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 [...,...].
Gene Value Type Rank Network Comparison Type description Interaction Map green Filtered red network_comparison
Results: HTML CSV LaTeX Showing element 501 to 550 of 7460 in total
Value Type  : Ranked
Interaction Map  : High confidence
Rank
Network Comparison Type
description
green
Filtered
red
network_comparison
126 Divided associated molecule with the sh3 domain of stam (amsh) like protein. [refseq;acc:nm_020799] 114 1 94 1.21277
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 0 9722.71 1.18216
Subtracted 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 12314.9 1825.6
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] 252.234 1 285.684 33.45
127 Divided putative breast adenocarcinoma marker (32kd). [refseq;acc:nm_014453] 114 94 1.21277
trans-prenyltransferase; polyprenyl pyrophosphate synthetase. [refseq;acc:nm_014317] 11119.7 0 9411.34 1.18152
Subtracted ccr4-not transcription complex, subunit 7 (ccr4-associated factor 1) (caf1) (btg1 binding factor 1). [swissprot;acc:q9uiv1] 13530.6 11732 1798.6
cullin homolog 2 (cul-2). [swissprot;acc:q13617] 252.234 1 285.684 33.45
128 Divided 60s ribosomal protein l39. [swissprot;acc:p02404] 9794.29 0 11564.4 1.18073
associated molecule with the sh3 domain of stam. [refseq;acc:nm_006463] 114 1 94 1.21277
Subtracted presenilin 1 (ps-1) (s182 protein). [swissprot;acc:p49768] 252.234 285.684 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] 11493.8 0 9722.71 1771.09
129 Divided isoleucyl-trna synthetase, cytoplasmic (ec 6.1.1.5) (isoleucine--trna ligase) (ilers) (irs). [swissprot;acc:p41252] 12058.6 14222.5 1.17945
neuroendocrine differentiation factor; comparative gene identification transcript 149. [refseq;acc:nm_016079] 114 1 94 1.21277
Subtracted 60s ribosomal protein l39. [swissprot;acc:p02404] 9794.29 0 11564.4 1770.11
cullin homolog 1 (cul-1). [swissprot;acc:q13616] 252.234 1 285.684 33.45
130 Divided enigma protein; lim domain protein. [refseq;acc:nm_005451] 17069.5 0 14476.2 1.17914
protein hspc134 (protein cda04). [swissprot;acc:q9by43] 114 1 94 1.21277
Subtracted 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
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 0 14922.7 1748.2
131 Divided dna mismatch repair protein mlh1 (mutl protein homolog 1). [swissprot;acc:p40692] 9873.58 8375.43 1.17887
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] 242.562 1 294.053 1.21228
Subtracted egf-like-domain, multiple 7; neu1 protein. [refseq;acc:nm_016215] 276.018 242.718 33.3
integral membrane protein cii-3b. [sptrembl;acc:o75609] 13204.2 0 14951.6 1747.4
132 Divided rna helicase-related protein; rna helicase-like protein; sf3b125 dead-box protein. [refseq;acc:nm_007372] 22389 19048 1.1754
tob2 protein (transducer of erbb-2 2). [swissprot;acc:q14106] 290 1 350 1.2069
Subtracted dj820b18.1 (similar to nuclear cap binding protein) (fragment). [sptrembl;acc:q8wwk2] 196.695 229.406 32.711
myosin va (myosin 5a) (dilute myosin heavy chain, non-muscle) (myosin heavy chain 12) (myoxin). [swissprot;acc:q9y4i1] 12622.8 0 10883 1739.8
133 Divided alpha-parvin (calponin-like integrin-linked kinase binding protein) (ch-ilkbp). [swissprot;acc:q9nvd7] 8009 6814 1.17537
tob1 protein (transducer of erbb-2 1). [swissprot;acc:p50616] 290 1 350 1.2069
Subtracted 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
mms19-like (met18 homolog, s. cerevisiae); homolog of yeast mms19; mms19 (met18 s. cerevisiae)-like. [refseq;acc:nm_022362] 15405.6 0 17144.8 1739.2
134 Divided cytochrome p450 4f8 (ec 1.14.14.1) (cypivf8). [swissprot;acc:p98187] 10489.3 12314.9 1.17404
dab2 interacting protein; ngap-like protein; doc-2/dab2 interactive protein. [refseq;acc:nm_032552] 290 1 350 1.2069
Subtracted huntingtin-interacting protein hypa/fbp11 (fragment). [sptrembl;acc:o75404] 194.79 226.884 32.094
signal recognition particle 9 kda protein (srp9). [swissprot;acc:p49458] 13890.3 0 12157.6 1732.7
135 Divided 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 12314.9 1.17404
cytoplasmic polyadenylation element binding protein 4. [refseq;acc:nm_030627] 290 1 350 1.2069
Subtracted bloom's syndrome protein (ec 3.6.1.-) (recq protein-like 3) (dna helicase, recq-like, type 2). [swissprot;acc:p54132] 10603.2 0 8871.11 1732.09
forkhead box p4; fork head-related protein like a; winged-helix repressor foxp4. [refseq;acc:nm_138457] 231.407 1 263.215 31.808
136 Divided cytochrome p450 4f12 (ec 1.14.14.1) (cypivf12). [swissprot;acc:q9hcs2] 10506.8 0 12335.3 1.17403
cytoplasmic polyadenylation element binding protein 3. [refseq;acc:nm_014912] 290 1 350 1.2069
Subtracted forkhead box protein p1 (hspc215). [swissprot;acc:q9h334] 231.407 263.215 31.808
polyposis locus protein 1-like 1; likely ortholog of mouse polyposis locus protein 1-like 1. [refseq;acc:nm_138393] 11028.8 0 12759.4 1730.6
137 Divided cytochrome p450 4f11 (ec 1.14.14.1) (cypivf11). [swissprot;acc:q9hbi6] 10501 12328.5 1.17403
ras gtpase-activating protein ngap (ras protein activator like 1). [swissprot;acc:q9ujf2] 290 1 350 1.2069
Subtracted forkhead box protein p3 (zinc finger protein jm2) (scurfin). [swissprot;acc:q9bzs1] 231.394 263.191 31.797
maspin precursor (protease inhibitor 5). [swissprot;acc:p36952] 15123 0 16853 1730
138 Divided likely ortholog of rat cytochrome p450 4x1. [refseq;acc:nm_178033] 10549.4 12384.7 1.17397
serine/threonine protein phosphatase 2a, catalytic subunit, alpha isoform (ec 3.1.3.16) (pp2a-alpha) (replication protein c) (rp-c). [swissprot;acc:p05323] 234.204 1 194.372 1.20493

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/