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 [...,...].
Rank Gene description Value Type Network Comparison Type Interaction Map Filtered green red network_comparison
Results: HTML CSV LaTeX Showing element 258 to 307 of 6456 in total
Value Type  : Ranked
Interaction Map  : High confidence
Filtered  : 1
Rank
description
Network Comparison Type
green
red
network_comparison
129 neuroendocrine differentiation factor; comparative gene identification transcript 149. [refseq;acc:nm_016079] Divided 114 94 1.21277
130 palmitoyl-protein thioesterase 2 precursor (ec 3.1.2.22) (palmitoyl- protein hydrolase 2) (ppt-2) (g14). [swissprot;acc:q9umr5] Subtracted 276.059 242.735 33.324
protein hspc134 (protein cda04). [swissprot;acc:q9by43] Divided 114 94 1.21277
131 egf-like-domain, multiple 7; neu1 protein. [refseq;acc:nm_016215] Subtracted 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 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 formin binding protein 3; fas-ligand associated factor 1; huntingtin-interacting protein a; ny-ren-6 antigen. [refseq;acc:nm_017892] Subtracted 194.72 226.887 32.167
tob1 protein (transducer of erbb-2 1). [swissprot;acc:p50616] Divided 290 350 1.2069
134 dab2 interacting protein; ngap-like protein; doc-2/dab2 interactive protein. [refseq;acc:nm_032552]
huntingtin-interacting protein hypa/fbp11 (fragment). [sptrembl;acc:o75404] Subtracted 194.79 226.884 32.094
135 cytoplasmic polyadenylation element binding protein 4. [refseq;acc:nm_030627] Divided 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 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 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 cg9578-like; yeast ypr037w and worm c02c2.6 predicted proteins-like. [refseq;acc:nm_152902] Subtracted 205.556 174.667 30.889
serine/threonine protein phosphatase 2a, catalytic subunit, alpha isoform (ec 3.1.3.16) (pp2a-alpha) (replication protein c) (rp-c). [swissprot;acc:p05323] Divided 234.204 194.372 1.20493
139 amyloid beta a4 precursor protein-binding family a member 1 (neuron- specific x11 protein) (neuronal munc18-1-interacting protein 1) (mint-1) (adapter protein x11alpha). [swissprot;acc:q02410] 225.68 271.752 1.20415
chromatin accessibility complex protein 1 (chrac-1) (chrac-15) (huchrac15) (dna polymerase epsilon subunit p15). [swissprot;acc:q9nrg0] Subtracted 256.835 287.41 30.575
140 20 kda nuclear cap binding protein (ncbp 20 kda subunit) (cbp20) (ncbp interacting protein 1) (nip1). [swissprot;acc:p52298] 198.011 228.306 30.295
ras-related gtp binding a; ras-related gtp-binding protein. [refseq;acc:nm_006570] Divided 49 59 1.20408
141 cartilage oligomeric matrix protein precursor (comp). [swissprot;acc:p49747] Subtracted 269.238 239.991 29.247
ras-related gtp binding c; rag c protein. [refseq;acc:nm_022157] Divided 49 59 1.20408
142 ras-related gtp binding b short isoform; gtp-binding protein ragb. [refseq;acc:nm_006064]
thrombospondin 3 precursor. [swissprot;acc:p49746] Subtracted 269.234 239.99 29.244
143 anillin, actin binding protein (scraps homolog, drosophila); anillin (drosophila scraps homolog), actin binding protein. [refseq;acc:nm_018685] Divided 49 59 1.20408
splicing factor 4 isoform b; rna-binding protein. [refseq;acc:nm_021164] Subtracted 211.382 240.133 28.751
144 cysteine-rich protein 1 (crp1) (crp). [swissprot;acc:p21291] 267.915 239.35 28.565
kv channel interacting protein 1; vesicle apc-binding protein; a-type potassium channel modulatory protein 1. [refseq;acc:nm_014592] Divided 319.651 265.686 1.20312
145 likely ortholog of mouse shc sh2-domain binding protein 1. [refseq;acc:nm_024745] Subtracted 267.881 239.336 28.545
potassium channel-interacting protein 4 isoform 4; calsenilin-like protein. [refseq;acc:nm_147183] Divided 319.546 265.639 1.20293
146 kv channel interacting protein 2 isoform 4; a-type potassium channel modulatory protein 2; cardiac voltage gated potassium channel modulatory subunit. [refseq;acc:nm_173193] 319.531 265.632 1.20291
smooth muscle cell lim protein (cysteine-rich protein 2) (crp2) (lim-only protein 5). [swissprot;acc:q16527] Subtracted 267.879 239.336 28.543
147 lim domain protein, cardiac (muscle lim protein) (cysteine-rich protein 3) (crp3). [swissprot;acc:p50461] 267.842 239.32 28.522
nuclear dna-binding protein; small unique nuclear receptor corepressor; c1d dna-binding protein. [refseq;acc:nm_006333] Divided 42.3003 50.7983 1.2009
148 filamin b, beta (actin binding protein 278); beta filamin; filamin 1 (actin-binding protein-280)-like; filamin b, beta (actin-binding protein-278); filamin b, beta. [refseq;acc:nm_001457] Subtracted 198.444 226.582 28.138
sad1/unc-84 protein-like 1. [swissprot;acc:o94901] Divided 247.559 296.677 1.19841
149 atlastin; guanylate-binding protein 3. [refseq;acc:nm_015915] 170 142 1.19718
rev1-like; rev1 protein; rev1 (yeast homolog)- like. [refseq;acc:nm_016316] Subtracted 198.444 226.582 28.138
150 myosin vb (myosin 5b) (fragment). [swissprot;acc:q9ulv0] Divided 46 55 1.19565
protein arginine n-methyltransferase 1 (ec 2.1.1.-) (interferon receptor 1-bound protein 4). [swissprot;acc:q99873] Subtracted 198.444 226.582 28.138
151 myosin vc (myosin 5c). [swissprot;acc:q9nqx4] Divided 46 55 1.19565
protein arginine n-methyltransferase 4 (ec 2.1.1.-). [swissprot;acc:q9nr22] Subtracted 198.444 226.582 28.138
152 myosin va (myosin 5a) (dilute myosin heavy chain, non-muscle) (myosin heavy chain 12) (myoxin). [swissprot;acc:q9y4i1] Divided 46 55 1.19565
u1 small nuclear ribonucleoprotein 70 kda (u1 snrnp 70 kda) (snrnp70) (u1-70k). [swissprot;acc:p08621] Subtracted 198.444 226.582 28.138
153 chromosome 3p21.1 gene sequence. [refseq;acc:nm_013286] Divided 298.263 249.663 1.19466
filamin a (alpha-filamin) (filamin 1) (endothelial actin-binding protein) (abp-280) (nonmuscle filamin). [swissprot;acc:p21333] Subtracted 198.444 226.582 28.138
154 musashi 2 isoform a. [refseq;acc:nm_138962] 199.458 227.491 28.033

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/