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

Results: HTML CSV LaTeX

Showing element 8191 to 8240 of 8289 in total

Value Type  : Ranked
Network Comparison Type  : Divided
Interaction Map  : Low confidence
Filtered  : 1

Rank	description	red	green	network_comparison
4963	dna directed rna polymerase ii polypeptide j-related gene isoform 1; rpb11b1alpha protein; rpb11b1beta; dna-directed rna polymerase ii subunit 11. [refseq;acc:nm_145325]	201.297	201.493	1.00097
4964	dna directed rna polymerase ii polypeptide j-related gene isoform 3; rpb11b1alpha protein; rpb11b1beta; dna-directed rna polymerase ii subunit 11. [refseq;acc:nm_032959]	201.299	201.494
4965	pram-1 protein; pml-rara target gene encoding an adaptor molecule-1. [refseq;acc:nm_032152]	204.218	204.415	1.00096
4966	kelch-like protein x. [swissprot;acc:q9y2m5]	205.621	205.429	1.00093
4967	smooth muscle cell associated protein-1. [refseq;acc:nm_017979]	201.437	201.62	1.00091
4968	dna-directed rna polymerase ii 13.3 kda polypeptide (ec 2.7.7.6) (rpb11). [swissprot;acc:p52435]	201.324	201.507
4969	shc transforming protein. [swissprot;acc:p29353]	205.086	205.268	1.00089
4970	myeloid/lymphoid or mixed-lineage leukemia 5 (trithorax homolog, drosophila). [refseq;acc:nm_182931]	201.904	202.084
4971	kinesin-like protein kif3c. [swissprot;acc:o14782]	194.036	193.866	1.00088
4972	basic helix-loop-helix domain containing, class b, 5; trinucleotide repeat containing 20. [refseq;acc:nm_152414]	197.202	197.037	1.00084
4973	retinol dehydrogenase 13 (all-trans and 9-cis); retinol dehydrogenase 13. [refseq;acc:nm_138412]	203.232	203.064	1.00083
4974	ring finger protein 3. [refseq;acc:nm_006315]	201.294	201.133	1.0008
4975	exosome complex exonuclease rrp41 (ec 3.1.13.-) (ribosomal rna processing protein 41) (p12a). [swissprot;acc:q9npd3]	202.363	202.202
4976	ba305p22.3 (breast carcinoma amplified sequence 4). [sptrembl;acc:q8ndy6]	197.195	197.038
4977	dna excision repair protein ercc-1. [swissprot;acc:p07992]	203.61	203.773
4978	origin recognition complex subunit 2. [swissprot;acc:q13416]	196.037	196.184	1.00075
4979	fatty acid-binding protein, heart (h-fabp) (muscle fatty acid-binding protein) (m-fabp) (mammary-derived growth inhibitor) (mdgi). [swissprot;acc:p05413]	198.629	198.483	1.00074
4980	vacuolar protein sorting 11 (hvps11) (pp3476). [swissprot;acc:q9h270]	202.703	202.557	1.00072
4981	kinesin-like protein kif3a (microtubule plus end-directed kinesin motor 3a). [swissprot;acc:q9y496]	193.278	193.418
4982	neuronal shc. [refseq;acc:nm_016848]	205.038	205.174	1.00066
4983	protein sck (fragment). [swissprot;acc:p98077]	205.037	205.171	1.00065
4984	exosome complex exonuclease rrp40 (ec 3.1.13.-) (ribosomal rna processing protein 40) (p10) (cgi-102). [swissprot;acc:q9nqt5]	202.785	202.913	1.00063
4985	fatty acid-binding protein, brain (b-fabp) (brain lipid-binding protein) (blbp) (mammary derived growth inhibitor related). [swissprot;acc:o15540]	198.253	198.368	1.00058
4986	fatty acid-binding protein, adipocyte (afabp) (adipocyte lipid-binding protein) (albp) (a-fabp). [swissprot;acc:p15090]	198.568	198.464	1.00052
4987	myelin p2 protein. [swissprot;acc:p02689]	198.567
4988	mitochondrial 28s ribosomal protein s2 (mrp-s2) (cgi-91). [swissprot;acc:q9y399]	203.626	203.525	1.0005
4989	ubiquitin carboxyl-terminal hydrolase 8 (ec 3.1.2.15) (ubiquitin thiolesterase 8) (ubiquitin-specific processing protease 8) (deubiquitinating enzyme 8). [swissprot;acc:p40818]	202.023	202.108	1.00042
4990	elongation of very long chain fatty acids protein 1 (cgi-88). [swissprot;acc:q9bw60]	203.148	203.233
4991	mitochondrial ribosomal protein l17; lyst-interacting protein lip2. [refseq;acc:nm_022061]	205.526	205.451	1.00037
4992	28s ribosomal protein s9, mitochondrial precursor (mrp-s9). [swissprot;acc:p82933]	206.266	206.342
4993	dual specificity protein kinase ttk (ec 2.7.1.-) (pyt). [swissprot;acc:p33981]	193.792	193.722	1.00036
4994	60s acidic ribosomal protein p1. [swissprot;acc:p05386]	203.12	203.189	1.00034
4995	mitochondrial import receptor subunit tom20 homolog (mitochondrial 20 kda outer membrane protein) (outer mitochondrial membrane receptor tom20). [swissprot;acc:q15388]	199.861	199.798	1.00032
4996	suppressor of cytokine signaling 1 (socs-1) (jak-binding protein) (jab) (stat induced stat inhibitor 1) (ssi-1) (tec-interacting protein 3) (tip-3). [swissprot;acc:o15524]	210.227	210.162	1.00031
4997	cytohesin 4. [swissprot;acc:q9uia0]	177.9	177.845
4998	polyhomeotic like 3; early development regulator 3; polyhomeotic 3. [refseq;acc:nm_024947]	199.669	199.609	1.0003
4999	g protein-coupled receptor kinase grk4 (ec 2.7.1.-) (iti1). [swissprot;acc:p32298]	203.07	203.131
5000	g protein-coupled receptor kinase grk5 (ec 2.7.1.-) (g-protein-coupled receptor kinase 5). [swissprot;acc:p34947]
5001	rap1 gtpase-activating protein 1 (rap1gap). [swissprot;acc:p47736]
5002	g protein-coupled receptor kinase grk6 (ec 2.7.1.-) (g-protein-coupled receptor kinase 6). [swissprot;acc:p43250]
5003	fad synthetase. [refseq;acc:nm_025207]	204.534	204.591	1.00028
5004	thousand and one amino acid protein kinase. [refseq;acc:nm_004783]	208.596	208.556	1.00019
5005	ste20-like kinase; ste2-like kinase. [refseq;acc:nm_016281]
5006	tektin 2 (tektin-t) (testicular tektin b1-like protein). [swissprot;acc:q9uif3]
5007	trinucleotide repeat containing 6; edie; gw182 autoantigen. [refseq;acc:nm_014494]
5008	rb1-inducible coiled coil protein 1. [refseq;acc:nm_014781]
5009	macrophage mannose receptor precursor (mmr) (cd206 antigen). [swissprot;acc:p22897]	205.102	205.132	1.00015
5010	phospholipase a2 receptor 1, 180kda; phospholipase a2 receptor 1, 180kd. [refseq;acc:nm_007366]
5011	serine/threonine-protein kinase nek1 (ec 2.7.1.37) (nima-related protein kinase 1) (ny-ren-55 antigen). [swissprot;acc:q96py6]	205.104	205.135
5012	ganglioside induced differentiation associated protein 2; likely ortholog of mouse ganglioside-induced differentiation-associated-protein 2. [refseq;acc:nm_017686]	192.907	192.879

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.