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.


Navigation/Query Panel:
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 green red network_comparison
Results: HTML CSV LaTeX Showing element 144 to 193 of 3730 in total 
Value Type	Ranked
Network Comparison Type	Divided
Interaction Map	High confidence

Rank	description	Filtered	green	red	network_comparison	
72	putative phosphoglycerate mutase 3 (ec 5.4.2.1) (ec 5.4.2.4) (ec 3.1.3.13). [source:swissprot;acc:q8n0y7]	0	5397	4119	1.31027	
73	junctophilin 3 (junctophilin type 3) (jp-3). [source:swissprot;acc:q8wxh2]	1	362	288	1.25694	
73	phosphoglycerate mutase 1 (ec 5.4.2.1) (ec 5.4.2.4) (ec 3.1.3.13) (phosphoglycerate mutase isozyme b) (pgam-b) (bpg-dependent pgam 1). [source:swissprot;acc:p18669]	0	5397	4119	1.31027	
74	ataxin 2; olivopontocerebellar ataxia 2, autosomal dominant. [source:refseq;acc:nm_002973]	0	8759.5	6742.5	1.29915	
74	junctophilin 2 (junctophilin type 2) (jp-2). [source:swissprot;acc:q9br39]	1	362	288	1.25694	
75	nanos (fragment). [source:sptrembl;acc:q8wy41]	0	11350	8782	1.29242	
75	sphingomyelin phosphodiesterase 2 (ec 3.1.4.12) (neutral sphingomyelinase) (nsmase) (n-smase) (lyso-platelet activating factor- phospholipase c) (lyso-paf-plc). [source:swissprot;acc:o60906]	1	362	288	1.25694	
76	db83 protein. [source:swissprot;acc:p57088]	1	362	288	1.25694	
76	spectrin alpha chain, brain (spectrin, non-erythroid alpha chain) (alpha-ii spectrin) (fodrin alpha chain). [source:swissprot;acc:q13813]	0	2695	3474	1.28905	
77	regulator of chromosome condensation (cell cycle regulatory protein). [source:swissprot;acc:p18754]	0	11366.5	8821.32	1.28853	
77	voltage-dependent calcium channel gamma-2 subunit (neuronal voltage- gated calcium channel gamma-2 subunit). [source:swissprot;acc:q9y698]	1	202.668	254.692	1.2567	
78	repressor of estrogen receptor activity; b-cell associated protein. [source:refseq;acc:nm_007273]	0	9706.12	7584.72	1.27969	
78	voltage-dependent calcium channel gamma-8 subunit (neuronal voltage- gated calcium channel gamma-8 subunit). [source:swissprot;acc:q8wxs5]	1	202.668	254.693	1.2567	
79	nuclear rna export factor 5 (tap-like protein 1) (tapl-1). [source:swissprot;acc:q9h1b4]	0	12106.5	9465.55	1.27901	
79	voltage-dependent calcium channel gamma-3 subunit (neuronal voltage- gated calcium channel gamma-3 subunit). [source:swissprot;acc:o60359]	1	202.668	254.693	1.2567	
80	deltex homolog 1; hdx-1. [source:refseq;acc:nm_004416]	0	11617.9	9102.34	1.27636	
80	voltage-dependent calcium channel gamma-4 subunit (neuronal voltage- gated calcium channel gamma-4 subunit). [source:swissprot;acc:q9ubn1]	1	202.668	254.691	1.25669	
81	selenide,water dikinase 2 (ec 2.7.9.3) (selenophosphate synthetase 2) (selenium donor protein 2). [source:swissprot;acc:q99611]	0	11356	14463	1.2736	
81	voltage-dependent calcium channel gamma-5 subunit (neuronal voltage- gated calcium channel gamma-5 subunit). [source:swissprot;acc:q9uf02]	1	202.646	254.614	1.25645	
82	dj681n20.2 (novel protein similar to ferritin, light polypeptide (ftl)). [source:sptrembl;acc:q9byw6]	0	6058	7706.5	1.27212	
82	guanine nucleotide-binding protein beta subunit 5 (transducin beta chain 5). [source:swissprot;acc:o14775]	1	335.359	267.636	1.25304	
83	melanoma antigen, family d, 4 isoform 1; mage1 protein; mage-e1 protein; maged4 protein. [source:refseq;acc:nm_030801]	1	110.265	88.2482	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	14447.8	18359.8	1.27077	
84	hepatocellular carcinoma-associated protein hca3. [source:refseq;acc:nm_138703]	1	110.265	88.2482	1.24949	
84	syntaxin 1a (neuron-specific antigen hpc-1). [source:swissprot;acc:q16623]	0	15781	12460.6	1.26647	
85	melanoma-associated antigen 3 (mage-3 antigen) (antigen mz2-d). [source:swissprot;acc:p43357]	1	110.265	88.2482	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	12104.2	9688.47	1.24934	
86	high mobility group protein 1 (hmg-1). [source:swissprot;acc:p09429]	0	4546.87	5677.96	1.24876	
86	melanoma-associated antigen 11 (mage-11 antigen). [source:swissprot;acc:p43364]	1	110.265	88.2482	1.24949	
87	dj579f20.1 (high-mobility group (nonhistone chromosomal) protein 1-like 1). [source:sptrembl;acc:q9nqj4]	0	4547.43	5677.89	1.24859	
87	melanoma-associated antigen 2 (mage-2 antigen). [source:swissprot;acc:p43356]	1	110.265	88.2482	1.24949	
88	hepatocellular carcinoma-associated protein hca1. [source:refseq;acc:nm_020932]	1	110.265	88.2482	1.24949	
88	high mobility group protein 1-like 10 (hmg-1l10). [source:swissprot;acc:q9ugv6]	0	4547.66	5677.86	1.24852	
89	melanoma-associated antigen 6 (mage-6 antigen) (mage3b). [source:swissprot;acc:p43360]	1	110.265	88.2482	1.24949	
89	nuclear autoantigen sp-100 (speckled 100 kda) (nuclear dot-associated sp100 protein) (lysp100b). [source:swissprot;acc:p23497]	0	4549.85	5677.58	1.24786	
90	high mobility group protein 4-like (hmg-4l). [source:swissprot;acc:q9uj13]	0	4550.87	5677.45	1.24755	
90	necdin. [source:swissprot;acc:q99608]	1	110.265	88.2482	1.24949	
91	bone morphogenetic protein 8 precursor (bmp-8) (osteogenic protein 2) (op-2). [source:swissprot;acc:p34820]	0	11127.5	13841.2	1.24387	
91	melanoma-associated antigen d1 (mage-d1 antigen) (neurotrophin receptor-interacting mage homolog) (pro2292). [source:swissprot;acc:q9y5v3]	1	110.265	88.2482	1.24949	
92	dok-like protein. [source:refseq;acc:nm_024872]	0	21783	17571	1.23971	
92	melanoma-associated antigen f1 (mage-f1 antigen). [source:swissprot;acc:q9hay2]	1	110.265	88.2482	1.24949	
93	melanoma antigen, family b, 6. [source:refseq;acc:nm_173523]	1	110.265	88.2482	1.24949	
93	pms1 protein homolog 2 (dna mismatch repair protein pms2). [source:swissprot;acc:p54278]	0	9580.95	7739.47	1.23793	
94	melanoma-associated antigen 4 (mage-4 antigen) (mage-x2) (mage-41). [source:swissprot;acc:p43358]	1	110.265	88.2482	1.24949	
94	transketolase-like 1 (ec 2.2.1.1) (transketolase 2) (tk 2) (transketolase related protein). [source:swissprot;acc:p51854]	0	10519.7	12946.3	1.23067	
95	melanoma-associated antigen 9 (mage-9 antigen). [source:swissprot;acc:p43362]	1	110.265	88.2482	1.24949	
95	pp3111 protein. [source:refseq;acc:nm_022156]	0	7603	6185	1.22926	
96	imp2 inner mitochondrial membrane protease-like; inner mitochondrial membrane peptidase 2 like. [source:refseq;acc:nm_032549]	0	10228.3	8335.82	1.22703	
96	melanoma-associated antigen 8 (mage-8 antigen). [source:swissprot;acc:p43361]	1	110.265	88.2482	1.24949	
97	melanoma-associated antigen c1 (mage-c1 antigen) (cancer-testis antigen ct7). [source:swissprot;acc:o60732]	1	110.265	88.2482	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/