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

Table 3: Type II network, divided ranks. This table presents the output of the simulation of a type-II network in which we relied on the high confidence interactions and micro-array results. The output of the micro-array was then ranked and these ranks used as input into the network simulation. After performing two such simulations (one for the MK5 off and one for the MK5 on microarray output), we divided the ranks and sorted the results accordingly. The output of this technique is a collection of proteins that cluster naturally together.


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 851 to 900 of 6456 in total
Value Type  : Ranked
Interaction Map  : High confidence
Filtered  : 1
Rank
Hugo
description
Network Comparison Type
red
green
network_comparison
426 AIFM1 programmed cell death protein 8, mitochondrial precursor (ec 1.-.-.-) (apoptosis-inducing factor). [swissprot;acc:o95831] Subtracted 212.547 229.411 16.864
DCTN5 dynactin 4. [refseq;acc:nm_032486] Divided 233.142 252.253 1.08197
427 POLR2E dna-directed rna polymerase ii 23 kda polypeptide (ec 2.7.7.6) (rpb25) (xap4) (rpb5) (rpabc1). [swissprot;acc:p19388] 239.977 259.525 1.08146
TBX6 t-box transcription factor tbx6 (t-box protein 6). [swissprot;acc:o95947] Subtracted 212.547 229.411 16.864
428 DDX54 atp-dependent rna helicase mgc2835; atp-dependent rna helicase; apoptosis related protein apr-5; dead box helicase 97 kda. [refseq;acc:nm_024072] Divided 253.852 234.808 1.0811
LSM5 u6 snrna-associated sm-like protein lsm5. [swissprot;acc:q9y4y9] Subtracted 227.748 210.888 16.86
429 EBNA1BP2 probable rrna processing protein ebp2 (ebna1 binding protein 2) (nucleolar protein p40). [swissprot;acc:q99848] 251.344 234.514 16.83
POLR3G polymerase (rna) iii (dna directed) (32kd). [refseq;acc:nm_006467] Divided 239.709 259.038 1.08064
430 LSM5 u6 snrna-associated sm-like protein lsm5. [swissprot;acc:q9y4y9] 227.748 210.888 1.07995
PPAN-P2RY11 suppressor of swi4 1 homolog (ssf-1) (peter pan homolog). [swissprot;acc:q9nq55] Subtracted 250.938 234.134 16.804
431 BAG3 bag-family molecular chaperone regulator-3 (bcl-2 binding athanogene- 3) (bag-3) (bcl-2-binding protein bis) (docking protein cair-1). [swissprot;acc:o95817] 233.529 216.737 16.792
TRUB1 trub pseudouridine (psi) synthase homolog 1. [refseq;acc:nm_139169] Divided 236.245 255.113 1.07987
432 ENDOG endonuclease g, mitochondrial precursor (ec 3.1.30.-) (endo g). [swissprot;acc:q14249] 212.547 229.411 1.07934
MCTS1 mct-1 protein. [refseq;acc:nm_014060] Subtracted 226.313 243.03 16.717
433 AIFM1 programmed cell death protein 8, mitochondrial precursor (ec 1.-.-.-) (apoptosis-inducing factor). [swissprot;acc:o95831] Divided 212.547 229.411 1.07934
MRPL22 mitochondrial ribosomal protein l22. [refseq;acc:nm_014180] Subtracted 226.313 243.03 16.717
434 NOC3L ad24 protein. [refseq;acc:nm_022451] 251.334 234.672 16.662
TBX6 t-box transcription factor tbx6 (t-box protein 6). [swissprot;acc:o95947] Divided 212.547 229.411 1.07934
435 POLI polymerase (dna directed) iota; rad30 (s. cerevisiae) homolog b; polymerase (dna-directed), iota. [refseq;acc:nm_007195] 221.522 205.286 1.07909
WDR12 wd-repeat protein 12 (ytm1 homolog). [swissprot;acc:q9gzl7] Subtracted 251.299 234.729 16.57
436 PXN paxillin. [swissprot;acc:p49023] Divided 221.522 205.286 1.07909
TPI1 triosephosphate isomerase (ec 5.3.1.1) (tim). [swissprot;acc:p00938] Subtracted 231.496 248.048 16.552
437 TRIP10 cdc42-interacting protein 4 (thyroid receptor interacting protein 10) (trip-10). [swissprot;acc:q15642] Divided 209.921 226.459 1.07878
Subtracted 16.538
438 ARD1A n-terminal acetyltransferase complex ard1 subunit homolog (ec 2.3.1.-). [swissprot;acc:p41227] Divided 233.723 216.674 1.07869
BOP1 block of proliferation 1. [swissprot;acc:q14137] Subtracted 250.794 234.433 16.361
439 PES1 pescadillo homolog 1. [swissprot;acc:o00541] 251.297 234.941 16.356
RPS9 40s ribosomal protein s9. [swissprot;acc:p46781] Divided 238.986 257.784 1.07866
440 no value 40s ribosomal protein s26. [swissprot;acc:p02383] Subtracted 210.224 226.578 16.354
NDC80 highly expressed in cancer, rich in leucine heptad repeats. [refseq;acc:nm_006101] Divided 231.802 249.983 1.07843
441 GRAP grb2-related adaptor protein. [swissprot;acc:q13588] 223.457 207.222 1.07835
TIMM22 mitochondrial import inner membrane translocase subunit tim22. [swissprot;acc:q9y584] Subtracted 210.225 226.578 16.353
442 ANKS1B e2a-pbx1-associated protein; putative 47 kda protein. [refseq;acc:nm_020140] Divided 223.802 207.55 1.0783
ATPAF2 atp synthase mitochondrial f1 complex assembly factor 2. [refseq;acc:nm_145691] Subtracted 210.225 226.578 16.353
443 NAV2 neuron navigator 2 isoform l; retinoic acid inducible in neuroblastoma; pore membrane and/or filament interacting like protein 2; helicase helad1. [refseq;acc:nm_145117] Divided 223.79 207.539 1.0783
UQCRB ubiquinol-cytochrome c reductase complex 14 kda protein (ec 1.10.2.2) (complex iii subunit vi) (qp-c). [swissprot;acc:p14927] Subtracted 210.225 226.578 16.353
444 NAV1 neuron navigator 1; neuron navigator-1; pore membrane and/or filament interacting like protein 3. [refseq;acc:nm_020443] Divided 223.801 207.549 1.0783
NOL1 proliferating-cell nucleolar antigen p120 (proliferation-associated nucleolar protein p120). [swissprot;acc:p46087] Subtracted 250.053 233.725 16.328
445 GNL3 nucleostemin; putative nucleotide binding protein, estradiol-induced. [refseq;acc:nm_014366] 250.858 234.563 16.295
NAV3 neuron navigator 3; pore membrane and/or filament interacting like protein 1; steerin 3. [refseq;acc:nm_014903] Divided 223.801 207.549 1.0783
446 GRB2 growth factor receptor-bound protein 2 (grb2 adapter protein) (sh2/sh3 adapter grb2) (ash protein). [swissprot;acc:p29354] 224.049 207.785 1.07827
Subtracted 16.264
447 NEK2 serine/threonine-protein kinase nek2 (ec 2.7.1.37) (nima-related protein kinase 2) (nima-like protein kinase 1) (hspk 21). [swissprot;acc:p51955] Divided 1.07827
Subtracted 16.264
448 ANKS1B e2a-pbx1-associated protein; putative 47 kda protein. [refseq;acc:nm_020140] 223.802 207.55 16.252
MACF1 microtubule-actin crosslinking factor 1, isoform 4. [swissprot;acc:q96pk2] Divided 228.468 246.338 1.07822
449 DST bullous pemphigoid antigen 1 isoforms 1/2/3/4/5/8 (230 kda bullous pemphigoid antigen) (bpa) (hemidesmosomal plaque protein) (dystonia musculorum protein) (fragment). [swissprot;acc:q03001] 228.463 246.33 1.07821
NAV1 neuron navigator 1; neuron navigator-1; pore membrane and/or filament interacting like protein 3. [refseq;acc:nm_020443] Subtracted 223.801 207.549 16.252
450 NAV3 neuron navigator 3; pore membrane and/or filament interacting like protein 1; steerin 3. [refseq;acc:nm_014903]
SRP9 signal recognition particle 9 kda protein (srp9). [swissprot;acc:p49458] Divided 235.94 218.837 1.07815

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/