 350
huntingtin-interacting protein hypa/fbp11 (fragment). [sptrembl;acc:o75404] Subtracted 194.79 32.094 226.884
signal recognition particle 9 kda protein (srp9). [swissprot;acc:p49458] 0 13890.3 1732.7 12157.6
135 bloom's syndrome protein (ec 3.6.1.-) (recq protein-like 3) (dna helicase, recq-like, type 2). [swissprot;acc:p54132] 10603.2 1732.09 8871.11
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 1.17404 12314.9
cytoplasmic polyadenylation element binding protein 4. [refseq;acc:nm_030627] 1 290 1.2069 350
forkhead box p4; fork head-related protein like a; winged-helix repressor foxp4. [refseq;acc:nm_138457] Subtracted 231.407 31.808 263.215
136 cytochrome p450 4f12 (ec 1.14.14.1) (cypivf12). [swissprot;acc:q9hcs2] Divided 0 10506.8 1.17403 12335.3
cytoplasmic polyadenylation element binding protein 3. [refseq;acc:nm_014912] 1 290 1.2069 350
forkhead box protein p1 (hspc215). [swissprot;acc:q9h334] Subtracted 231.407 31.808 263.215
polyposis locus protein 1-like 1; likely ortholog of mouse polyposis locus protein 1-like 1. [refseq;acc:nm_138393] 0 11028.8 1730.6 12759.4
137 cytochrome p450 4f11 (ec 1.14.14.1) (cypivf11). [swissprot;acc:q9hbi6] Divided 10501 1.17403 12328.5
forkhead box protein p3 (zinc finger protein jm2) (scurfin). [swissprot;acc:q9bzs1] Subtracted 1 231.394 31.797 263.191
maspin precursor (protease inhibitor 5). [swissprot;acc:p36952] 0 15123 1730 16853
ras gtpase-activating protein ngap (ras protein activator like 1). [swissprot;acc:q9ujf2] Divided 1 290 1.2069 350
138 cg9578-like; yeast ypr037w and worm c02c2.6 predicted proteins-like. [refseq;acc:nm_152902] Subtracted 205.556 30.889 174.667
likely ortholog of rat cytochrome p450 4x1. [refseq;acc:nm_178033] Divided 0 10549.4 1.17397 12384.7

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/