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 151 to 200 of 3730 in total 
Value Type	Ranked
Network Comparison Type	Divided
Interaction Map	High confidence

Rank	description	Filtered	red	green	network_comparison	
76	db83 protein. [source:swissprot;acc:p57088]	1	288	362	1.25694	
76	spectrin alpha chain, brain (spectrin, non-erythroid alpha chain) (alpha-ii spectrin) (fodrin alpha chain). [source:swissprot;acc:q13813]	0	3474	2695	1.28905	
77	regulator of chromosome condensation (cell cycle regulatory protein). [source:swissprot;acc:p18754]	0	8821.32	11366.5	1.28853	
77	voltage-dependent calcium channel gamma-2 subunit (neuronal voltage- gated calcium channel gamma-2 subunit). [source:swissprot;acc:q9y698]	1	254.692	202.668	1.2567	
78	repressor of estrogen receptor activity; b-cell associated protein. [source:refseq;acc:nm_007273]	0	7584.72	9706.12	1.27969	
78	voltage-dependent calcium channel gamma-8 subunit (neuronal voltage- gated calcium channel gamma-8 subunit). [source:swissprot;acc:q8wxs5]	1	254.693	202.668	1.2567	
79	nuclear rna export factor 5 (tap-like protein 1) (tapl-1). [source:swissprot;acc:q9h1b4]	0	9465.55	12106.5	1.27901	
79	voltage-dependent calcium channel gamma-3 subunit (neuronal voltage- gated calcium channel gamma-3 subunit). [source:swissprot;acc:o60359]	1	254.693	202.668	1.2567	
80	deltex homolog 1; hdx-1. [source:refseq;acc:nm_004416]	0	9102.34	11617.9	1.27636	
80	voltage-dependent calcium channel gamma-4 subunit (neuronal voltage- gated calcium channel gamma-4 subunit). [source:swissprot;acc:q9ubn1]	1	254.691	202.668	1.25669	
81	selenide,water dikinase 2 (ec 2.7.9.3) (selenophosphate synthetase 2) (selenium donor protein 2). [source:swissprot;acc:q99611]	0	14463	11356	1.2736	
81	voltage-dependent calcium channel gamma-5 subunit (neuronal voltage- gated calcium channel gamma-5 subunit). [source:swissprot;acc:q9uf02]	1	254.614	202.646	1.25645	
82	dj681n20.2 (novel protein similar to ferritin, light polypeptide (ftl)). [source:sptrembl;acc:q9byw6]	0	7706.5	6058	1.27212	
82	guanine nucleotide-binding protein beta subunit 5 (transducin beta chain 5). [source:swissprot;acc:o14775]	1	267.636	335.359	1.25304	
83	melanoma antigen, family d, 4 isoform 1; mage1 protein; mage-e1 protein; maged4 protein. [source:refseq;acc:nm_030801]	1	88.2482	110.265	1.24949	
83	small nuclear ribonucleoprotein associated proteins b and b' (snrnp-b) (sm protein b/b') (sm-b/sm-b') (smb/smb'). [source:swissprot;acc:p14678]	0	18359.8	14447.8	1.27077	
84	hepatocellular carcinoma-associated protein hca3. [source:refseq;acc:nm_138703]	1	88.2482	110.265	1.24949	
84	syntaxin 1a (neuron-specific antigen hpc-1). [source:swissprot;acc:q16623]	0	12460.6	15781	1.26647	
85	melanoma-associated antigen 3 (mage-3 antigen) (antigen mz2-d). [source:swissprot;acc:p43357]	1	88.2482	110.265	1.24949	
85	transducin beta-like 2 protein (ws beta-transducin repeats protein) (ws-betatrp) (williams-beuren syndrome chromosome region 13 protein). [source:swissprot;acc:q9y4p3]	0	9688.47	12104.2	1.24934	
86	high mobility group protein 1 (hmg-1). [source:swissprot;acc:p09429]	0	5677.96	4546.87	1.24876	
86	melanoma-associated antigen 11 (mage-11 antigen). [source:swissprot;acc:p43364]	1	88.2482	110.265	1.24949	
87	dj579f20.1 (high-mobility group (nonhistone chromosomal) protein 1-like 1). [source:sptrembl;acc:q9nqj4]	0	5677.89	4547.43	1.24859	
87	melanoma-associated antigen 2 (mage-2 antigen). [source:swissprot;acc:p43356]	1	88.2482	110.265	1.24949	
88	hepatocellular carcinoma-associated protein hca1. [source:refseq;acc:nm_020932]	1	88.2482	110.265	1.24949	
88	high mobility group protein 1-like 10 (hmg-1l10). [source:swissprot;acc:q9ugv6]	0	5677.86	4547.66	1.24852	
89	melanoma-associated antigen 6 (mage-6 antigen) (mage3b). [source:swissprot;acc:p43360]	1	88.2482	110.265	1.24949	
89	nuclear autoantigen sp-100 (speckled 100 kda) (nuclear dot-associated sp100 protein) (lysp100b). [source:swissprot;acc:p23497]	0	5677.58	4549.85	1.24786	
90	high mobility group protein 4-like (hmg-4l). [source:swissprot;acc:q9uj13]	0	5677.45	4550.87	1.24755	
90	necdin. [source:swissprot;acc:q99608]	1	88.2482	110.265	1.24949	
91	bone morphogenetic protein 8 precursor (bmp-8) (osteogenic protein 2) (op-2). [source:swissprot;acc:p34820]	0	13841.2	11127.5	1.24387	
91	melanoma-associated antigen d1 (mage-d1 antigen) (neurotrophin receptor-interacting mage homolog) (pro2292). [source:swissprot;acc:q9y5v3]	1	88.2482	110.265	1.24949	
92	dok-like protein. [source:refseq;acc:nm_024872]	0	17571	21783	1.23971	
92	melanoma-associated antigen f1 (mage-f1 antigen). [source:swissprot;acc:q9hay2]	1	88.2482	110.265	1.24949	
93	melanoma antigen, family b, 6. [source:refseq;acc:nm_173523]	1	88.2482	110.265	1.24949	
93	pms1 protein homolog 2 (dna mismatch repair protein pms2). [source:swissprot;acc:p54278]	0	7739.47	9580.95	1.23793	
94	melanoma-associated antigen 4 (mage-4 antigen) (mage-x2) (mage-41). [source:swissprot;acc:p43358]	1	88.2482	110.265	1.24949	
94	transketolase-like 1 (ec 2.2.1.1) (transketolase 2) (tk 2) (transketolase related protein). [source:swissprot;acc:p51854]	0	12946.3	10519.7	1.23067	
95	melanoma-associated antigen 9 (mage-9 antigen). [source:swissprot;acc:p43362]	1	88.2482	110.265	1.24949	
95	pp3111 protein. [source:refseq;acc:nm_022156]	0	6185	7603	1.22926	
96	imp2 inner mitochondrial membrane protease-like; inner mitochondrial membrane peptidase 2 like. [source:refseq;acc:nm_032549]	0	8335.82	10228.3	1.22703	
96	melanoma-associated antigen 8 (mage-8 antigen). [source:swissprot;acc:p43361]	1	88.2482	110.265	1.24949	
97	melanoma-associated antigen c1 (mage-c1 antigen) (cancer-testis antigen ct7). [source:swissprot;acc:o60732]	1	88.2482	110.265	1.24949	
97	microsomal signal peptidase 18 kda subunit (ec 3.4.-.-) (spase 18 kda subunit) (spc18) (endopeptidase sp18). [source:swissprot;acc:p21378]	0	8335.82	10228.3	1.22703	
98	melanoma-associated antigen 12 (mage-12 antigen) (mage12f). [source:swissprot;acc:p43365]	1	88.2482	110.265	1.24949	
98	orphan nuclear receptor nr2e1 (nuclear receptor tlx) (tailless homolog) (tll) (htll). [source:swissprot;acc:q9y466]	0	7234.6	8858.94	1.22452	
99	melanoma-associated antigen 1 (mage-1 antigen) (antigen mz2-e). [source:swissprot;acc:p43355]	1	88.2482	110.265	1.24949	
99	muscle-specific beta 1 integrin binding protein. [source:refseq;acc:nm_014446]	0	12787.8	10454.7	1.22316	
100	creatine kinase, ubiquitous mitochondrial precursor (ec 2.7.3.2) (u- mtck) (mia-ck) (acidic-type mitochondrial creatine kinase). [source:swissprot;acc:p12532]	0	9183.49	11217.7	1.22151	
100	melanoma-associated antigen 10 (mage-10 antigen). [source:swissprot;acc:p43363]	1	88.2482	110.265	1.24949	

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/