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 red green network_comparison
Results: HTML CSV LaTeX Showing element 1510 to 1559 of 14920 in total
Network Comparison Type  : Divided
Interaction Map  : High confidence
Rank
description
Value Type
Filtered
red
green
network_comparison
189 sal-like protein 4 (zinc finger protein sall4). [swissprot;acc:q9ujq4] Ranked 0 10634.4 9465 1.12355
transcription factor e2f2 (e2f-2). [swissprot;acc:q14209] Rooted 1 46.0352 53.0192 1.15171
udp-glucuronosyltransferase 2b4 precursor, microsomal (ec 2.4.1.17) (udpgt) (hyodeoxycholic acid) (hlug25) (udpgth-1). [swissprot;acc:p06133] 0 32.4121 28.377 1.1422
190 aquaporin 4 (wch4) (mercurial-insensitive water channel) (miwc). [swissprot;acc:p55087] Squared 1 71389.9 96037.6 1.34525
dolichyl-diphosphooligosaccharide--protein glycosyltransferase 48 kda subunit precursor (ec 2.4.1.119) (oligosaccharyl transferase 48 kda subunit) (ddost 48 kda subunit). [swissprot;acc:p39656] Measured 4571.89 5864.86 1.28281
gaba(a) receptor-associated protein; gaba(a)-receptor-associated protein. [refseq;acc:nm_007278] Rooted 149.165 129.699 1.15009
glutamyl aminopeptidase (ec 3.4.11.7) (eap) (aminopeptidase a) (apa) (differentiation antigen gp160). [swissprot;acc:q07075] 0 32.4121 28.377 1.1422
high-glucose-regulated protein 8 (ny-ren-2 antigen). [swissprot;acc:q9y5a9] Ranked 18809.5 16764.2 1.122
protocadherin 16 precursor (cadherin 19) (cadherin fibroblast 1). [swissprot;acc:q96jq0] Measured 14 11.5 1.21739
transcription factor mafg (v-maf musculoaponeurotic fibrosarcoma oncogene homolog g) (hmaf). [swissprot;acc:o15525] Squared 158.413 229.842 1.4509
u1 small nuclear ribonucleoprotein 70 kda (u1 snrnp 70 kda) (snrnp70) (u1-70k). [swissprot;acc:p08621] Ranked 1 226.582 198.444 1.14179
191 aquaporin 5. [swissprot;acc:p55064] Squared 71388.5 96035.2 1.34525
ba395l14.12 (novel protein similar to small nuclear ribonucleoprotein polypeptide a' (snrpa1)). [sptrembl;acc:q9nu36] Measured 0 743.066 904.149 1.21678
filamin a (alpha-filamin) (filamin 1) (endothelial actin-binding protein) (abp-280) (nonmuscle filamin). [swissprot;acc:p21333] Ranked 1 226.582 198.444 1.14179
pallidin; pallid (mouse) homolog, pallidin. [refseq;acc:nm_012388] Rooted 63.1192 72.584 1.14995
sh3 adapter protein spin90 (sh3 protein interacting with nck, 90 kda) (vaca-interacting protein, 54 kda) (vip54) (af3p21) (diaphanous protein interacting protein) (dia interacting protein-1) (dip-1). [swissprot;acc:q9nzq3] Ranked 0 18809.5 16764.2 1.122
splicing factor 3b subunit 1 (spliceosome associated protein 155) (sap 155) (sf3b155) (pre-mrna splicing factor sf3b 155 kda subunit). [swissprot;acc:o75533] Measured 1 4638.1 5923.4 1.27712
swi/snf related, matrix associated, actin dependent regulator of chromatin subfamily d member 1 (swi/snf complex 60 kda subunit) (brg1- associated factor 60a). [swissprot;acc:q96gm5] Squared 0 40674.4 28034.4 1.45087
udp-glucuronosyltransferase 2b10 precursor, microsomal (ec 2.4.1.17) (udpgt). [swissprot;acc:p36537] Rooted 32.4121 28.377 1.1422
192 a-raf proto-oncogene serine/threonine-protein kinase (ec 2.7.1.-) (a-raf-1) (proto-oncogene pks). [swissprot;acc:p10398] Measured 1 17757.5 14008 1.26767
aquaporin-cd (aqp-cd) (water channel protein for renal collecting duct) (adh water channel) (aquaporin 2) (collecting duct water channel protein) (wch-cd). [swissprot;acc:p41181] Squared 71387.4 96033.4 1.34524
collagen alpha 5(iv) chain precursor. [swissprot;acc:p29400] 0 3480.56 5039.04 1.44777
musashi 2 isoform a. [refseq;acc:nm_138962] Ranked 1 227.491 199.458 1.14055
sal-like protein 4 (zinc finger protein sall4). [swissprot;acc:q9ujq4] Measured 0 1965.47 2389.69 1.21584
splicing factor 4 isoform b; rna-binding protein. [refseq;acc:nm_021164] Rooted 1 53.6107 61.5862 1.14877
t-complex protein 1, zeta subunit (tcp-1-zeta) (cct-zeta) (cct-zeta-1) (tcp20) (htr3). [swissprot;acc:p40227] Ranked 0 12715.9 11333.2 1.122
udp-glucuronosyltransferase 2b15 precursor, microsomal (ec 2.4.1.17) (udpgt) (udpgth-3) (hlug4). [swissprot;acc:p54855] Rooted 32.4121 28.377 1.1422
193 e1a binding protein p400; p400 swi2/snf2-related protein; cagh32 protein; trinucleotide repeat containing 12. [refseq;acc:nm_015409] Squared 3338.97 4832.12 1.44719
lens fiber major intrinsic protein (mip26) (mp26) (aquaporin 0). [swissprot;acc:p30301] 1 71386.9 96032.5 1.34524
musashi 1. [refseq;acc:nm_002442] Ranked 227.491 199.458 1.14055
nostrin. [refseq;acc:nm_052946] Rooted 59.6399 51.9242 1.1486
nuclear dna-binding protein; small unique nuclear receptor corepressor; c1d dna-binding protein. [refseq;acc:nm_006333] Measured 0 23818.1 19621.3 1.21389
presenilin-like protein 1 (ec 3.4.99.-) (sppl2b protein). [swissprot;acc:q8tct7] Rooted 29.5635 33.7491 1.14158
raf proto-oncogene serine/threonine-protein kinase (ec 2.7.1.-) (raf-1) (c-raf). [swissprot;acc:p04049] Measured 1 17756.5 14007.3 1.26766
transcription factor iiia (factor a) (tfiiia). [swissprot;acc:q92664] Ranked 0 10899.5 12217.4 1.12091
194 aquaporin-chip (water channel protein for red blood cells and kidney proximal tubule) (aquaporin 1) (aqp-1) (urine water channel). [swissprot;acc:p29972] Squared 1 71346.6 95965.1 1.34505
cyclin g2. [swissprot;acc:q16589] Measured 17738.6 13995.7 1.26743
eap30 subunit of ell complex. [refseq;acc:nm_007241] Rooted 59.6399 51.9242 1.1486
guanine nucleotide-binding protein beta subunit-like protein 12.3 (p205) (receptor of activated protein kinase c 1) (rack1) (receptor for activated c kinase). [swissprot;acc:p25388] Squared 0 668.421 962.098 1.43936
kappa b-ras 1. [refseq;acc:nm_020345] Ranked 12657.7 11299.1 1.12024
keratin associated protein 9.2. [refseq;acc:nm_031961] Rooted 23.871 20.9159 1.14128
nuclear protein ukp68. [refseq;acc:nm_024824] Ranked 1 227.491 199.458 1.14055
transcription elongation factor a protein 1 (transcription elongation factor s-ii protein 1) (transcription elongation factor tfiis.o). [swissprot;acc:p23193] Measured 0 125.5 103.5 1.21256
195 adp-ribosylation factor-like protein 7 (adp-ribosylation factor-like protein lak). [swissprot;acc:p56559] 23 19 1.21053
blood group rh(ce) polypeptide (rhesus c/e antigens) (rh30a) (rhixb) (rh polypeptide 1) (rhpi). [swissprot;acc:p18577] Squared 479.423 335.966 1.427
cyclin g1 (cyclin g). [swissprot;acc:p51959] Measured 1 17738.5 13995.6 1.26743
huntingtin interacting protein c. [refseq;acc:nm_012272] Ranked 227.971 200.417 1.13748
keratin associated protein 2-4; keratin associated protein 2.4. [refseq;acc:nm_033184] Rooted 0 23.8722 20.933 1.14041
liv-1 protein, estrogen regulated. [refseq;acc:nm_012319] 1 59.6399 51.9242 1.1486
mitochondrial 28s ribosomal protein s22 (s22mt) (mrp-s22) (gk002). [swissprot;acc:p82650] Ranked 0 13942.8 15586.4 1.11788

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/