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.

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

Results: HTML CSV LaTeX

Showing element 301 to 350 of 9634 in total

Value Type

: Measured
Network Comparison Type

: Divided

Rank	description	Filtered	Interaction Map	green	red	network_comparison
76	cab2. [refseq;acc:nm_033419]	0	Low confidence	128.776	72.5877	1.77407
	dead-box protein. [refseq;acc:nm_018665]	0	High confidence	183	313.667	1.71403
	protein phosphatase 1, regulatory (inhibitor) subunit 14a; 17-kda pkc-potentiated inhibitory protein of pp1. [refseq;acc:nm_033256]	1	Low confidence	5933.4	5334.13	1.11235
	serine/threonine protein phosphatase 2a, 65 kda regulatory subunit a, beta isoform (pp2a, subunit a, pr65-beta isoform) (pp2a, subunit a, r1-beta isoform). [swissprot;acc:p30154]	1	High confidence	3058.57	4599.26	1.50373
77	dj570f3.6 (novel protein similar to lysophospholipase ii (lypla2)). [sptrembl;acc:q9uge0]	0	Low confidence	2804	1593	1.7602
	inosine-5'-monophosphate dehydrogenase 2 (ec 1.1.1.205) (imp dehydrogenase 2) (impdh-ii) (impd 2). [swissprot;acc:p12268]	0	High confidence	416.524	712.071	1.70956
	microfibril-associated glycoprotein 4 precursor. [swissprot;acc:p55083]	1	Low confidence	5933.4	5334.13	1.11235
	serine/threonine protein phosphatase 2a, 65 kda regulatory subunit a, alpha isoform (pp2a, subunit a, pr65-alpha isoform) (pp2a, subunit a, r1-alpha isoform) (medium tumor antigen-associated 61 kda protein). [swissprot;acc:p30153]		High confidence	3093.6	4612.39	1.49095
78	cyclic-amp-dependent transcription factor atf-3 (activating transcription factor 3). [swissprot;acc:p18847]			7132.71	4800.81	1.48573
	low affinity immunoglobulin epsilon fc receptor (lymphocyte ige receptor) (fc-epsilon-rii) (cd23) (blast-2) (immunoglobulin e-binding factor). [swissprot;acc:p06734]	0		95	161	1.69474
	protein phosphatase 1, regulatory subunit 14d; pkc-dependent pp1 inhibitory protein. [refseq;acc:nm_017726]	1	Low confidence	5933.4	5334.13	1.11235
	protein tyrosine phosphatase type iva, member 2 isoform 1; protein tyrosine phosphatase iva2; protein tyrosine phosphatase iva; phosphatase of regenerating liver 2. [refseq;acc:nm_003479]	0		112.5	189	1.68
79	ficolin 2 precursor (collagen/fibrinogen domain-containing protein 2) (ficolin-b) (ficolin b) (serum lectin p35) (ebp-37) (hucolin) (l- ficolin). [swissprot;acc:q15485]	1		5933.4	5334.13	1.11235
	glutathione s-transferase theta 2 (ec 2.5.1.18) (gst class-theta). [swissprot;acc:p30712]	0		572.008	341.484	1.67507
	polyposis locus protein 1-like 1; likely ortholog of mouse polyposis locus protein 1-like 1. [refseq;acc:nm_138393]	0	High confidence	544.991	323.79	1.68316
	protein cgi-126 (protein hspc155). [swissprot;acc:q9y3c8]	1		4567.51	3074.57	1.48558
80	nucleolysin tia-1 (rna-binding protein tia-1) (p40-tia-1) [contains: p15-tia-1]. [swissprot;acc:p31483]	1		5945.32	4133.47	1.43834
	prefoldin subunit 3 (von hippel-lindau binding protein 1) (vhl binding protein-1) (vbp-1) (hibbj46). [swissprot;acc:q15765]	0		493	293	1.68259
	protein phosphatase 1, regulatory (inhibitor) subunit 14c; serologically defined breast cancer antigen ny-br-81; pkc-potentiated pp1 inhibitory protein. [refseq;acc:nm_030949]	1	Low confidence	5933.4	5334.13	1.11235
	transcription initiation factor iie, beta subunit (tfiie-beta). [swissprot;acc:p29084]	0	Low confidence	50	30	1.66667
81	nucleolysin tiar (tia-1 related protein). [swissprot;acc:q01085]	1	High confidence	5943.56	4136.36	1.43691
	regulator of g-protein signaling 12 (rgs12). [swissprot;acc:o14924]	1	Low confidence	6146.97	5528.68	1.11183
	tolloid-like 1. [refseq;acc:nm_012464]	0	Low confidence	688.237	413.072	1.66614
	transcription initiation factor iie, beta subunit (tfiie-beta). [swissprot;acc:p29084]		High confidence	50	30	1.66667
82	importin 7; ran-binding protein 7. [refseq;acc:nm_006391]		High confidence	115.333	191.333	1.65896
	lag1 longevity assurance homolog 2 isoform 1; l3 pigment; tumor metastasis-suppressor. [refseq;acc:nm_022075]	1	Low confidence	7884.98	7098.44	1.1108
	small nuclear ribonucleoprotein sm d1 (snrnp core protein d1) (sm-d1) (sm-d autoantigen). [swissprot;acc:p13641]	1	High confidence	5954.48	4172.91	1.42694
	transcription factor 4 (immunoglobulin transcription factor 2) (itf-2) (sl3-3 enhancer factor 2) (sef-2). [swissprot;acc:p15884]	0	Low confidence	499.295	300.638	1.66078
83	abl-philin 2. [refseq;acc:nm_032327]		Low confidence	29	48	1.65517
	elongation factor 1-alpha 1 (ef-1-alpha-1) (elongation factor 1 a-1) (eef1a-1) (elongation factor tu) (ef-tu). [swissprot;acc:p04720]		High confidence	100.887	166.114	1.64654
	proto-oncogene protein c-fos (cellular oncogene fos) (g0/g1 switch regulatory protein 7). [swissprot;acc:p01100]	1	High confidence	7033.29	4932.27	1.42597
	segment polarity protein dishevelled homolog dvl-1 (dishevelled-1) (dsh homolog 1). [swissprot;acc:o14640]		Low confidence	7794.8	7030.67	1.10869
84	jun dimerization protein. [refseq;acc:nm_130469]		High confidence	7033.29	4932.27	1.42597
	peptide chain release factor 1, mitochondrial precursor (mrf-1). [swissprot;acc:o75570]	0	High confidence	1601.52	973.698	1.64478
	sedlin. [swissprot;acc:o14582]	0	Low confidence	299.876	181.896	1.64861
	septin 4 (peanut-like protein 2) (brain protein h5) (cell division control-related protein 2) (hcdcrel-2) (bradeion beta) (ce5b3 beta) (cerebral protein-7) (hucep-7). [swissprot;acc:o43236]	1	Low confidence	12351.1	11141.5	1.10857
85	fos-related antigen 2. [swissprot;acc:p15408]	1	High confidence	7037.11	4941.95	1.42395
	peptide chain release factor 1, mitochondrial precursor (mrf-1). [swissprot;acc:o75570]	0	Low confidence	1361.92	840.74	1.61991
	rab gdp dissociation inhibitor alpha (rab gdi alpha) (gdi-1) (xap-4) (oligophrenin 2). [swissprot;acc:p31150]	0	High confidence	1106.88	679.449	1.62908
	segment polarity protein dishevelled homolog dvl-2 (dishevelled-2) (dsh homolog 2). [swissprot;acc:o14641]	1	Low confidence	7797.14	7034.43	1.10843
86	alpha crystallin a chain. [swissprot;acc:p02489]	0	High confidence	89.2447	55.3059	1.61366
	alpha-parvin (calponin-like integrin-linked kinase binding protein) (ch-ilkbp). [swissprot;acc:q9nvd7]	0	Low confidence	201.455	325.337	1.61494
	protein fosb (g0/g1 switch regulatory protein 3). [swissprot;acc:p53539]	1	High confidence	7037.32	4942.49	1.42384
	vacuolar protein sorting 16 (hvps16). [swissprot;acc:q9h269]	1	Low confidence	8046.29	7263.76	1.10773
87	acyl-coa dehydrogenase, short/branched chain specific, mitochondrial precursor (ec 1.3.99.-) (sbcad) (2-methyl branched chain acyl-coa dehydrogenase) (2-mebcad) (2-methylbutyryl-coenzyme a dehydrogenase) (2-methylbutyryl-coa dehydrogenase). [swissprot;acc:p45954]	0	Low confidence	81.6539	129.715	1.5886
	fos-related antigen 1 (fra-1). [swissprot;acc:p15407]	1	High confidence	7038.04	4944.3	1.42347
	ribulose-5-phosphate-3-epimerase; ribulose 5-phosphate 3-epimerase. [refseq;acc:nm_006916]	0	High confidence	483.809	304.664	1.58801
	segment polarity protein dishevelled homolog dvl-3 (dishevelled-3) (dsh homolog 3). [swissprot;acc:q92997]	1	Low confidence	7809.38	7054.1	1.10707
88	metabotropic glutamate receptor 3 precursor (mglur3). [swissprot;acc:q14832]	0	Low confidence	54.6667	34.6667	1.57692
88	potassium voltage-gated channel, shal-related subfamily, member 2; voltage-sensitive potassium channel; voltage-gated potassium channel kv4.2. [refseq;acc:nm_012281]	1	High confidence	1695.45	2411.93	1.42259

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/