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 Hugo description Value Type Network Comparison Type Interaction Map Filtered red green network_comparison
Results: HTML CSV LaTeX Showing element 1251 to 1300 of 6456 in total
Value Type  : Ranked
Interaction Map  : High confidence
Filtered  : 1
Rank
Hugo
description
Network Comparison Type
red
green
network_comparison
626 GABRE gamma-aminobutyric-acid receptor epsilon subunit precursor (gaba(a) receptor). [swissprot;acc:p78334] Divided 214.256 202.14 1.05994
HEYL hairy/enhancer-of-split related with yrpw motif-like. [refseq;acc:nm_014571] Subtracted 229.072 216.576 12.496
627 JMJD6 phosphatidylserine receptor; phosphatidylserine receptor beta. [refseq;acc:nm_015167] Divided 214.256 202.139 1.05994
SYN2 synapsin ii. [swissprot;acc:q92777] Subtracted 229.072 216.576 12.496
628 GABRA1 gamma-aminobutyric-acid receptor alpha-1 subunit precursor (gaba(a) receptor). [swissprot;acc:p14867] Divided 214.256 202.14 1.05994
MRRF mitochondrial ribosome recycling factor. [refseq;acc:nm_138777] Subtracted 229.072 216.576 12.496
629 GABRA3 gamma-aminobutyric-acid receptor alpha-3 subunit precursor (gaba(a) receptor). [swissprot;acc:p34903] Divided 214.256 202.14 1.05994
PEX5 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 HEY2 hairy/enhancer-of-split related with yrpw motif 2; gridlock; hes-related repressor protein 1. [refseq;acc:nm_012259]
NDUFA6 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 HES1 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
PDXDC1 similar to expressed sequence aa415817. [sptrembl;acc:q8n4q9] Divided 214.256 202.141 1.05993
632 ECH1 delta3,5-delta2,4-dienoyl-coa isomerase, mitochondrial precursor (ec 5.3.3.-). [swissprot;acc:q13011] Subtracted 229.072 216.576 12.496
HOXD9 homeobox protein hox-d9 (hox-4c) (hox-5.2). [swissprot;acc:p28356] Divided 214.254 202.166 1.05979
633 AARS alanyl-trna synthetase (ec 6.1.1.7) (alanine--trna ligase) (alars). [swissprot;acc:p49588] 234.106 248.104
ABLIM1 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
634 no value dead-box protein abstrakt homolog. [swissprot;acc:q9ujv9] Divided 226.523 213.786 1.05958
SYN1 synapsin i (brain protein 4.1). [swissprot;acc:p17600] Subtracted 229.072 216.576 12.496
635 MVK mevalonate kinase (ec 2.7.1.36) (mk). [swissprot;acc:q03426] 235.296 247.673 12.377
RPL37 60s ribosomal protein l37 (g1.16). [swissprot;acc:p02403] Divided 228.639 242.258 1.05957
636 SFRS1 splicing factor, arginine/serine-rich 1 (pre-mrna splicing factor sf2, p33 subunit) (alternative splicing factor asf-1). [swissprot;acc:q07955]
VAV1 vav proto-oncogene. [swissprot;acc:p15498] Subtracted 212.2 199.849 12.351
637 PPAT amidophosphoribosyltransferase precursor (ec 2.4.2.14) (glutamine phosphoribosylpyrophosphate amidotransferase) (atase) (gpat). [swissprot;acc:q06203] Divided 228.639 242.258 1.05957
VAV3 vav-3 protein. [swissprot;acc:q9ukw4] Subtracted 212.253 199.908 12.345
638 SNX17 sorting nexin 17. [swissprot;acc:q15036] Divided 228.639 242.258 1.05957
VAV2 vav-2 protein. [swissprot;acc:p52735] Subtracted 212.526 200.212 12.314
639 HRB 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
NOVA1 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 no value 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
PRAM1 pram-1 protein; pml-rara target gene encoding an adaptor molecule-1. [refseq;acc:nm_032152] Divided 217.67 230.596 1.05938
642 no value intersectin 2 (sh3 domain-containing protein 1b) (sh3p18) (sh3p18-like wasp associated protein). [swissprot;acc:q9nzm3]
LSM4 u6 snrna-associated sm-like protein lsm4 (glycine-rich protein) (grp). [swissprot;acc:q9y4z0] Subtracted 228.944 216.745 12.199
643 HRBL hiv-1 rev binding protein-like; rev/rex activation domain binding protein-related. [refseq;acc:nm_006076] Divided 217.67 230.596 1.05938
MARS methionyl-trna synthetase (ec 6.1.1.10) (methionine--trna ligase) (metrs). [swissprot;acc:p56192] Subtracted 218.227 206.078 12.149
644 C16orf35 cgthba protein (-14 gene protein). [swissprot;acc:q12980] Divided 217.67 230.596 1.05938
CASK 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 HIF3A hypoxia-inducible factor-3 alpha isoform a; inhibitory pas domain protein. [refseq;acc:nm_152794]
HTATSF1 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
646 SCOC short coiled-coil protein; short coiled coil protein. [refseq;acc:nm_032547] 216.731 229.549 1.05914
SIM1 single-minded homolog 1. [swissprot;acc:p81133] Subtracted 226.497 214.355 12.142
647 DYNLL2 dynein light chain 2. [refseq;acc:nm_080677] Divided 216.731 229.549 1.05914
HOXA10 homeobox protein hox-a10 (hox-1h) (hox-1.8) (pl). [swissprot;acc:p31260] Subtracted 214.257 202.125 12.132
648 HOXB9 homeobox protein hox-b9 (hox-2e) (hox-2.5). [swissprot;acc:p17482] 202.132 12.125
MARS methionyl-trna synthetase (ec 6.1.1.10) (methionine--trna ligase) (metrs). [swissprot;acc:p56192] Divided 218.227 206.078 1.05895
649 EIF4E eukaryotic translation initiation factor 4e (eif-4e) (eif4e) (mrna cap-binding protein) (eif-4f 25 kda subunit). [swissprot;acc:p06730] 233.725 220.751 1.05877
HOXA9 homeobox protein hox-a9 (hox-1g). [swissprot;acc:p31269] Subtracted 214.257 202.132 12.125
650 no value u6 snrna-associated sm-like protein lsm7. [swissprot;acc:q9uk45] Divided 228.986 216.276 1.05877
HOXC9 homeobox protein hox-c9 (hox-3b). [swissprot;acc:p31274] Subtracted 214.257 202.135 12.122

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
- Hugo is the HGNC identifier if it exists
- 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/