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

Results: HTML CSV LaTeX

Showing element 551 to 600 of 3228 in total

Value Type  : Ranked
Network Comparison Type  : Divided
Interaction Map  : High confidence
Filtered  : 1

Rank	Hugo	description	network_comparison	red	green
551	GRAP2	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]	1.06645	207.261	194.347
552	CRKL	crk-like protein. [swissprot;acc:p46109]		207.26	194.346
553	ABL1	proto-oncogene tyrosine-protein kinase abl1 (ec 2.7.1.112) (p150) (c-abl). [swissprot;acc:p00519]
554	FYN	proto-oncogene tyrosine-protein kinase fyn (ec 2.7.1.112) (p59-fyn) (syn) (slk). [swissprot;acc:p06241]
555	FGR	proto-oncogene tyrosine-protein kinase fgr (ec 2.7.1.112) (p55-fgr) (c-fgr). [swissprot;acc:p09769]
556	CUTL1	ccaat displacement protein (cdp) (cut-like 1). [swissprot;acc:p39880]	1.06638	207.27	194.368
557	CUTL2	homeobox protein cux-2 (cut-like 2) (fragment). [swissprot;acc:o14529]	1.06637	207.272	194.371
558	no value	ubiquitin activating enzyme e1-like protein. [refseq;acc:nm_006395]	1.06628	135.087	144.041
559	WASL	neural wiskott-aldrich syndrome protein (n-wasp). [swissprot;acc:o00401]	1.06612	207.309	194.452
560	SOS1	son of sevenless protein homolog 1 (sos-1). [swissprot;acc:q07889]	1.06589	205.74	193.021
561	SOS2	son of sevenless protein homolog 2 (sos-2). [swissprot;acc:q07890]	1.06578	205.89	193.183
562	GULP1	ptb domain adaptor protein ced-6; engulfment adapter protein. [refseq;acc:nm_016315]	1.06577	220.744	207.121
563	CAPS	calcyphosine. [swissprot;acc:q13938]
564	CRNKL1	crooked neck-like protein 1 (crooked neck homolog) (hcrn) (cgi-201) (mstp021). [swissprot;acc:q9bzj0]
565	ZNF547	sedlin. [swissprot;acc:o14582]	1.06563	129.219	121.261
566	no value	synbindin (trs23 homolog) (hematopoietic stem/progenitor cell protein 172) (hspc172) (ptd009) (cgi-104). [swissprot;acc:q9y296]
567	TRAPPC3	bet3 homolog. [swissprot;acc:o43617]
568	no value	putative pre-mrna splicing factor rna helicase (atp-dependent rna helicase #3) (deah-box protein 16). [swissprot;acc:o60231]	1.06554	226.3	212.38
569	GPKOW	t54 protein. [swissprot;acc:q92917]
570	SFRS11	splicing factor arginine/serine-rich 11 (arginine-rich 54 kda nuclear protein) (p54). [swissprot;acc:q05519]	1.06529	229.709	215.631
571	MDH2	malate dehydrogenase, mitochondrial precursor (ec 1.1.1.37). [swissprot;acc:p40926]	1.06528	238.529	254.099
572	no value	cbf1 interacting corepressor. [refseq;acc:nm_004882]	1.06504	227.86	213.945
573	GPATCH1	evolutionarily conserved g-patch domain containing. [refseq;acc:nm_018025]
574	MOBKL3	preimplantation protein 3; likely ortholog of preimplantation protein 3. [refseq;acc:nm_015387]	1.06503	221.807	208.264
575	DNAJB11	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]
576	no value	dj408b20.3 (novel protein similar to 60s acidic ribosomal protein p2 (rplp2)). [sptrembl;acc:q9h5a9]	1.0648	235.18	250.419
577	PRSS7	enteropeptidase precursor (ec 3.4.21.9) (enterokinase). [swissprot;acc:p98073]	1.06477	224.606	210.944
578	SF3B2	splicing factor 3b subunit 2 (spliceosome associated protein 145) (sap 145) (sf3b150) (pre-mrna splicing factor sf3b 145 kda subunit). [swissprot;acc:q13435]
579	ZNF593	zinc finger protein t86. [swissprot;acc:o00488]	1.06475	246.805	231.796
580	ZNRD1	zinc ribbon domain containing, 1; transcription-associated zinc ribbon protein; rna polymerase i small specific subunit rpa12. [refseq;acc:nm_014596]	1.06457	236.751	252.038
581	TLX3	t-cell leukemia homeobox protein 3 (homeobox protein hox-11l2). [swissprot;acc:o43711]	1.06411	237.28	252.492
582	BARX1	homeobox protein barh-like 1. [swissprot;acc:q9hbu1]
583	OPN4	opsin 4 (melanopsin). [swissprot;acc:q9uhm6]
584	TLX2	t-cell leukemia homeobox protein 2 (homeobox protein hox-11l1) (neural crest homeobox protein). [swissprot;acc:o43763]
585	TLX1	t-cell leukemia homeobox protein 1 (homeobox protein hox-11) (tcl-3 proto-oncogene). [swissprot;acc:p31314]
586	HECTD1	hect domain containing protein 1 (fragment). [swissprot;acc:q9ult8]
587	BARX2	homeobox protein barh-like 2. [swissprot;acc:q9umq3]
588	SBDS	shwachman-bodian-diamond syndrome protein (cgi-97). [swissprot;acc:q9y3a5]	1.06375	216.557	230.362
589	no value	u6 snrna-associated sm-like protein lsm2 (small nuclear ribonuclear protein d homolog) (g7b) (snrnp core sm-like protein sm-x5). [swissprot;acc:q9y333]	1.06371	228.215	214.546
590	RRM1	ribonucleoside-diphosphate reductase m1 chain (ec 1.17.4.1) (ribonucleotide reductase large chain). [swissprot;acc:p23921]	1.06333	217.215	204.279
591	RPP30	ribonuclease p protein subunit p30 (ec 3.1.26.5) (rnasep protein p30) (rnase p subunit 2). [swissprot;acc:p78346]	1.0633	216.72	230.439
592	PPP1R7	protein phosphatase 1, regulatory subunit 7; sds22. [refseq;acc:nm_002712]	1.06298	91.63	97.4011
593	DR1	tata-binding protein-associated phosphoprotein (down-regulator of transcription 1) (dr1 protein). [swissprot;acc:q01658]	1.06278	232.118	218.406
594	CDC40	pre-mrna splicing factor prp17 (hprp17) (eh-binding protein 3) (ehb3). [swissprot;acc:o60508]	1.06256	223.282	210.136
595	VAV1	vav proto-oncogene. [swissprot;acc:p15498]	1.0618	212.2	199.849
596	VAV3	vav-3 protein. [swissprot;acc:q9ukw4]	1.06175	212.253	199.908
597	VAV2	vav-2 protein. [swissprot;acc:p52735]	1.0615	212.526	200.212
598	AKT1	rac-alpha serine/threonine kinase (ec 2.7.1.-) (rac-pk-alpha) (protein kinase b) (pkb) (c-akt). [swissprot;acc:p31749]	1.06138	248.463	234.095
599	AKT3	rac-gamma serine/threonine protein kinase (ec 2.7.1.-) (rac-pk-gamma) (protein kinase akt-3) (protein kinase b, gamma) (pkb gamma) (stk-2). [swissprot;acc:q9y243]
600	AKT2	rac-beta serine/threonine protein kinase (ec 2.7.1.-) (rac-pk-beta) (protein kinase akt-2) (protein kinase b, beta) (pkb beta). [swissprot;acc:p31751]

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.