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 1244 to 1293 of 6456 in total
Value Type  : Ranked
Interaction Map  : High confidence
Filtered  : 1
Rank
description
Network Comparison Type
red
green
network_comparison
622 synapsin iii. [swissprot;acc:o14994] Subtracted 229.072 216.576 12.496
623 aspartate beta-hydroxylase isoform b; junctin isoform 1; junctate; aspartyl/asparaginyl-beta-hydroxylase; peptide-aspartate beta-dioxygenase; humbug. [refseq;acc:nm_032468]
gamma-aminobutyric-acid receptor gamma-2 subunit precursor (gaba(a) receptor). [swissprot;acc:p18507] Divided 214.256 202.14 1.05994
624 hairy/enhancer-of-split related with yrpw motif 1 (hairy and enhancer of split related-1) (hesr-1) (cardiovascular helix-loop-helix factor 2) (hes-related repressor protein 2 herp2). [swissprot;acc:q9y5j3] Subtracted 229.072 216.576 12.496
interleukin-1 receptor-associated kinase 4; interleukin-1 receptor associated kinase 4. [refseq;acc:nm_016123] Divided 214.256 202.139 1.05994
625 actin binding lim protein 2. [refseq;acc:nm_032432] Subtracted 229.072 216.576 12.496
gamma-aminobutyric-acid receptor alpha-4 subunit precursor (gaba(a) receptor). [swissprot;acc:p48169] Divided 214.256 202.14 1.05994
626 gamma-aminobutyric-acid receptor epsilon subunit precursor (gaba(a) receptor). [swissprot;acc:p78334]
hairy/enhancer-of-split related with yrpw motif-like. [refseq;acc:nm_014571] Subtracted 229.072 216.576 12.496
627 phosphatidylserine receptor; phosphatidylserine receptor beta. [refseq;acc:nm_015167] Divided 214.256 202.139 1.05994
synapsin ii. [swissprot;acc:q92777] Subtracted 229.072 216.576 12.496
628 gamma-aminobutyric-acid receptor alpha-1 subunit precursor (gaba(a) receptor). [swissprot;acc:p14867] Divided 214.256 202.14 1.05994
mitochondrial ribosome recycling factor. [refseq;acc:nm_138777] Subtracted 229.072 216.576 12.496
629 gamma-aminobutyric-acid receptor alpha-3 subunit precursor (gaba(a) receptor). [swissprot;acc:p34903] Divided 214.256 202.14 1.05994
peroxisomal targeting signal 1 receptor (peroxismore receptor 1) (peroxisomal c-terminal targeting signal import receptor) (pts1-bp) (peroxin-5) (pts1 receptor). [swissprot;acc:p50542] Subtracted 229.072 216.576 12.496
630 hairy/enhancer-of-split related with yrpw motif 2; gridlock; hes-related repressor protein 1. [refseq;acc:nm_012259]
nadh-ubiquinone oxidoreductase b14 subunit (ec 1.6.5.3) (ec 1.6.99.3) (complex i-b14) (ci-b14). [swissprot;acc:p56556] Divided 214.256 202.141 1.05993
631 similar to expressed sequence aa415817. [sptrembl;acc:q8n4q9]
transcription factor hes-1 (hairy and enhancer of split 1) (hairy- like) (hhl) (hairy homolog). [swissprot;acc:q14469] Subtracted 229.072 216.576 12.496
632 delta3,5-delta2,4-dienoyl-coa isomerase, mitochondrial precursor (ec 5.3.3.-). [swissprot;acc:q13011]
homeobox protein hox-d9 (hox-4c) (hox-5.2). [swissprot;acc:p28356] Divided 214.254 202.166 1.05979
633 actin-binding lim protein 1 isoform a; lim actin-binding protein 1; limatin; actin-binding lim protein. [refseq;acc:nm_002313] Subtracted 229.072 216.576 12.496
alanyl-trna synthetase (ec 6.1.1.7) (alanine--trna ligase) (alars). [swissprot;acc:p49588] Divided 234.106 248.104 1.05979
634 dead-box protein abstrakt homolog. [swissprot;acc:q9ujv9] 226.523 213.786 1.05958
synapsin i (brain protein 4.1). [swissprot;acc:p17600] Subtracted 229.072 216.576 12.496
635 60s ribosomal protein l37 (g1.16). [swissprot;acc:p02403] Divided 228.639 242.258 1.05957
mevalonate kinase (ec 2.7.1.36) (mk). [swissprot;acc:q03426] Subtracted 235.296 247.673 12.377
636 splicing factor, arginine/serine-rich 1 (pre-mrna splicing factor sf2, p33 subunit) (alternative splicing factor asf-1). [swissprot;acc:q07955] Divided 228.639 242.258 1.05957
vav proto-oncogene. [swissprot;acc:p15498] Subtracted 212.2 199.849 12.351
637 amidophosphoribosyltransferase precursor (ec 2.4.2.14) (glutamine phosphoribosylpyrophosphate amidotransferase) (atase) (gpat). [swissprot;acc:q06203] Divided 228.639 242.258 1.05957
vav-3 protein. [swissprot;acc:q9ukw4] Subtracted 212.253 199.908 12.345
638 sorting nexin 17. [swissprot;acc:q15036] Divided 228.639 242.258 1.05957
vav-2 protein. [swissprot;acc:p52735] Subtracted 212.526 200.212 12.314
639 nucleoporin-like protein rip (hiv-1 rev-binding protein) (rev interacting protein) (rev/rex activation domain-binding protein). [swissprot;acc:p52594] Divided 217.67 230.596 1.05938
rna-binding protein nova-1 (neuro-oncological ventral antigen 1) (onconeural ventral antigen-1) (paraneoplastic ri antigen) (ventral neuron-specific protein 1). [swissprot;acc:p51513] Subtracted 222.554 234.847 12.293
640 histone h3.3 (h3.a) (h3.b) (h3.3q). [swissprot;acc:p06351] 244.842 232.577 12.265
intersectin 1 (sh3 domain-containing protein 1a) (sh3p17). [swissprot;acc:q15811] Divided 217.67 230.596 1.05938
641 dj1099d15.1 (putative dnaj protein). [sptrembl;acc:q9h4j9] Subtracted 244.842 232.577 12.265
pram-1 protein; pml-rara target gene encoding an adaptor molecule-1. [refseq;acc:nm_032152] Divided 217.67 230.596 1.05938
642 intersectin 2 (sh3 domain-containing protein 1b) (sh3p18) (sh3p18-like wasp associated protein). [swissprot;acc:q9nzm3]
u6 snrna-associated sm-like protein lsm4 (glycine-rich protein) (grp). [swissprot;acc:q9y4z0] Subtracted 228.944 216.745 12.199
643 hiv-1 rev binding protein-like; rev/rex activation domain binding protein-related. [refseq;acc:nm_006076] Divided 217.67 230.596 1.05938
methionyl-trna synthetase (ec 6.1.1.10) (methionine--trna ligase) (metrs). [swissprot;acc:p56192] Subtracted 218.227 206.078 12.149
644 cgthba protein (-14 gene protein). [swissprot;acc:q12980] Divided 217.67 230.596 1.05938
peripheral plasma membrane protein cask (ec 2.7.1.-) (hcask) (calcium/calmodulin-dependent serine protein kinase) (lin-2 homolog). [swissprot;acc:o14936] Subtracted 226.497 214.355 12.142
645 hiv tat specific factor 1; cofactor required for tat activation of hiv-1 transcription. [refseq;acc:nm_014500] Divided 217.67 230.596 1.05938
hypoxia-inducible factor-3 alpha isoform a; inhibitory pas domain protein. [refseq;acc:nm_152794] Subtracted 226.497 214.355 12.142
646 short coiled-coil protein; short coiled coil protein. [refseq;acc:nm_032547] Divided 216.731 229.549 1.05914
single-minded homolog 1. [swissprot;acc:p81133] Subtracted 226.497 214.355 12.142
647 dynein light chain 2. [refseq;acc:nm_080677] Divided 216.731 229.549 1.05914

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/