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 [...,...].

Filtered green Value Type description network_comparison Rank Gene Interaction Map red Network Comparison Type

Results: HTML CSV LaTeX

Showing element 501 to 550 of 38536 in total

Filtered	0
Network Comparison Type	Divided

green	Value Type	description	network_comparison	Rank	Interaction Map	red	
12.7411	Rooted	synbindin (trs23 homolog) (hematopoietic stem/progenitor cell protein 172) (hspc172) (ptd009) (cgi-104). [source:swissprot;acc:q9y296]	1.73139	31	Low confidence	7.3589	
12.753	Rooted	selenoprotein t. [source:swissprot;acc:q9nzj3]	1.24434	120	Low confidence	10.2488	
12.7728	Rooted	mitochondrial carrier protein mgc4399. [source:refseq;acc:nm_032315]	1.04784	540	Low confidence	12.1897	
12.8712	Rooted	cln3 protein (battenin) (batten disease protein). [source:swissprot;acc:q13286]	1.02033	697	Low confidence	13.1329	
12.8903	Rooted	60s ribosomal protein l14 (cag-isl 7). [source:swissprot;acc:p50914]	1.03648	384	High confidence	13.3606	
12.9333	Rooted	transcription factor dp-1 (e2f dimerization partner 1) (drtf1- polypeptide-1) (drtf1). [source:swissprot;acc:q14186]	1.12923	205	Low confidence	14.6047	
12.9538	Rooted	alpha 2 globin. [source:refseq;acc:nm_000517]	1.41698	67	Low confidence	18.3553	
12.9627	Rooted	hemoglobin gamma-a and gamma-g chains. [source:swissprot;acc:p02096]	1.41651	68	Low confidence	18.3618	
12.9659	Rooted	myoglobin. [source:swissprot;acc:p02144]	1.41635	69	Low confidence	18.3642	
13.034	Rooted	f-actin capping protein alpha-2 subunit (capz alpha-2). [source:swissprot;acc:p47755]	1.22258	124	High confidence	10.6611	
13.1421	Squared	alpha-nac protein. [source:sptrembl;acc:q9h009]	1.08499	390	High confidence	12.1126	
13.1443	Squared	nascent-polypeptide-associated complex alpha polypeptide. [source:refseq;acc:nm_005594]	1.08826	387	High confidence	12.0783	
13.1909	Rooted	cab2. [source:refseq;acc:nm_033419]	1319090	93	High confidence	0.00001	
13.3054	Rooted	cg4853 gene product. [source:refseq;acc:nm_145313]	1.17432	147	Low confidence	15.6248	
13.373	Rooted	rab gdp dissociation inhibitor alpha (rab gdi alpha) (gdi-1) (xap-4) (oligophrenin 2). [source:swissprot;acc:p31150]	1.02724	433	High confidence	13.7373	
13.4012	Rooted	cyclin h (mo15-associated protein) (p37) (p34). [source:swissprot;acc:p51946]	1.01149	760	Low confidence	13.5552	
13.448	Squared	mitochondrial 28s ribosomal protein s6 (mrp-s6). [source:swissprot;acc:p82932]	2.55866	83	Low confidence	34.4089	
13.4716	Rooted	piwi-like 2; miwi like. [source:refseq;acc:nm_018068]	1.15887	164	Low confidence	15.6118	
13.5207	Rooted	cartilage oligomeric matrix protein precursor (comp). [source:swissprot;acc:p49747]	1.38596	69	High confidence	18.7392	
13.5494	Rooted	protein transport protein sec24c (sec24-related protein c). [source:swissprot;acc:p53992]	1.11829	224	Low confidence	15.1522	
13.5647	Rooted	cell division protein kinase 8 (ec 2.7.1.-) (protein kinase k35). [source:swissprot;acc:p49336]	1.80277	40	High confidence	24.454	
13.6105	Rooted	testis-specific protein tpx-1 precursor (cysteine-rich secretory protein-2) (crisp-2). [source:swissprot;acc:p16562]	1.35766	76	High confidence	10.025	
13.6518	Rooted	espin. [source:refseq;acc:nm_031475]	1.11204	344	Low confidence	15.1813	
13.7156	Rooted	poly(rc)-binding protein 2 (alpha-cp2) (hnrnp-e2). [source:swissprot;acc:q15366]	1.08451	405	Low confidence	12.6468	
13.7907	Rooted	estrogen-related receptor gamma (estrogen receptor related protein 3) (err gamma-2). [source:swissprot;acc:o75454]	1.10039	358	Low confidence	15.1752	
13.8207	Squared	testis-specific protein tpx-1 precursor (cysteine-rich secretory protein-2) (crisp-2). [source:swissprot;acc:p16562]	1.38377	218	High confidence	19.1247	
13.8963	Rooted	tbp-associated factor 9l; neuronal cell death-related protein; taf9-like rna polymerase ii, tata box binding protein (tbp)-associated factor, 31 kd; neuronal cell death-related gene in neuron-7; transcription associated factor tafii31l; transcription initiation factor iid, 31kd subunit. [source:refseq;acc:nm_015975]	1.03439	394	High confidence	13.4343	
13.9084	Rooted	importin 4. [source:refseq;acc:nm_024658]	1.17928	143	High confidence	16.4019	
13.9284	Rooted	gaba-a receptor-associated protein. [source:sptrembl;acc:q9by60]	1.12149	232	High confidence	15.6205	
14.0846	Rooted	myosin vi. [source:swissprot;acc:q9um54]	1.2322	121	High confidence	17.3551	
14.0846	Rooted	myosin vi. [source:swissprot;acc:q9um54]	1.2322	123	Low confidence	17.3551	
14.1963	Rooted	transcription factor mafk (erythroid transcription factor nf-e2 p18 subunit). [source:swissprot;acc:o60675]	1.09552	267	High confidence	12.9585	
14.2577	Rooted	transcription factor mafg (v-maf musculoaponeurotic fibrosarcoma oncogene homolog g) (hmaf). [source:swissprot;acc:o15525]	1.09465	268	High confidence	13.0249	
14.3004	Rooted	adapter-related protein complex 1 sigma 1b subunit (sigma-adaptin 1b) (adaptor protein complex ap-1 sigma-1b subunit) (golgi adaptor ha1/ap1 adaptin sigma-1b subunit) (clathrin assembly protein complex 1 sigma- 1b small chain) (sigma 1b subunit of ap-1 clathrin) (dc22). [source:swissprot;acc:p56377]	1.13534	195	Low confidence	16.2358	
14.3151	Rooted	maguk p55 subfamily member 2 (mpp2 protein) (discs, large homolog 2). [source:swissprot;acc:q14168]	1.11026	246	High confidence	12.8935	
14.3181	Rooted	dynactin 1 (150 kda dynein-associated polypeptide) (dp-150) (dap-150) (p150-glued) (p135). [source:swissprot;acc:q14203]	1.02893	637	Low confidence	14.7323	
14.3236	Rooted	stromal membrane-associated protein; stromal membrane-associated protein smap1a. [source:refseq;acc:nm_021940]	1.12835	208	Low confidence	16.162	
14.3333	Measured	4-aminobutyrate aminotransferase, mitochondrial precursor (ec 2.6.1.19) (gamma-amino-n-butyrate transaminase) (gaba transaminase) (gaba aminotransferase) (gaba-at) (gaba-t). [source:swissprot;acc:p80404]	1.3721	121	High confidence	19.6667	
14.4058	Rooted	potassium voltage-gated channel, shal-related subfamily, member 2; voltage-sensitive potassium channel; voltage-gated potassium channel kv4.2. [source:refseq;acc:nm_012281]	1.82337	25	Low confidence	7.90063	
14.4058	Rooted	potassium voltage-gated channel, shal-related subfamily, member 2; voltage-sensitive potassium channel; voltage-gated potassium channel kv4.2. [source:refseq;acc:nm_012281]	1.82337	39	High confidence	7.90063	
14.4887	Rooted	dynamin-like 120 kda protein, mitochondrial precursor (optic atrophy 1 gene protein). [source:swissprot;acc:o60313]	1.35259	84	Low confidence	19.5973	
14.4914	Rooted	helicase/primase complex protein. [source:refseq;acc:nm_138336]	1.16292	159	Low confidence	16.8523	
14.5086	Rooted	basic proline-rich peptide p-e (ib-9). [source:swissprot;acc:p02811]	1.05434	332	High confidence	15.297	
14.5738	Rooted	estrogen-related receptor gamma (estrogen receptor related protein 3) (err gamma-2). [source:swissprot;acc:o75454]	1.26912	115	High confidence	18.4959	
14.6565	Rooted	glycerol kinase (ec 2.7.1.30) (atp:glycerol 3-phosphotransferase) (glycerokinase) (gk). [source:swissprot;acc:p32189]	1.08063	408	Low confidence	15.8382	
14.6595	Rooted	glycerol kinase, testis specific 1 (ec 2.7.1.30) (atp:glycerol 3- phosphotransferase) (glycerokinase) (gk). [source:swissprot;acc:q14409]	1.07978	410	Low confidence	15.829	
14.6672	Rooted	glycerol kinase, testis specific 2 (ec 2.7.1.30) (atp:glycerol 3- phosphotransferase) (glycerokinase) (gk). [source:swissprot;acc:q14410]	1.07735	419	Low confidence	15.8017	
14.6994	Rooted	f-actin capping protein alpha-2 subunit (capz alpha-2). [source:swissprot;acc:p47755]	1.16915	152	Low confidence	17.1858	
14.7003	Rooted	guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-5 like subunit. [source:swissprot;acc:q9y3k8]	1.05005	349	High confidence	15.4361	
14.7392	Rooted	elongation factor ts, mitochondrial precursor (ef-ts) (ef-tsmt). [source:swissprot;acc:p43897]	1.67654	45	High confidence	8.79142	

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/