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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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 151 to 200 of 6456 in total 
Value Type	Measured
Interaction Map	High confidence
Filtered	1

Rank	description	Network Comparison Type	red	green	network_comparison	
76	homeobox protein hox-c5 (hox-3d) (cp11). [source:swissprot;acc:q00444]	Subtracted	20446.1	24136.4	3690.3	
76	serine/threonine protein phosphatase 2a, 65 kda regulatory subunit a, beta isoform (pp2a, subunit a, pr65-beta isoform) (pp2a, subunit a, r1-beta isoform). [source:swissprot;acc:p30154]	Divided	4599.26	3058.57	1.50373	
77	homeobox protein hox-c6 (hox-3c) (hho.c8) (cp25). [source:swissprot;acc:p09630]	Subtracted	20446.1	24136.4	3690.3	
77	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). [source:swissprot;acc:p30153]	Divided	4612.39	3093.6	1.49095	
78	cyclic-amp-dependent transcription factor atf-3 (activating transcription factor 3). [source:swissprot;acc:p18847]	Divided	4800.81	7132.71	1.48573	
78	homeobox protein hox-d4 (hox-4b) (hox-5.1) (hho.c13). [source:swissprot;acc:p09016]	Subtracted	20446.1	24136.4	3690.3	
79	homeobox protein hox-b5 (hox-2a) (hho.c10) (hu-1). [source:swissprot;acc:p09067]	Subtracted	20446.1	24136.4	3690.3	
79	protein cgi-126 (protein hspc155). [source:swissprot;acc:q9y3c8]	Divided	3074.57	4567.51	1.48558	
80	homeobox protein hox-a5 (hox-1c). [source:swissprot;acc:p20719]	Subtracted	20446.1	24136.4	3690.3	
80	nucleolysin tia-1 (rna-binding protein tia-1) (p40-tia-1) [contains: p15-tia-1]. [source:swissprot;acc:p31483]	Divided	4133.47	5945.32	1.43834	
81	homeobox protein hox-a4 (hox-1d) (hox-1.4). [source:swissprot;acc:q00056]	Subtracted	20446.1	24136.4	3690.3	
81	nucleolysin tiar (tia-1 related protein). [source:swissprot;acc:q01085]	Divided	4136.36	5943.56	1.43691	
82	retinal short-chain dehydrogenase/reductase 3. [source:refseq;acc:nm_016246]	Subtracted	20446.1	24136.4	3690.3	
82	small nuclear ribonucleoprotein sm d1 (snrnp core protein d1) (sm-d1) (sm-d autoantigen). [source:swissprot;acc:p13641]	Divided	4172.91	5954.48	1.42694	
83	protein phosphatase inhibitor 2 (ipp-2). [source:swissprot;acc:p41236]	Subtracted	21644.2	18098.7	3545.5	
83	proto-oncogene protein c-fos (cellular oncogene fos) (g0/g1 switch regulatory protein 7). [source:swissprot;acc:p01100]	Divided	4932.27	7033.29	1.42597	
84	jun dimerization protein. [source:refseq;acc:nm_130469]	Divided	4932.27	7033.29	1.42597	
84	type 1 protein phosphatase inhibitor. [source:refseq;acc:nm_025210]	Subtracted	21632.5	18090	3542.5	
85	fos-related antigen 2. [source:swissprot;acc:p15408]	Divided	4941.95	7037.11	1.42395	
85	ribosome biogenesis regulatory protein homolog. [source:swissprot;acc:q15050]	Subtracted	21370.8	17896.5	3474.3	
86	protein fosb (g0/g1 switch regulatory protein 3). [source:swissprot;acc:p53539]	Divided	4942.49	7037.32	1.42384	
86	serine/threonine protein phosphatase pp1-alpha 1 catalytic subunit (ec 3.1.3.16) (pp-1a). [source:swissprot;acc:p08129]	Subtracted	21370.8	17896.5	3474.3	
87	fos-related antigen 1 (fra-1). [source:swissprot;acc:p15407]	Divided	4944.3	7038.04	1.42347	
87	pre-mrna cleavage complex ii protein pcf11 (fragment). [source:swissprot;acc:o94913]	Subtracted	20287.2	17083.8	3203.4	
88	potassium voltage-gated channel, shal-related subfamily, member 2; voltage-sensitive potassium channel; voltage-gated potassium channel kv4.2. [source:refseq;acc:nm_012281]	Divided	2411.93	1695.45	1.42259	
88	transforming protein p21a (k-ras 2a) (ki-ras) (c-k-ras). [source:swissprot;acc:p01116]	Subtracted	16074	12888.4	3185.6	
89	cystathionine gamma-lyase (ec 4.4.1.1) (gamma-cystathionase). [source:swissprot;acc:p32929]	Divided	2414.22	1698.12	1.4217	
89	leucine-rich repeat protein shoc-2 (ras-binding protein sur-8). [source:swissprot;acc:q9uq13]	Subtracted	16071.6	12886.8	3184.8	
90	potassium voltage-gated channel, shal-related subfamily, member 3 isoform 1; sha1-related potassium channel kv4.3; voltage-gated k+ channel; potassium ionic channel kv4.3; voltage-gated potassium channel kv4.3. [source:refseq;acc:nm_004980]	Divided	2414.77	1698.75	1.4215	
90	ral guanine nucleotide dissociation stimulator-like 2 (ralgds-like factor) (ras-associated protein rab2l). [source:swissprot;acc:o15211]	Subtracted	16071.6	12886.8	3184.8	
91	potassium voltage-gated channel, shal-related subfamily, member 1; shal-type potassium channel; voltage-gated potassium channel kv4.1. [source:refseq;acc:nm_004979]	Divided	2416.53	1700.8	1.42082	
91	transforming protein p21/h-ras-1 (c-h-ras). [source:swissprot;acc:p01112]	Subtracted	16070.4	12886	3184.4	
92	dj820b18.1 (similar to nuclear cap binding protein) (fragment). [source:sptrembl;acc:q8wwk2]	Divided	4117.67	5801.04	1.40882	
92	transforming protein n-ras. [source:swissprot;acc:p01111]	Subtracted	16069.8	12885.6	3184.2	
93	formin binding protein 3; fas-ligand associated factor 1; huntingtin-interacting protein a; ny-ren-6 antigen. [source:refseq;acc:nm_017892]	Divided	4245.52	5942.75	1.39977	
93	sedlin. [source:swissprot;acc:o14582]	Subtracted	17396.9	20483.9	3087	
94	huntingtin-interacting protein hypa/fbp11 (fragment). [source:sptrembl;acc:o75404]	Divided	4247.86	5941.88	1.39879	
94	synbindin (trs23 homolog) (hematopoietic stem/progenitor cell protein 172) (hspc172) (ptd009) (cgi-104). [source:swissprot;acc:q9y296]	Subtracted	17396.9	20483.9	3087	
95	bet3 homolog. [source:swissprot;acc:o43617]	Subtracted	17396.9	20483.9	3087	
95	son protein (son3) (negative regulatory element-binding protein) (nre- binding protein) (dbp-5) (bax antagonist selected in saccharomyces 1) (bass1) (protein c21orf50). [source:swissprot;acc:p18583]	Divided	2397.19	3343.62	1.39481	
96	lag1 longevity assurance homolog 2 isoform 1; l3 pigment; tumor metastasis-suppressor. [source:refseq;acc:nm_022075]	Divided	4110.14	5694.99	1.3856	
96	septin-like protein kiaa0202 (fragment). [source:swissprot;acc:q92599]	Subtracted	16177.9	19235.4	3057.5	
97	amyloid beta a4 precursor protein-binding family a member 1 (neuron- specific x11 protein) (neuronal munc18-1-interacting protein 1) (mint-1) (adapter protein x11alpha). [source:swissprot;acc:q02410]	Divided	2820.51	3897.1	1.3817	
97	septin 10 isoform 1. [source:refseq;acc:nm_144710]	Subtracted	16067.4	19094.4	3027	
98	brain protein 44. [source:swissprot;acc:o95563]	Subtracted	15999.1	19007.1	3008	
98	presenilin 2 (ps-2) (stm-2) (e5-1) (ad3lp) (ad5). [source:swissprot;acc:p49810]	Divided	2353.63	3225.65	1.3705	
99	s-phase kinase-associated protein 1a (cyclin a/cdk2-associated protein p19) (p19a) (p19skp1) (rna polymerase ii elongation factor-like protein) (organ of corti protein 2) (ocp-ii protein) (ocp-2) (transcription elongation factor b) (siii). [source:swissprot;acc:p34991]	Divided	2353.63	3225.65	1.3705	
99	septin 7 (cdc10 protein homolog). [source:swissprot;acc:q16181]	Subtracted	15999.1	19007.1	3008	
100	f-box protein fbw7 isoform 2; archipelago, drosophila, homolog of; f-box protein fbw7; f-box protein sel-10; homolog of c elegans sel-10. [source:refseq;acc:nm_018315]	Divided	2353.63	3225.65	1.3705	
100	septin 6. [source:swissprot;acc:q14141]	Subtracted	15959.9	18957.1	2997.2	

Legend:
- Rank is the rank after comparing the two networks
- 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/