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 Hugo Gene description Value Type Network Comparison Type Interaction Map Filtered red green network_comparison
Results: HTML CSV LaTeX Showing element 1562 to 1611 of 8289 in total
Value Type  : Ranked
Network Comparison Type  : Divided
Filtered  : 1
Rank
Hugo
description
Interaction Map
red
green
network_comparison
781 PRMT7 protein arginine n-methyltransferase (ec 2.1.1.-). [swissprot;acc:q9nvm4] Low confidence 203.591 198.319 1.02658
782 no value translin. [swissprot;acc:q15631] High confidence 224.385 235.131 1.04789
PLDN pallidin; pallid (mouse) homolog, pallidin. [refseq;acc:nm_012388] Low confidence 203.591 198.319 1.02658
783 HMBS porphobilinogen deaminase (ec 4.3.1.8) (hydroxymethylbilane synthase) (hmbs) (pre-uroporphyrinogen synthase) (pbg-d). [swissprot;acc:p08397] 204.238 198.951 1.02657
TSNAX translin-associated protein x (translin-associated factor x). [swissprot;acc:q99598] High confidence 224.385 235.131 1.04789
784 PQBP1 polyglutamine binding protein 1; nuclear protein containing ww domain 38 kd. [refseq;acc:nm_005710]
XAB2 xpa-binding protein 2 (hcnp protein) (pp3898). [swissprot;acc:q9hcs7] Low confidence 201.338 196.126 1.02657
785 ABI1 spectrin sh3 domain binding protein 1; eps8 binding protein; interactor protein ablbp4; abl-interactor protein 1 long; nap1 binding protein. [refseq;acc:nm_005470] 202.469 197.233 1.02655
NET1 neuroepithelial cell transforming gene 1; guanine nucleotide regulatory protein (oncogene); rho guanine nucleotide exchange factor (gef) 8. [refseq;acc:nm_005863] High confidence 244.447 233.508 1.04685
786 ARHGEF3 rho guanine nucleotide exchange factor 3; rhogef protein; 59.8 kda protein; exchange factor found in platelets and leukemic and neuronal tissues, xpln. [refseq;acc:nm_019555]
FBXL11 f-box and leucine-rich repeat protein 11; f-box protein fbl11. [refseq;acc:nm_012308] Low confidence 202.957 208.337 1.02651
787 ATP6V1C2 atpase, h+ transporting, lysosomal 42kda, v1 subunit c isoform 2; v-atpase c2 subunit. [refseq;acc:nm_144583] 202.489 197.259
UTP20 down-regulated in metastasis. [refseq;acc:nm_014503] High confidence 244.447 233.508 1.04685
788 EIF4G3 eukaryotic translation initiation factor 4 gamma, 3. [refseq;acc:nm_003760] Low confidence 200.788 195.605 1.0265
NFU1 hira-interacting protein 5 (cgi-33). [swissprot;acc:q9ums0] High confidence 138.705 132.538 1.04653
789 no value 40s ribosomal protein sa (p40) (34/67 kda laminin receptor) (colon carcinoma laminin-binding protein) (nem/1chd4) (multidrug resistance- associated protein mgr1-ag). [swissprot;acc:p08865] 224.244 234.511 1.04578
GALNT2 polypeptide n-acetylgalactosaminyltransferase 2; udp-galnac transferase 2. [refseq;acc:nm_004481] Low confidence 205.859 200.547 1.02649
790 EIF4G1 eukaryotic translation initiation factor 4 gamma (eif-4-gamma) (eif- 4g) (eif4g) (p220). [swissprot;acc:q04637] 200.79 195.608
RPS21 40s ribosomal protein s21. [swissprot;acc:p35265] High confidence 224.244 234.511 1.04578
791 GALNTL1 similar to expressed sequence ai415388 (fragment). [sptrembl;acc:q8n428] Low confidence 205.859 200.547 1.02649
SERPINB9 cytoplasmic antiproteinase 3 (cap3) (cap-3) (protease inhibitor 9) (serpin b9). [swissprot;acc:p50453] High confidence 224.244 234.511 1.04578
792 no value maspin precursor (protease inhibitor 5). [swissprot;acc:p36952]
KRR1 hiv-1 rev binding protein 2; rev interacting protein. [refseq;acc:nm_007043] Low confidence 204.204 198.939 1.02647
793 AGBL3 similar to atp/gtp-binding protein. [sptrembl;acc:q8nem8] 184.195 179.447 1.02646
SERPINB10 bomapin (protease inhibitor 10) (serpin b10). [swissprot;acc:p48595] High confidence 224.244 234.511 1.04578
794 SERPINB8 plasminogen activator inhibitor-2 precursor (pai-2) (placental plasminogen activator inhibitor) (monocyte arg-serpin) (urokinase inhibitor). [swissprot;acc:p05120]
TRMU trna (5-methylaminomethyl-2-thiouridylate)-methyltransferase (ec 2.1.1.61). [swissprot;acc:o75648] Low confidence 184.195 179.447 1.02646
795 no value serpin b11. [swissprot;acc:q96p15] High confidence 224.244 234.511 1.04578
CAPNS1 calcium-dependent protease, small subunit (calpain regulatory subunit) (calcium-activated neutral proteinase) (canp). [swissprot;acc:p04632] Low confidence 202.525 197.308 1.02644
796 GCA grancalcin. [swissprot;acc:p28676] 202.524
SERPINB6 placental thrombin inhibitor (cytoplasmic antiproteinase) (cap) (protease inhibitor 6) (pi-6). [swissprot;acc:p35237] High confidence 224.244 234.511 1.04578
797 no value cytoplasmic antiproteinase 2 (cap2) (cap-2) (protease inhibitor 8) (serpin b8). [swissprot;acc:p50452]
ASCC2 asc-1 complex subunit p100. [refseq;acc:nm_032204] Low confidence 211.636 206.184 1.02644
798 SERPINB1 leukocyte elastase inhibitor (lei) (monocyte/neutrophil elastase inhibitor) (m/nei) (ei). [swissprot;acc:p30740] High confidence 224.244 234.511 1.04578
SRI sorcin (22 kda protein) (cp-22) (v19). [swissprot;acc:p30626] Low confidence 202.524 197.308 1.02644
799 AMPD2 amp deaminase 2 (ec 3.5.4.6) (amp deaminase isoform l). [swissprot;acc:q01433] 201.294 196.11 1.02643
SQSTM1 sequestosome 1; ubiquitin-binding protein p62; phosphotyrosine independent ligand for the lck sh2 domain p62. [refseq;acc:nm_003900] High confidence 221.965 212.404 1.04501
800 DCUN1D1 rp42 homolog; squamous cell carcinoma-related oncogene. [refseq;acc:nm_020640] Low confidence 202.755 197.536 1.02642
SCP2 nonspecific lipid-transfer protein, mitochondrial precursor (nsl-tp) (sterol carrier protein 2) (scp-2) (sterol carrier protein x) (scp-x) (scpx). [swissprot;acc:p22307] High confidence 221.965 212.404 1.04501
801 CTNNB1 beta-catenin (pro2286). [swissprot;acc:p35222] 224.445 214.894 1.04445
PDCD6 programmed cell death protein 6 (probable calcium-binding protein alg- 2). [swissprot;acc:o75340] Low confidence 202.522 197.311 1.02641
802 C3orf37 dc12 protein. [refseq;acc:nm_020187] 203.345 198.117 1.02639
TEX28P2 testis-specific protein tex28. [swissprot;acc:o15482] High confidence 212.386 221.785 1.04425
803 C3orf60 similar to nuclear protein e3-3 orf1. [sptrembl;acc:q9bu61]
RPN1 dolichyl-diphosphooligosaccharide--protein glycosyltransferase 67 kda subunit precursor (ec 2.4.1.119) (ribophorin i) (rpn-i). [swissprot;acc:p04843] Low confidence 199.573 194.441 1.02639
804 NEGR1 a kindred of iglon. [refseq;acc:nm_173808] High confidence 212.386 221.785 1.04425
TSFM elongation factor ts, mitochondrial precursor (ef-ts) (ef-tsmt). [swissprot;acc:p43897] Low confidence 204.519 199.267 1.02636
805 ANKRA2 ankyrin-repeat family a protein 2 (rfxank-like 2). [swissprot;acc:q9h9e1] High confidence 212.386 221.785 1.04425
SYNJ1 synaptojanin 1 (ec 3.1.3.36) (synaptic inositol-1,4,5-trisphosphate 5- phosphatase 1). [swissprot;acc:o43426] Low confidence 198.496 193.399 1.02635
806 ATP6V1C1 vacuolar atp synthase subunit c (ec 3.6.3.14) (v-atpase c subunit) (vacuolar proton pump c subunit). [swissprot;acc:p21283] 202.369 197.173

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/