MK5 Microarray Data

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.

Proteome Analysis

Below the proteome analysis is presented. The analysis methods are presented in the paper Propagating Differential Gene Expression in Protein Interaction Networks. If you are interested in the most reliable results choose the

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

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Showing element 6408 to 6457 of 8289 in total

Network Comparison Type  : Divided
Value Type  : Ranked
Filtered  : 1

description	Rank	Hugo	Interaction Map	red	green	network_comparison
sh3 adapter protein spin90 (sh3 protein interacting with nck, 90 kda) (vaca-interacting protein, 54 kda) (vip54) (af3p21) (diaphanous protein interacting protein) (dia interacting protein-1) (dip-1). [swissprot;acc:q9nzq3]	2867	no value	High confidence	0.00001	0.00001	1
	4887		Low confidence	205.789	205.306	1.00235
sh3 domain-binding glutamic acid-rich protein (sh3bgr protein) (21- glutamic acid-rich protein) (21-garp). [swissprot;acc:p55822]	2050	SH3BGR	High confidence	218.79	216.981	1.00834
	4108		Low confidence	202.688	200.543	1.0107
sh3 domain-binding glutamic acid-rich-like protein 2 (fovea-associated sh3 domain binding protein). [swissprot;acc:q9ujc5]	2058	no value	High confidence	218.79	216.981	1.00834
	4113		Low confidence	202.688	200.543	1.0107
sh3 domain-binding glutamic acid-rich-like protein. [swissprot;acc:o75368]	2056	SH3BGRL	High confidence	218.79	216.981	1.00834
	4111		Low confidence	202.688	200.543	1.0107
sh3 domain-binding protein 5 (sh3 domain-binding protein that preferentially associates with btk). [swissprot;acc:o60239]	2137	SH3BP5		202.917	199.102	1.01916
sh3-containing grb2-like protein 1 (sh3 domain protein 2b) (extra eleven-nineteen leukemia fusion gene) (een) (een fusion partner of mll). [swissprot;acc:q99961]	1032	SH3GL1		203.946	199.111	1.02428
	1718		High confidence	206.251	203.553	1.01325
sh3-containing grb2-like protein 2 (sh3 domain protein 2a) (endophilin 1) (een-b1). [swissprot;acc:q99962]	1070	SH3GL2	Low confidence	203.828	199.067	1.02392
	1716		High confidence	206.522	203.818	1.01327
sh3-containing grb2-like protein 3 (sh3 domain protein 2c) (een-b2). [swissprot;acc:q99963]	1149	SH3GL3	Low confidence	203.665	199.007	1.02341
	1713		High confidence	206.823	204.111	1.01329
sh3-containing protein sh3glb1; sh3-containing protein sh3glb1; cgi-61 protein; endophilin b1; endophilin b1; bax-interacting factor 1; sh3-domain, grb2-like, endophilin b1. [refseq;acc:nm_016009]	4284	SH3GLB1	Low confidence	203.11	205.012	1.00936
sh3-containing protein sh3glb2; sh3-domain, grb2-like, endophilin b2. [refseq;acc:nm_020145]	4283	SH3GLB2
sh3-domain binding protein 1 (3bp-1). [swissprot;acc:q9y3l3]	4910	PDXP		197.906	197.536	1.00187
shc transforming protein. [swissprot;acc:p29353]	2125	SHC1	High confidence	221.248	222.788	1.00696
	4969		Low confidence	205.086	205.268	1.00089
short coiled-coil protein; short coiled coil protein. [refseq;acc:nm_032547]	646	SCOC	High confidence	216.731	229.549	1.05914
	3773		Low confidence	203.61	200.926	1.01336
short transient receptor potential channel 4 (trpc4) (trp-related protein 4) (htrp-4) (htrp4). [swissprot;acc:q9ubn4]	202	TRPC4	High confidence	201.478	228.784	1.13553
	1020		Low confidence	200.421	205.306	1.02437
short transient receptor potential channel 5 (trpc5) (htrp-5) (htrp5). [swissprot;acc:q9ul62]	204	TRPC5	High confidence	201.515	228.752	1.13516
	1052		Low confidence	200.439	205.267	1.02409
short-chain dehydrogenase/reductase 1. [refseq;acc:nm_004753]	2385	DHRS3		197.56	193.968	1.01852
short-chain dehydrogenase/reductase 9; 17-beta hydroxysteroid dehydrogenase. [refseq;acc:nm_178135]	2374	HSD17B13		197.541	193.944	1.01855
shroom-related protein; f-actin-binding protein; likely ortholog of mouse shroom. [refseq;acc:nm_020859]	363	SHROOM3	High confidence	231.481	211.131	1.09639
	1012		Low confidence	204.877	199.992	1.02443
shwachman-bodian-diamond syndrome protein (cgi-97). [swissprot;acc:q9y3a5]	588	SBDS	High confidence	216.557	230.362	1.06375
	4912		Low confidence	203.144	202.768	1.00185
sialic acid synthase (n-acetylneuraminate synthase) (ec 2.5.1.56) (n- acetylneuraminic acid synthase) (n-acetylneuraminate-9-phosphate synthase) (ec 2.5.1.57) (n-acetylneuraminic acid phosphate synthase). [swissprot;acc:q9nr45]	4896	NANS		207.078	207.531	1.00219
sideroflexin 1. [swissprot;acc:q9h9b4]	4527	SFXN1		203.083	201.424	1.00824
sideroflexin 3. [swissprot;acc:q9bwm7]	4529	SFXN3
signal recognition particle 14 kda protein (srp14) (18 kda alu rna binding protein). [swissprot;acc:p37108]	5032	SRP14		0.00001	0.00001	1
signal recognition particle 19 kda protein (srp19). [swissprot;acc:p09132]	1367	SRP19		208.235	203.754	1.02199
signal recognition particle 54 kda protein (srp54). [swissprot;acc:p13624]	2106	SRP54		198.261	194.519	1.01924
	2695		High confidence	215.545	215.384	1.00075
signal recognition particle 68 kda protein (srp68). [swissprot;acc:q9uhb9]	866	SRP68		221.306	212.806	1.03994
	1872		Low confidence	202.408	198.469	1.01985
signal recognition particle 72 kda protein (srp72). [swissprot;acc:o76094]	2654	SRP72		197.797	194.353	1.01772
signal recognition particle 9 kda protein (srp9). [swissprot;acc:p49458]	450	SRP9	High confidence	235.94	218.837	1.07815
	458			235.922	218.925	1.07764
	1166		Low confidence	201.081	196.508	1.02327
	1173			201.084	196.52	1.02322
signal recognition particle receptor alpha subunit (sr-alpha) (docking protein alpha) (dp-alpha). [swissprot;acc:p08240]	1208	no value	High confidence	224.878	219.342	1.02524
	3010		Low confidence	201.258	197.95	1.01671
signal recognition particle receptor beta subunit (sr-beta) (protein apmcf1). [swissprot;acc:q9y5m8]	3013	SRPRB
signal transducer and activator of transcription 1-alpha/beta (transcription factor isgf-3 components p91/p84). [swissprot;acc:p42224]	1315	STAT1	High confidence	222.574	227.752	1.02326

Legend:
- Rank is the rank after comparing the two networks
- Gene is the ensembl human gene identifier measured by 1 or more probes on the microarray
- Hugo is the HGNC identifier if it exists
- 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.