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 Hugo description Value Type Network Comparison Type Interaction Map Filtered red green network_comparison
Results: HTML CSV LaTeX Showing element 3608 to 3657 of 6456 in total
Value Type  : Ranked
Interaction Map  : High confidence
Filtered  : 1
Rank
Hugo
description
Network Comparison Type
red
green
network_comparison
1804 CUGBP2 cug triplet repeat, rna binding protein 2; elav-type rna-binding protein; cug triplet repeat,rna-binding protein 2; cug triplet repeat, rna-binding protein 2; neuroblastoma apoptosis-related rna-binding protein. [refseq;acc:nm_006561] Divided 217.984 215.442 1.0118
1805 ACTN4 alpha-actinin 4 (non-muscle alpha-actinin 4) (f-actin cross linking protein). [swissprot;acc:o43707] 217.008 214.482 1.01178
PBX3 pre-b-cell leukemia transcription factor-3 (homeobox protein pbx3). [swissprot;acc:p40426] Subtracted 206.332 203.874 2.458
1806 ACTN1 alpha-actinin 1 (alpha-actinin cytoskeletal isoform) (non-muscle alpha-actinin 1) (f-actin cross linking protein). [swissprot;acc:p12814] Divided 217.009 214.482 1.01178
C1orf179 hyporthetical protein mgc27169. [refseq;acc:nm_176782] Subtracted 206.332 203.874 2.458
1807 MEIS1 homeobox protein meis1. [swissprot;acc:o00470]
RALGPS1 ral guanine nucleotide exchange factor ralgps1a. [refseq;acc:nm_014636] Divided 211.102 208.651 1.01175
1808 MEIS2 homeobox protein meis2 (meis1-related protein 1). [swissprot;acc:o14770] Subtracted 206.332 203.874 2.458
RALGPS2 ral-a exchange factor ralgps2. [refseq;acc:nm_152663] Divided 211.102 208.651 1.01175
1809 BAG2 bag-family molecular chaperone regulator-2. [swissprot;acc:o95816] Subtracted 206.332 203.874 2.458
STUB1 stip1 homology and u-box containing protein 1; serologically defined colon cancer antigen 7; carboxy terminus of hsp70p-interacting protein; heat shock protein a binding protein 2 (c-terminal). [refseq;acc:nm_005861] Divided 211.102 208.651 1.01175
1810 no value lon protease homolog, mitochondrial precursor (ec 3.4.21.-) (lon protease-like protein) (lonp) (lonhs). [swissprot;acc:p36776] 223.214 225.827 1.01171
pre-b-cell leukemia transcription factor-2 (homeobox protein pbx2) (g17 protein). [swissprot;acc:p40425] Subtracted 206.332 203.874 2.458
1811 GALNT2 polypeptide n-acetylgalactosaminyltransferase 2; udp-galnac transferase 2. [refseq;acc:nm_004481] Divided 216.854 214.35 1.01168
PBX4 pre-b-cell leukemia transcription factor 4. [refseq;acc:nm_025245] Subtracted 206.332 203.874 2.458
1812 CCNC cyclin c. [swissprot;acc:p24863] Divided 217.071 214.564 1.01168
MEIS3 homeobox protein meis3 (meis1-related protein 2) (fragment). [swissprot;acc:q99687] Subtracted 206.332 203.874 2.458
1813 GALNTL1 similar to expressed sequence ai415388 (fragment). [sptrembl;acc:q8n428] Divided 216.854 214.35 1.01168
RALGPS1 ral guanine nucleotide exchange factor ralgps1a. [refseq;acc:nm_014636] Subtracted 211.102 208.651 2.451
1814 PPP1CC serine/threonine protein phosphatase pp1-gamma catalytic subunit (ec 3.1.3.16) (pp-1g). [swissprot;acc:p36873] Divided 122.3 123.727 1.01167
RALGPS2 ral-a exchange factor ralgps2. [refseq;acc:nm_152663] Subtracted 211.102 208.651 2.451
1815 no value dpy-30-like protein. [swissprot;acc:q9c005] Divided 220.462 217.926 1.01164
STUB1 stip1 homology and u-box containing protein 1; serologically defined colon cancer antigen 7; carboxy terminus of hsp70p-interacting protein; heat shock protein a binding protein 2 (c-terminal). [refseq;acc:nm_005861] Subtracted 211.102 208.651 2.451
1816 ATG12 autophagy protein 12-like (apg12-like). [swissprot;acc:o94817] 187.582 190.028 2.446
RAB11FIP1 rab coupling protein; rab-interacting recycling protein; rab effector protein; rab11-family interacting protein 1. [refseq;acc:nm_025151] Divided 220.462 217.926 1.01164
1817 CAPZA1 f-actin capping protein alpha-1 subunit (capz alpha-1). [swissprot;acc:p52907] Subtracted 214.722 212.281 2.441
RAB11FIP5 gamma-snap-associated factor 1; rab11-interacting protein. [refseq;acc:nm_015470] Divided 220.462 217.926 1.01164
1818 CAD cad protein [includes: glutamine-dependent carbamoyl-phosphate synthase (ec 6.3.5.5); aspartate carbamoyltransferase (ec 2.1.3.2); dihydroorotase (ec 3.5.2.3)]. [swissprot;acc:p27708] Subtracted 212.884 215.323 2.439
COX4NB neighbor of cox4. [swissprot;acc:o43402] Divided 220.462 217.926 1.01164
1819 C14orf122 protein c14orf122 (cgi-112). [swissprot;acc:q9y3b6]
MCM3 dna replication licensing factor mcm3 (dna polymerase alpha holoenzyme-associated protein p1) (rlf beta subunit) (p102 protein) (p1-mcm3). [swissprot;acc:p25205] Subtracted 233.828 231.395 2.433
1820 ATP9A potential phospholipid-transporting atpase iia (ec 3.6.1.-). [swissprot;acc:o75110] Divided 220.462 217.926 1.01164
KEAP1 kelch-like ech-associated protein 1 (cytosolic inhibitor of nrf2). [swissprot;acc:q14145] Subtracted 233.828 231.395 2.433
1821 RBM38 rna-binding region containing protein 1 (hsrnaseb) (ssdna binding protein seb4) (cll-associated antigen kw-5). [swissprot;acc:q9h0z9] Divided 218.36 215.874 1.01152
RPL24 60s ribosomal protein l24 (l30). [swissprot;acc:p38663] Subtracted 201.288 198.86 2.428
1822 EIF2B5 translation initiation factor eif-2b epsilon subunit (eif-2b gdp-gtp exchange factor). [swissprot;acc:q13144] 222.215 224.637 2.422
PFKL 6-phosphofructokinase, liver type (ec 2.7.1.11) (phosphofructokinase 1) (phosphohexokinase) (phosphofructo-1-kinase isozyme b) (pfk-b). [swissprot;acc:p17858] Divided 240.32 243.085 1.01151
1823 EIF2B3 translation initiation factor eif-2b gamma subunit (eif-2b gdp-gtp exchange factor). [swissprot;acc:q9nr50] Subtracted 222.215 224.637 2.422
FXR2 fragile x mental retardation syndrome related protein 2. [swissprot;acc:p51116] Divided 202.386 200.086 1.0115
1824 no value f-actin capping protein alpha-2 subunit (capz alpha-2). [swissprot;acc:p47755] Subtracted 214.746 212.328 2.418
CAPZA1 f-actin capping protein alpha-1 subunit (capz alpha-1). [swissprot;acc:p52907] Divided 214.722 212.281 1.0115
1825 no value dna topoisomerase ii, alpha isozyme (ec 5.99.1.3). [swissprot;acc:p11388] Subtracted 203.759 201.349 2.41
FXR1 fragile x mental retardation syndrome related protein 1. [swissprot;acc:p51114] Divided 202.386 200.086 1.0115
1826 no value williams-beuren syndrome critical region protein 20 copy b. [refseq;acc:nm_145645] Subtracted 223.862 226.271 2.409
NUP43 nucleoporin nup43 (p42). [swissprot;acc:q8nfh3] Divided 202.393 200.094 1.01149
1827 CLPX atp-dependent clp protease atp-binding subunit clpx-like, mitochondrial precursor. [swissprot;acc:o76031] Subtracted 222.819 225.228 2.409
NME3 nucleoside diphosphate kinase 3 (ec 2.7.4.6) (ndk 3) (ndp kinase 3) (nm23-h3) (dr-nm23). [swissprot;acc:q13232] Divided 191.39 189.219 1.01147
1828 FMR1 fragile x mental retardation 1 protein (protein fmr-1) (fmrp). [swissprot;acc:q06787] 202.41 200.115
NSUN5 williams beuren syndrome critical region 20a isoform 2; nol1/nop2/sun gene family member; williams-beuren syndrome critical region protein 20 copy a; williams beuren syndrome chromosome region 20. [refseq;acc:nm_018044] Subtracted 223.862 226.271 2.409
1829 CAD cad protein [includes: glutamine-dependent carbamoyl-phosphate synthase (ec 6.3.5.5); aspartate carbamoyltransferase (ec 2.1.3.2); dihydroorotase (ec 3.5.2.3)]. [swissprot;acc:p27708] Divided 212.884 215.323 1.01146

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/