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 Interaction Map Filtered red green network_comparison
Results: HTML CSV LaTeX Showing element 663 to 712 of 6456 in total 
Value Type	Measured
Interaction Map	High confidence
Filtered	1

Rank	description	Network Comparison Type	red	green	network_comparison	
332	pleiotropic regulator 1 (prl1homolog, arabidopsis); pleiotropic regulator 1 (prl1, arabidopsis homolog). [source:refseq;acc:nm_002669]	Divided	5051.16	5975.51	1.183	
332	vav-2 protein. [source:swissprot;acc:p52735]	Subtracted	6660.02	7697.78	1037.76	
333	deltex 2. [source:refseq;acc:nm_020892]	Subtracted	1618.84	2651.88	1033.04	
333	nuclear matrix protein nmp200 related to splicing factor prp19. [source:refseq;acc:nm_014502]	Divided	5039.63	5961.83	1.18299	
334	deltex homolog 1; hdx-1. [source:refseq;acc:nm_004416]	Subtracted	1629.21	2662.12	1032.91	
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]	Divided	14924.4	17655.2	1.18298	
335	probable atp-dependent 61 kda nucleolar rna helicase (dead-box protein 21). [source:swissprot;acc:q9ny93]	Divided	3494.31	4129.6	1.18181	
335	t-lak cell-originated protein kinase; spermatogenesis-related protein kinase; pdz-binding kinase; pbk; mapkk-like protein kinase; serine/threonine protein kinase. [source:refseq;acc:nm_018492]	Subtracted	1631.67	2664.55	1032.88	
336	dna polymerase epsilon p12 subunit (dna polymerase epsilon subunit 4). [source:swissprot;acc:q9nr33]	Divided	3751.3	4431.34	1.18128	
336	kh domain containing, rna binding, signal transduction associated 3; sam68-like phosphotyrosine protein, t-star. [source:refseq;acc:nm_006558]	Subtracted	1631.67	2664.55	1032.88	
337	homeobox protein hox-c4 (hox-3e) (cp19). [source:swissprot;acc:p09017]	Divided	20446.1	24136.4	1.18049	
337	kh domain containing, rna binding, signal transduction associated 1; gap-associated tyrosine phosphoprotein p62 (sam68). [source:refseq;acc:nm_006559]	Subtracted	1631.67	2664.55	1032.88	
338	homeobox protein hox-b4 (hox-2f) (hox-2.6). [source:swissprot;acc:p17483]	Divided	20446.1	24136.4	1.18049	
338	kh domain-containing, rna-binding, signal transduction-associated protein 2; sam68-like mammalian protein 1. [source:refseq;acc:nm_152688]	Subtracted	1631.67	2664.55	1032.88	
339	homeobox protein hox-c5 (hox-3d) (cp11). [source:swissprot;acc:q00444]	Divided	20446.1	24136.4	1.18049	
339	neuralized-like. [source:refseq;acc:nm_004210]	Subtracted	1657.68	2690.25	1032.57	
340	homeobox protein hox-c6 (hox-3c) (hho.c8) (cp25). [source:swissprot;acc:p09630]	Divided	20446.1	24136.4	1.18049	
340	signal transducing adaptor molecule 2; stam-like protein containing sh3 and itam domains 2. [source:refseq;acc:nm_005843]	Subtracted	11743.3	10712.3	1031	
341	homeobox protein hox-d4 (hox-4b) (hox-5.1) (hho.c13). [source:swissprot;acc:p09016]	Divided	20446.1	24136.4	1.18049	
341	serine/threonine protein phosphatase 2a, catalytic subunit, alpha isoform (ec 3.1.3.16) (pp2a-alpha) (replication protein c) (rp-c). [source:swissprot;acc:p05323]	Subtracted	4916.8	3888.18	1028.62	
342	homeobox protein hox-b5 (hox-2a) (hho.c10) (hu-1). [source:swissprot;acc:p09067]	Divided	20446.1	24136.4	1.18049	
342	steroid hormone receptor err1 (estrogen-related receptor, alpha) (err-alpha) (estrogen receptor-like 1). [source:swissprot;acc:p11474]	Subtracted	10230.1	11256.2	1026.1	
343	homeobox protein hox-a5 (hox-1c). [source:swissprot;acc:p20719]	Divided	20446.1	24136.4	1.18049	
343	tuftelin-interacting protein 11 (hspc006). [source:swissprot;acc:q9ubb9]	Subtracted	4991.48	6014.08	1022.6	
344	ca2+-dependent endoplasmic reticulum nucleoside diphosphatase; apyrase; soluble calcium-activated nucleotidase scan-1. [source:refseq;acc:nm_138793]	Subtracted	9921.43	10941.2	1019.77	
344	homeobox protein hox-a4 (hox-1d) (hox-1.4). [source:swissprot;acc:q00056]	Divided	20446.1	24136.4	1.18049	
345	retinal short-chain dehydrogenase/reductase 3. [source:refseq;acc:nm_016246]	Divided	20446.1	24136.4	1.18049	
345	voltage-dependent calcium channel gamma-8 subunit (neuronal voltage- gated calcium channel gamma-8 subunit). [source:swissprot;acc:q8wxs5]	Subtracted	4068.78	5082.18	1013.4	
346	septin 1 (larp) (serologically defined breast cancer antigen ny-br- 24). [source:swissprot;acc:q8wyj6]	Divided	14229.2	16780.7	1.17931	
346	voltage-dependent calcium channel gamma-3 subunit (neuronal voltage- gated calcium channel gamma-3 subunit). [source:swissprot;acc:o60359]	Subtracted	4068.78	5082.18	1013.4	
347	enteropeptidase precursor (ec 3.4.21.9) (enterokinase). [source:swissprot;acc:p98073]	Divided	4991.02	5885.09	1.17914	
347	voltage-dependent calcium channel gamma-2 subunit (neuronal voltage- gated calcium channel gamma-2 subunit). [source:swissprot;acc:q9y698]	Subtracted	4068.82	5082.21	1013.39	
348	splicing factor 3b subunit 2 (spliceosome associated protein 145) (sap 145) (sf3b150) (pre-mrna splicing factor sf3b 145 kda subunit). [source:swissprot;acc:q13435]	Divided	4991.02	5885.09	1.17914	
348	voltage-dependent calcium channel gamma-4 subunit (neuronal voltage- gated calcium channel gamma-4 subunit). [source:swissprot;acc:q9ubn1]	Subtracted	4068.91	5082.27	1013.36	
349	putative pre-mrna splicing factor rna helicase (deah box protein 15) (atp-dependent rna helicase #46). [source:swissprot;acc:o43143]	Divided	4714.85	5554.38	1.17806	
349	sad1/unc-84 protein-like 1. [source:swissprot;acc:o94901]	Subtracted	3349.9	4362.61	1012.71	
350	sedlin. [source:swissprot;acc:o14582]	Divided	17396.9	20483.9	1.17745	
350	voltage-dependent calcium channel gamma-5 subunit (neuronal voltage- gated calcium channel gamma-5 subunit). [source:swissprot;acc:q9uf02]	Subtracted	4074.83	5086.49	1011.66	
351	nucleoside diphosphate kinase 3 (ec 2.7.4.6) (ndk 3) (ndp kinase 3) (nm23-h3) (dr-nm23). [source:swissprot;acc:q13232]	Subtracted	7878.27	8879.08	1000.81	
351	synbindin (trs23 homolog) (hematopoietic stem/progenitor cell protein 172) (hspc172) (ptd009) (cgi-104). [source:swissprot;acc:q9y296]	Divided	17396.9	20483.9	1.17745	
352	bet3 homolog. [source:swissprot;acc:o43617]	Divided	17396.9	20483.9	1.17745	
352	splicing factor 3a subunit 2 (spliceosome associated protein 62) (sap 62) (sf3a66). [source:swissprot;acc:q15428]	Subtracted	4911.81	5909.18	997.37	
353	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]	Subtracted	4911.81	5909.18	997.37	
353	p66 alpha. [source:refseq;acc:nm_017660]	Divided	12839	10911.1	1.17669	
354	ribonucleoside-diphosphate reductase m1 chain (ec 1.17.4.1) (ribonucleotide reductase large chain). [source:swissprot;acc:p23921]	Subtracted	6913.6	7907.05	993.45	
354	transcription repressor p66 beta component of the mecp1 complex. [source:refseq;acc:nm_020699]	Divided	12839	10911.1	1.17669	
355	ba395l14.12 (novel protein similar to small nuclear ribonucleoprotein polypeptide a' (snrpa1)). [source:sptrembl;acc:q9nu36]	Subtracted	4914.27	5907.12	992.85	
355	tyrosine aminotransferase (ec 2.6.1.5) (l-tyrosine:2-oxoglutarate aminotransferase) (tat). [source:swissprot;acc:p17735]	Divided	12839	10911.1	1.17669	
356	t-complex protein 1, alpha subunit (tcp-1-alpha) (cct-alpha). [source:swissprot;acc:p17987]	Divided	11004.2	12944.2	1.1763	
356	u2 small nuclear ribonucleoprotein a' (u2 snrnp-a'). [source:swissprot;acc:p09661]	Subtracted	4914.27	5907.12	992.85	

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/