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.

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

Results: HTML CSV LaTeX

Showing element 5908 to 5957 of 7460 in total

Value Type  : Ranked
Interaction Map  : High confidence

description	Rank	Network Comparison Type	Filtered	red	green	network_comparison
sh3 domain-binding glutamic acid-rich-like protein 2 (fovea-associated sh3 domain binding protein). [swissprot;acc:q9ujc5]	2058	Divided	1	218.79	216.981	1.00834
sh3 domain-binding glutamic acid-rich-like protein. [swissprot;acc:o75368]	2035	Subtracted				1.809
	2056	Divided				1.00834
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]	282		0	8095.69	8732.68	1.07868
	333	Subtracted				636.99
	1718	Divided	1	206.251	203.553	1.01325
	1758	Subtracted				2.698
sh3-containing grb2-like protein 2 (sh3 domain protein 2a) (endophilin 1) (een-b1). [swissprot;acc:q99962]	1716	Divided		206.522	203.818	1.01327
	1755	Subtracted				2.704
sh3-containing grb2-like protein 3 (sh3 domain protein 2c) (een-b2). [swissprot;acc:q99963]	1713	Divided		206.823	204.111	1.01329
	1749	Subtracted				2.712
shc transforming protein. [swissprot;acc:p29353]	2107			221.248	222.788	1.54
	2125	Divided				1.00696
short coiled-coil protein; short coiled coil protein. [refseq;acc:nm_032547]	607	Subtracted		216.731	229.549	12.818
	646	Divided				1.05914
short transient receptor potential channel 4 (trpc4) (trp-related protein 4) (htrp-4) (htrp4). [swissprot;acc:q9ubn4]	171	Subtracted		201.478	228.784	27.306
	202	Divided				1.13553
short transient receptor potential channel 5 (trpc5) (htrp-5) (htrp5). [swissprot;acc:q9ul62]	173	Subtracted		201.515	228.752	27.237
	204	Divided				1.13516
shroom-related protein; f-actin-binding protein; likely ortholog of mouse shroom. [refseq;acc:nm_020859]	347	Subtracted		231.481	211.131	20.35
	363	Divided				1.09639
shwachman-bodian-diamond syndrome protein (cgi-97). [swissprot;acc:q9y3a5]	557	Subtracted		216.557	230.362	13.805
	588	Divided				1.06375
signal recognition particle 54 kda protein (srp54). [swissprot;acc:p13624]	2685	Subtracted		215.545	215.384	0.161
	2695	Divided				1.00075
signal recognition particle 68 kda protein (srp68). [swissprot;acc:q9uhb9]	858	Subtracted		221.306	212.806	8.5
	866	Divided				1.03994
signal recognition particle 9 kda protein (srp9). [swissprot;acc:p49458]	134	Subtracted	0	12157.6	13890.3	1732.7
	167	Divided				1.14252
	417	Subtracted	1	235.94	218.837	17.103
	419			235.922	218.925	16.997
	450	Divided		235.94	218.837	1.07815
	458			235.922	218.925	1.07764
signal recognition particle receptor alpha subunit (sr-alpha) (docking protein alpha) (dp-alpha). [swissprot;acc:p08240]	490	Subtracted	0	11985.5	11959.4	26.1
	494	Divided				1.00218
	1148	Subtracted	1	224.878	219.342	5.536
	1208	Divided				1.02524
signal transducer and activator of transcription 1-alpha/beta (transcription factor isgf-3 components p91/p84). [swissprot;acc:p42224]	1240	Subtracted		222.574	227.752	5.178
	1315	Divided				1.02326
signal transducer and activator of transcription 3 (acute-phase response factor). [swissprot;acc:p40763]	1241	Subtracted		222.573	227.75	5.177
	1313	Divided				1.02326
signal transducer and activator of transcription 4. [swissprot;acc:q14765]	1239	Subtracted			227.751	5.178
	1314	Divided				1.02326
signal transducer and activator of transcription 5a. [swissprot;acc:p42229]	1259	Subtracted		222.546	227.673	5.127
	1318	Divided				1.02304
signal transducer and activator of transcription 5b. [swissprot;acc:p51692]	1260	Subtracted		222.544	227.667	5.123
	1320	Divided				1.02302
signal transducer and activator of transcription 6 (il-4 stat). [swissprot;acc:p42226]	1243	Subtracted		222.569	227.739	5.17
	1316	Divided				1.02323
signal transducing adaptor molecule 1; signal transducing adaptor molecule. [refseq;acc:nm_003473]	2393			182.266	182.962	1.00382

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
- 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.