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.


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Gene Rank description Network Comparison Type Value Type Interaction Map Filtered green red network_comparison
Results: HTML CSV LaTeX Showing element 1101 to 1150 of 6456 in total
Value Type  : Ranked
Interaction Map  : High confidence
Filtered  : 1
Rank
description
Network Comparison Type
green
red
network_comparison
551 grb2-related adaptor protein 2 (gads protein) (growth factor receptor binding protein) (grblg) (grf40 adaptor protein) (grf-40) (grb-2-like protein) (grb2l) (grbx) (p38) (hematopoietic cell-associated adaptor protein grpl) (adapter protein grid) (sh3-sh2-sh3 adaptor mona). [swissprot;acc:o75791] Divided 194.347 207.261 1.06645
selenide,water dikinase 1 (ec 2.7.9.3) (selenophosphate synthetase 1) (selenium donor protein 1). [swissprot;acc:p49903] Subtracted 208.201 222.156 13.955
552 crk-like protein. [swissprot;acc:p46109] Divided 194.346 207.26 1.06645
inositol polyphosphate-4-phosphatase, type 1 isoform b; inositol polyphosphate-4-phosphatase, type i, 107kd; 4-phosphatase i; inositol polyphosphate-4-phosphatase i. [refseq;acc:nm_001566] Subtracted 208.201 222.156 13.955
553 proto-oncogene tyrosine-protein kinase abl1 (ec 2.7.1.112) (p150) (c-abl). [swissprot;acc:p00519] Divided 194.346 207.26 1.06645
putative pre-mrna splicing factor rna helicase (atp-dependent rna helicase #3) (deah-box protein 16). [swissprot;acc:o60231] Subtracted 212.38 226.3 13.92
554 proto-oncogene tyrosine-protein kinase fyn (ec 2.7.1.112) (p59-fyn) (syn) (slk). [swissprot;acc:p06241] Divided 194.346 207.26 1.06645
t54 protein. [swissprot;acc:q92917] Subtracted 212.38 226.3 13.92
555 cbf1 interacting corepressor. [refseq;acc:nm_004882] 213.945 227.86 13.915
proto-oncogene tyrosine-protein kinase fgr (ec 2.7.1.112) (p55-fgr) (c-fgr). [swissprot;acc:p09769] Divided 194.346 207.26 1.06645
556 ccaat displacement protein (cdp) (cut-like 1). [swissprot;acc:p39880] 194.368 207.27 1.06638
evolutionarily conserved g-patch domain containing. [refseq;acc:nm_018025] Subtracted 213.945 227.86 13.915
557 homeobox protein cux-2 (cut-like 2) (fragment). [swissprot;acc:o14529] Divided 194.371 207.272 1.06637
shwachman-bodian-diamond syndrome protein (cgi-97). [swissprot;acc:q9y3a5] Subtracted 230.362 216.557 13.805
558 tgf beta-inducible nuclear protein 1; hairy cell leukemia protein 1. [refseq;acc:nm_014886] 235.255 248.994 13.739
ubiquitin activating enzyme e1-like protein. [refseq;acc:nm_006395] Divided 144.041 135.087 1.06628
559 neural wiskott-aldrich syndrome protein (n-wasp). [swissprot;acc:o00401] 194.452 207.309 1.06612
ribonuclease p protein subunit p30 (ec 3.1.26.5) (rnasep protein p30) (rnase p subunit 2). [swissprot;acc:p78346] Subtracted 230.439 216.72 13.719
560 son of sevenless protein homolog 1 (sos-1). [swissprot;acc:q07889] Divided 193.021 205.74 1.06589
tata-binding protein-associated phosphoprotein (down-regulator of transcription 1) (dr1 protein). [swissprot;acc:q01658] Subtracted 218.406 232.118 13.712
561 son of sevenless protein homolog 2 (sos-2). [swissprot;acc:q07890] Divided 193.183 205.89 1.06578
u6 snrna-associated sm-like protein lsm2 (small nuclear ribonuclear protein d homolog) (g7b) (snrnp core sm-like protein sm-x5). [swissprot;acc:q9y333] Subtracted 214.546 228.215 13.669
562 enteropeptidase precursor (ec 3.4.21.9) (enterokinase). [swissprot;acc:p98073] 210.944 224.606 13.662
ptb domain adaptor protein ced-6; engulfment adapter protein. [refseq;acc:nm_016315] Divided 207.121 220.744 1.06577
563 calcyphosine. [swissprot;acc:q13938]
splicing factor 3b subunit 2 (spliceosome associated protein 145) (sap 145) (sf3b150) (pre-mrna splicing factor sf3b 145 kda subunit). [swissprot;acc:q13435] Subtracted 210.944 224.606 13.662
564 crooked neck-like protein 1 (crooked neck homolog) (hcrn) (cgi-201) (mstp021). [swissprot;acc:q9bzj0] Divided 207.121 220.744 1.06577
ptb domain adaptor protein ced-6; engulfment adapter protein. [refseq;acc:nm_016315] Subtracted 13.623
565 calcyphosine. [swissprot;acc:q13938]
sedlin. [swissprot;acc:o14582] Divided 121.261 129.219 1.06563
566 crooked neck-like protein 1 (crooked neck homolog) (hcrn) (cgi-201) (mstp021). [swissprot;acc:q9bzj0] Subtracted 207.121 220.744 13.623
synbindin (trs23 homolog) (hematopoietic stem/progenitor cell protein 172) (hspc172) (ptd009) (cgi-104). [swissprot;acc:q9y296] Divided 121.261 129.219 1.06563
567 60s ribosomal protein l37 (g1.16). [swissprot;acc:p02403] Subtracted 242.258 228.639 13.619
bet3 homolog. [swissprot;acc:o43617] Divided 121.261 129.219 1.06563
568 putative pre-mrna splicing factor rna helicase (atp-dependent rna helicase #3) (deah-box protein 16). [swissprot;acc:o60231] 212.38 226.3 1.06554
splicing factor, arginine/serine-rich 1 (pre-mrna splicing factor sf2, p33 subunit) (alternative splicing factor asf-1). [swissprot;acc:q07955] Subtracted 242.258 228.639 13.619
569 amidophosphoribosyltransferase precursor (ec 2.4.2.14) (glutamine phosphoribosylpyrophosphate amidotransferase) (atase) (gpat). [swissprot;acc:q06203]
t54 protein. [swissprot;acc:q92917] Divided 212.38 226.3 1.06554
570 sorting nexin 17. [swissprot;acc:q15036] Subtracted 242.258 228.639 13.619
splicing factor arginine/serine-rich 11 (arginine-rich 54 kda nuclear protein) (p54). [swissprot;acc:q05519] Divided 215.631 229.709 1.06529
571 malate dehydrogenase, mitochondrial precursor (ec 1.1.1.37). [swissprot;acc:p40926] 254.099 238.529 1.06528
preimplantation protein 3; likely ortholog of preimplantation protein 3. [refseq;acc:nm_015387] Subtracted 208.264 221.807 13.543
572 cbf1 interacting corepressor. [refseq;acc:nm_004882] Divided 213.945 227.86 1.06504
dnaj homolog subfamily b member 11 precursor (er-associated dnaj protein 3) (erj3) (er-associated hsp40 co-chaperone) (hdj9) (pwp1- interacting protein 4). [swissprot;acc:q9ubs4] Subtracted 208.264 221.807 13.543
573 autoantigen ngp-1. [swissprot;acc:q13823] 236.817 250.302 13.485
evolutionarily conserved g-patch domain containing. [refseq;acc:nm_018025] Divided 213.945 227.86 1.06504
574 dna-directed rna polymerase ii 16 kda polypeptide (ec 2.7.7.6) (rpb4). [swissprot;acc:o15514] Subtracted 250.823 237.554 13.269
preimplantation protein 3; likely ortholog of preimplantation protein 3. [refseq;acc:nm_015387] Divided 208.264 221.807 1.06503
575 dnaj homolog subfamily b member 11 precursor (er-associated dnaj protein 3) (erj3) (er-associated hsp40 co-chaperone) (hdj9) (pwp1- interacting protein 4). [swissprot;acc:q9ubs4]
pre-mrna splicing factor prp17 (hprp17) (eh-binding protein 3) (ehb3). [swissprot;acc:o60508] Subtracted 210.136 223.282 13.146

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/