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

Results: HTML CSV LaTeX

Showing element 394 to 443 of 6456 in total

Value Type  : Ranked
Interaction Map  : High confidence
Filtered  : 1

Rank	description	Network Comparison Type	red	green	network_comparison
197	forkhead box protein p1 (hspc215). [swissprot;acc:q9h334]	Divided	263.215	231.407	1.13745
198	40s ribosomal protein s29. [swissprot;acc:p30054]	Subtracted	241.849	267.642	25.793
	forkhead box protein p3 (zinc finger protein jm2) (scurfin). [swissprot;acc:q9bzs1]	Divided	263.191	231.394	1.13741
199	40s ribosomal protein s11. [swissprot;acc:p04643]	Subtracted	241.399	267.088	25.689
	palmitoyl-protein thioesterase 2 precursor (ec 3.1.2.22) (palmitoyl- protein hydrolase 2) (ppt-2) (g14). [swissprot;acc:q9umr5]	Divided	242.735	276.059	1.13729
200	60s ribosomal protein l17 (l23). [swissprot;acc:p18621]	Subtracted	241.808	267.335	25.527
	egf-like-domain, multiple 7; neu1 protein. [refseq;acc:nm_016215]	Divided	242.718	276.018	1.1372
201	60s ribosomal protein l11. [swissprot;acc:p39026]	Subtracted	241.828	267.346	25.518
	splicing factor 4 isoform b; rna-binding protein. [refseq;acc:nm_021164]	Divided	240.133	211.382	1.13601
202	40s ribosomal protein s4, y isoform 2. [swissprot;acc:q8td47]	Subtracted	240.758	266.079	25.321
	short transient receptor potential channel 4 (trpc4) (trp-related protein 4) (htrp-4) (htrp4). [swissprot;acc:q9ubn4]	Divided	201.478	228.784	1.13553
203	40s ribosomal protein s4, x isoform (single copy abundant mrna protein) (scr10). [swissprot;acc:p12750]	Subtracted	240.758	266.078	25.32
	ebp50-pdz interactor of 64 kda (epi64 protein). [swissprot;acc:q9bxi6]	Divided	201.515	228.752	1.13516
204	calpain 2, large [catalytic] subunit precursor (ec 3.4.22.17) (calcium-activated neutral proteinase) (canp) (m-type) (m-calpain) (millimolar-calpain) (calpain large polypeptide l2). [swissprot;acc:p17655]	Subtracted	268.632	243.588	25.044
	short transient receptor potential channel 5 (trpc5) (htrp-5) (htrp5). [swissprot;acc:q9ul62]	Divided	201.515	228.752	1.13516
205	calpain 1, large [catalytic] subunit (ec 3.4.22.17) (calcium-activated neutral proteinase) (canp) (mu-type) (mucanp) (micromolar-calpain). [swissprot;acc:p07384]	Subtracted	268.635	243.592	25.043
	luc7-like 2; cgi-74 protein; cgi-59 protein. [refseq;acc:nm_016019]	Divided	228.1	200.968	1.13501
206	40s ribosomal protein s15a. [swissprot;acc:p39027]	Subtracted	241.411	266.414	25.003
	luc7-like; sarcoplasmic reticulum protein luc7b1. [refseq;acc:nm_018032]	Divided	228.085	201.006	1.13472
207	eukaryotic translation initiation factor 4 gamma, 3. [refseq;acc:nm_003760]	Subtracted	237.312	212.363	24.949
	presenilin 2 (ps-2) (stm-2) (e5-1) (ad3lp) (ad5). [swissprot;acc:p49810]	Divided	285.684	252.234	1.13261
208	60s ribosomal protein l23 (l17). [swissprot;acc:p23131]	Subtracted	240.782	265.717	24.935
	s-phase kinase-associated protein 1a (cyclin a/cdk2-associated protein p19) (p19a) (p19skp1) (rna polymerase ii elongation factor-like protein) (organ of corti protein 2) (ocp-ii protein) (ocp-2) (transcription elongation factor b) (siii). [swissprot;acc:p34991]	Divided	285.684	252.234	1.13261
209	brca2 and cdkn1a-interacting protein isoform bccipalpha; brca2 and cdkn1a-interacting protein; cdk inhibitor p21 binding protein; bccipalpha; bccipbeta; tok-1alpha; tok-1beta. [refseq;acc:nm_016567]	Subtracted	240.782	265.717	24.935
	f-box protein fbw7 isoform 2; archipelago, drosophila, homolog of; f-box protein fbw7; f-box protein sel-10; homolog of c elegans sel-10. [refseq;acc:nm_018315]	Divided	285.684	252.234	1.13261
210	cullin homolog 2 (cul-2). [swissprot;acc:q13617]
	rna-binding protein. [refseq;acc:nm_019027]	Subtracted	237.302	212.41	24.892
211	apobec-1 complementation factor isoform 1; apobec-1 stimulating protein; apo-b rna editing protein. [refseq;acc:nm_014576]
	presenilin 1 (ps-1) (s182 protein). [swissprot;acc:p49768]	Divided	285.684	252.234	1.13261
212	cullin homolog 1 (cul-1). [swissprot;acc:q13616]
	ns1-associated protein 1. [refseq;acc:nm_006372]	Subtracted	237.302	212.41	24.892
213	heterogeneous nuclear ribonucleoprotein r (hnrnp r). [swissprot;acc:o43390]
	pallidin; pallid (mouse) homolog, pallidin. [refseq;acc:nm_012388]	Divided	210.693	186.95	1.127
214	lag1 longevity assurance homolog 2 isoform 1; l3 pigment; tumor metastasis-suppressor. [refseq;acc:nm_022075]		191.644	170.192	1.12605
	mitochondrial ribosomal protein l4 isoform a. [refseq;acc:nm_015956]	Subtracted	241.282	266.12	24.838
215	eukaryotic translation initiation factor 4 gamma (eif-4-gamma) (eif- 4g) (eif4g) (p220). [swissprot;acc:q04637]		237.292	212.457	24.835
	myosin heavy chain, cardiac muscle alpha isoform (myhc-alpha). [swissprot;acc:p13533]	Divided	112	126	1.125
216	myosin heavy chain, skeletal muscle, fetal (myosin heavy chain iib) (myhc-iib). [swissprot;acc:q9y623]
	small nuclear ribonucleoprotein sm d2 (snrnp core protein d2) (sm-d2). [swissprot;acc:p43330]	Subtracted	226.471	201.769	24.702
217	60s ribosomal protein l26. [swissprot;acc:q02877]		242.326	267.008	24.682
	myosin heavy chain, skeletal muscle, perinatal (myhc-perinatal). [swissprot;acc:p13535]	Divided	112	126	1.125
218	60s ribosomal protein l35. [swissprot;acc:p42766]	Subtracted	242.333	266.999	24.666
	myosin heavy chain, skeletal muscle, adult 2 (myosin heavy chain iia) (myhc-iia). [swissprot;acc:q9ukx2]	Divided	112	126	1.125
219	40s ribosomal protein s15 (rig protein). [swissprot;acc:p11174]	Subtracted	242.339	266.986	24.647
	myosin heavy chain, fast skeletal muscle, embryonic (muscle embryonic myosin heavy chain) (smhce). [swissprot;acc:p11055]	Divided	112	126	1.125
220	mitochondrial ribosomal protein l2. [refseq;acc:nm_015950]	Subtracted	242.339	266.986	24.647
	myosin heavy chain, skeletal muscle, adult 1 (myosin heavy chain iix/d) (myhc-iix/d). [swissprot;acc:p12882]	Divided	112	126	1.125
221	myosin heavy chain, cardiac muscle beta isoform (myhc-beta). [swissprot;acc:p12883]
	protein translation factor sui1 homolog gc20. [swissprot;acc:o60739]	Subtracted	242.627	267.151	24.524
222	60s ribosomal protein l14 (cag-isl 7). [swissprot;acc:p50914]		242.153	266.673	24.52

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.