MK5 Microarray Data

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	description	Value Type	Network Comparison Type	Interaction Map	Filtered	red	green	network_comparison

Results: HTML CSV LaTeX

Showing element 1001 to 1050 of 8289 in total

Value Type  : Ranked
Network Comparison Type  : Divided
Filtered  : 1

Rank	description	Interaction Map	red	green	network_comparison
501	calcyphosine. [swissprot;acc:q13938]	Low confidence	204.363	197.899	1.03266
	cytochrome c1, heme protein, mitochondrial precursor (cytochrome c-1). [swissprot;acc:p08574]	High confidence	238.704	255.68	1.07112
502	oligophrenin-1 like protein (gtpase regulator associated with focal adhesion kinase). [swissprot;acc:q9una1]
	squamous cell carcinoma antigen recognized by t cells 1; u4/u6.u5 tri-snrnp-associated 110 kda protein; ige autoantigen; sart1(259) protein; sart1(800) protein. [refseq;acc:nm_005146]	Low confidence	200.271	193.957	1.03255
503	senescence marker protein-30 (smp-30) (regucalcin) (rc). [swissprot;acc:q15493]	High confidence	238.704	255.68	1.07112
	ubiquitin carboxyl-terminal hydrolase 22 (ec 3.1.2.15) (ubiquitin thiolesterase 22) (ubiquitin-specific processing protease 22) (deubiquitinating enzyme 22) (fragment). [swissprot;acc:q9upt9]	Low confidence	207.407	200.869	1.03255
504	oligophrenin 1. [swissprot;acc:o60890]	High confidence	238.704	255.68	1.07112
	zinc finger protein 183. [swissprot;acc:o15541]	Low confidence	205.192	198.726	1.03254
505	ad24 protein. [refseq;acc:nm_022451]	High confidence	251.334	234.672	1.071
	proliferating cell nuclear antigen (pcna) (cyclin). [swissprot;acc:p12004]	Low confidence	207.84	201.297	1.0325
506	inhibitor of growth family, member 1; inhibitor of growth 1. [refseq;acc:nm_005537]	High confidence	224.535	240.476	1.071
	putative fork head domain transcription factor afx1 (forkhead box protein o4). [swissprot;acc:p98177]	Low confidence	205.157	198.715	1.03242
507	hemoglobin gamma-a and gamma-g chains. [swissprot;acc:p02096]
	wd-repeat protein 12 (ytm1 homolog). [swissprot;acc:q9gzl7]	High confidence	251.299	234.729	1.07059
508	amyloid beta a4 protein precursor (app) (abpp) (alzheimer's disease amyloid protein) (cerebral vascular amyloid peptide) (cvap) (protease nexin-ii) (pn-ii) (appi) (prea4) [contains: soluble app-alpha (s-app- alpha); soluble app-beta (s-app-beta); c99; beta-amyloid protein 42 (beta-app42); beta-amyloid protein 40 (beta-app40); c83; p3(42); p3(40); gamma-ctf(59) (gamma-secretase c-terminal fragment 59) (amyloid intracellular domain 59) (aid(59)); gamma-ctf(57) (gamma- secretase c-terminal fragment 57) (amyloid intracellular domain 57) (aid(57)); gamma-ctf(50) (gamma-secretase c-terminal fragment 50) (amyloid intracellular domain 50) (aid(50)); c31]. [swissprot;acc:p05067]	Low confidence	205.157	198.715	1.03242
	mast cell carboxypeptidase a precursor (ec 3.4.17.1) (mc-cpa) (carboxypeptidase a3). [swissprot;acc:p15088]	High confidence	177.698	190.24	1.07058
509	carboxypeptidase b precursor. [refseq;acc:nm_020361]			190.239	1.07057
	tweety homolog 2. [refseq;acc:nm_032646]	Low confidence	205.157	198.715	1.03242
510	hemoglobin zeta chain (hbaz). [swissprot;acc:p02008]
	plasma carboxypeptidase b2 isoform a preproprotein; carboxypeptidase u; thrombin-activatable fibrinolysis inhibitor; carboxypeptidase b-like protein; thrombin-activable fibrinolysis inhibitor. [refseq;acc:nm_001872]	High confidence	177.699	190.24	1.07057
511	alpha 2 globin. [refseq;acc:nm_000517]	Low confidence	205.157	198.715	1.03242
	proliferating-cell nucleolar antigen p120 (proliferation-associated nucleolar protein p120). [swissprot;acc:p46087]	High confidence	250.053	233.725	1.06986
512	amyloid-like protein 1 precursor (aplp) (aplp-1) [contains: c30]. [swissprot;acc:p51693]	Low confidence	205.157	198.715	1.03242
	block of proliferation 1. [swissprot;acc:q14137]	High confidence	250.794	234.433	1.06979
513	myoglobin. [swissprot;acc:p02144]	Low confidence	205.157	198.715	1.03242
	segment polarity protein dishevelled homolog dvl-1 (dishevelled-1) (dsh homolog 1). [swissprot;acc:o14640]	High confidence	218.596	204.344	1.06975
514	hemoglobin theta-1 chain. [swissprot;acc:p09105]	Low confidence	205.157	198.715	1.03242
	segment polarity protein dishevelled homolog dvl-2 (dishevelled-2) (dsh homolog 2). [swissprot;acc:o14641]	High confidence	218.613	204.382	1.06963
515	pescadillo homolog 1. [swissprot;acc:o00541]		251.297	234.941	1.06962
	tweety homolog 1; tweety homolog. [refseq;acc:nm_020659]	Low confidence	205.156	198.715	1.03241
516	cytoglobin (histoglobin) (hgb) (stellate cell activation-associated protein). [swissprot;acc:q8wwm9]
	u6 snrna-associated sm-like protein lsm8. [swissprot;acc:o95777]	High confidence	228.255	213.422	1.0695
517	forkhead box protein o3a (forkhead in rhabdomyosarcoma-like 1) (af6q21 protein). [swissprot;acc:o43524]	Low confidence	205.156	198.715	1.03241
	metaxin 2. [swissprot;acc:o75431]	High confidence	219.537	234.793	1.06949
518	amyloid-like protein 2 precursor (amyloid protein homolog) (apph) (cdei-box binding protein) (cdebp). [swissprot;acc:q06481]	Low confidence	205.156	198.715	1.03241
	nucleostemin; putative nucleotide binding protein, estradiol-induced. [refseq;acc:nm_014366]	High confidence	250.858	234.563	1.06947
519	sam-domain protein samsn-1 (sam domain, sh3 domain and nuclear localisation signals protein 1). [swissprot;acc:q9nsi8]	Low confidence	204.278	210.893	1.03238
	segment polarity protein dishevelled homolog dvl-3 (dishevelled-3) (dsh homolog 3). [swissprot;acc:q92997]	High confidence	218.702	204.582	1.06902
520	glycogenin-1 (ec 2.4.1.186). [swissprot;acc:p46976]	Low confidence	200.014	193.745	1.03236
	sqv-7-like protein (fragment). [sptrembl;acc:o95454]	High confidence	214.754	229.565	1.06897
521	arg/abl-interacting protein 2 isoform 2; arg binding protein 2. [refseq;acc:nm_021069]	Low confidence	205.451	199.011	1.03236
	exosome complex exonuclease rrp41 (ec 3.1.13.-) (ribosomal rna processing protein 41) (p12a). [swissprot;acc:q9npd3]	High confidence	215.237	230.07	1.06891
522	pleiotropic regulator 1 (prl1homolog, arabidopsis); pleiotropic regulator 1 (prl1, arabidopsis homolog). [refseq;acc:nm_002669]		222.893	208.523
	sam and sh3 domain containing 1. [refseq;acc:nm_015278]	Low confidence	204.276	210.886	1.03236
523	exosome complex exonuclease rrp4 (ec 3.1.13.-) (ribosomal rna processing protein 4). [swissprot;acc:q13868]	High confidence	215.237	230.07	1.06891
	ring finger protein 7; sensitive to apoptosis gene. [refseq;acc:nm_014245]	Low confidence	203.162	196.796	1.03235
524	exosome complex exonuclease rrp40 (ec 3.1.13.-) (ribosomal rna processing protein 40) (p10) (cgi-102). [swissprot;acc:q9nqt5]	High confidence	215.237	230.07	1.06891
	solute carrier family 2, facilitated glucose transporter, member 11 (glucose transporter type 11) (glucose transporter type 10). [swissprot;acc:q9byw1]	Low confidence	205.551	199.117	1.03231
525	exosome complex exonuclease rrp46 (ec 3.1.13.-) (ribosomal rna processing protein 46) (p12b) (chronic myelogenous leukemia tumor antigen 28). [swissprot;acc:q9nqt4]	High confidence	215.237	230.07	1.06891
	solute carrier family 2, facilitated glucose transporter, member 5 (glucose transporter type 5, small intestine) (fructose transporter). [swissprot;acc:p22732]	Low confidence	205.548	199.116	1.0323

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.