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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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 294 to 343 of 3228 in total 
Value Type	Measured
Network Comparison Type	Divided
Interaction Map	High confidence
Filtered	1

Rank	description	red	green	network_comparison	
294	cleavage stimulation factor subunit 3; cleavage stimulation factor, 3' pre-rna, subunit 3, 77kd. [source:refseq;acc:nm_001326]	22515.5	18702.6	1.20387	
295	ral guanine nucleotide dissociation stimulator-like 1 (ralgds-like 1). [source:swissprot;acc:q9nzl6]	13261.9	11017.8	1.20368	
296	splicing factor 3a subunit 2 (spliceosome associated protein 62) (sap 62) (sf3a66). [source:swissprot;acc:q15428]	4911.81	5909.18	1.20306	
297	krueppel-like factor 5 (intestinal-enriched krueppel-like factor) (colon krueppel-like factor) (transcription factor bteb2) (basic transcription element binding protein 2) (bte-binding protein 2) (gc box binding protein 2). [source:swissprot;acc:q13887]	4911.81	5909.18	1.20306	
298	u6 snrna-associated sm-like protein lsm2 (small nuclear ribonuclear protein d homolog) (g7b) (snrnp core sm-like protein sm-x5). [source:swissprot;acc:q9y333]	4633.92	5572.85	1.20262	
299	ba395l14.12 (novel protein similar to small nuclear ribonucleoprotein polypeptide a' (snrpa1)). [source:sptrembl;acc:q9nu36]	4914.27	5907.12	1.20203	
300	u2 small nuclear ribonucleoprotein a' (u2 snrnp-a'). [source:swissprot;acc:p09661]	4914.27	5907.12	1.20203	
301	cyclin-dependent kinases regulatory subunit 1 (cks-1) (sid1334) (pnas-16 / pnas-143). [source:swissprot;acc:p33551]	13768.2	11466	1.20078	
302	pallidin; pallid (mouse) homolog, pallidin. [source:refseq;acc:nm_012388]	5894.75	7073.65	1.19999	
303	serine/threonine protein phosphatase pp1-gamma catalytic subunit (ec 3.1.3.16) (pp-1g). [source:swissprot;acc:p36873]	22268.8	18560.4	1.1998	
304	pre-mrna processing factor 31 homolog; pre-mrna processing factor 31 homolog (yeast). [source:refseq;acc:nm_015629]	4855.46	5824.52	1.19958	
305	odd-skipped related 1; odz (odd oz/ten-m) related 1. [source:refseq;acc:nm_145260]	3856.29	4624.15	1.19912	
306	pnas-18. [source:sptrembl;acc:q9bzu3]	13680.5	11409.6	1.19903	
307	t-complex protein 1, gamma subunit (tcp-1-gamma) (cct-gamma). [source:swissprot;acc:p49368]	12365.2	14824.9	1.19892	
308	segment polarity protein dishevelled homolog dvl-1 (dishevelled-1) (dsh homolog 1). [source:swissprot;acc:o14640]	4977.09	5966.44	1.19878	
309	segment polarity protein dishevelled homolog dvl-2 (dishevelled-2) (dsh homolog 2). [source:swissprot;acc:o14641]	4977.8	5966.14	1.19855	
310	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. [source:refseq;acc:nm_005146]	4909.79	5878.79	1.19736	
311	segment polarity protein dishevelled homolog dvl-3 (dishevelled-3) (dsh homolog 3). [source:swissprot;acc:q92997]	4981.52	5964.58	1.19734	
312	u6 snrna-associated sm-like protein lsm7. [source:swissprot;acc:q9uk45]	4598.21	5500.48	1.19622	
313	protein phosphatase inhibitor 2 (ipp-2). [source:swissprot;acc:p41236]	21644.2	18098.7	1.1959	
314	type 1 protein phosphatase inhibitor. [source:refseq;acc:nm_025210]	21632.5	18090	1.19583	
315	ribosome biogenesis regulatory protein homolog. [source:swissprot;acc:q15050]	21370.8	17896.5	1.19413	
316	serine/threonine protein phosphatase pp1-alpha 1 catalytic subunit (ec 3.1.3.16) (pp-1a). [source:swissprot;acc:p08129]	21370.8	17896.5	1.19413	
317	adiponectin receptor 2. [source:refseq;acc:nm_024551]	3153.1	3762.56	1.19329	
318	nuclear dna-binding protein; small unique nuclear receptor corepressor; c1d dna-binding protein. [source:refseq;acc:nm_006333]	34190.9	40795.8	1.19318	
319	ras-related gtp binding a; ras-related gtp-binding protein. [source:refseq;acc:nm_006570]	20911	24908.5	1.19117	
320	ras-related gtp binding c; rag c protein. [source:refseq;acc:nm_022157]	20911	24908.5	1.19117	
321	ras-related gtp binding b short isoform; gtp-binding protein ragb. [source:refseq;acc:nm_006064]	20911	24908.5	1.19117	
322	anillin, actin binding protein (scraps homolog, drosophila); anillin (drosophila scraps homolog), actin binding protein. [source:refseq;acc:nm_018685]	20911	24908.5	1.19117	
323	u6 snrna-associated sm-like protein lsm4 (glycine-rich protein) (grp). [source:swissprot;acc:q9y4z0]	4620.76	5501.94	1.1907	
324	deoxyribonuclease ii beta isoform 1 precursor; deoxyribonuclease ii beta; endonuclease dlad. [source:refseq;acc:nm_021233]	28136.5	33457.6	1.18912	
325	septin-like protein kiaa0202 (fragment). [source:swissprot;acc:q92599]	16177.9	19235.4	1.18899	
326	atp-dependent rna helicase ddx24 (dead-box protein 24). [source:swissprot;acc:q9gzr7]	3432.96	4081.21	1.18883	
327	septin 10 isoform 1. [source:refseq;acc:nm_144710]	16067.4	19094.4	1.18839	
328	brain protein 44. [source:swissprot;acc:o95563]	15999.1	19007.1	1.18801	
329	septin 7 (cdc10 protein homolog). [source:swissprot;acc:q16181]	15999.1	19007.1	1.18801	
330	septin 6. [source:swissprot;acc:q14141]	15959.9	18957.1	1.1878	
331	pre-mrna cleavage complex ii protein pcf11 (fragment). [source:swissprot;acc:o94913]	20287.2	17083.8	1.18751	
332	pleiotropic regulator 1 (prl1homolog, arabidopsis); pleiotropic regulator 1 (prl1, arabidopsis homolog). [source:refseq;acc:nm_002669]	5051.16	5975.51	1.183	
333	nuclear matrix protein nmp200 related to splicing factor prp19. [source:refseq;acc:nm_014502]	5039.63	5961.83	1.18299	
334	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). [source:swissprot;acc:o43236]	14924.4	17655.2	1.18298	
335	probable atp-dependent 61 kda nucleolar rna helicase (dead-box protein 21). [source:swissprot;acc:q9ny93]	3494.31	4129.6	1.18181	
336	dna polymerase epsilon p12 subunit (dna polymerase epsilon subunit 4). [source:swissprot;acc:q9nr33]	3751.3	4431.34	1.18128	
337	homeobox protein hox-c4 (hox-3e) (cp19). [source:swissprot;acc:p09017]	20446.1	24136.4	1.18049	
338	homeobox protein hox-b4 (hox-2f) (hox-2.6). [source:swissprot;acc:p17483]	20446.1	24136.4	1.18049	
339	homeobox protein hox-c5 (hox-3d) (cp11). [source:swissprot;acc:q00444]	20446.1	24136.4	1.18049	
340	homeobox protein hox-c6 (hox-3c) (hho.c8) (cp25). [source:swissprot;acc:p09630]	20446.1	24136.4	1.18049	
341	homeobox protein hox-d4 (hox-4b) (hox-5.1) (hho.c13). [source:swissprot;acc:p09016]	20446.1	24136.4	1.18049	
342	homeobox protein hox-b5 (hox-2a) (hho.c10) (hu-1). [source:swissprot;acc:p09067]	20446.1	24136.4	1.18049	
343	homeobox protein hox-a5 (hox-1c). [source:swissprot;acc:p20719]	20446.1	24136.4	1.18049	

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/