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

Results: HTML CSV LaTeX

Showing element 2275 to 2324 of 3228 in total

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

description	Rank	red	green	network_comparison
pyrroline 5-carboxylate reductase isoform. [refseq;acc:nm_013328]	1227	172.365	168.219	1.02465
pyrroline-5-carboxylate reductase (ec 1.5.1.2) (p5cr) (p5c reductase). [swissprot;acc:p32322]	1232	172.543	168.417	1.0245
pyruvate carboxylase, mitochondrial precursor (ec 6.4.1.1) (pyruvic carboxylase) (pcb). [swissprot;acc:p11498]	2249	181.091	179.999	1.00607
pyruvate dehydrogenase e1 component alpha subunit, somatic form, mitochondrial precursor (ec 1.2.4.1) (pdhe1-a type i). [swissprot;acc:p08559]	1494	204.133	207.967	1.01878
pyruvate dehydrogenase e1 component alpha subunit, testis-specific form, mitochondrial precursor (ec 1.2.4.1) (pdhe1-a type ii). [swissprot;acc:p29803]	1493	204.146	207.988	1.01882
pyruvate dehydrogenase e1 component beta subunit, mitochondrial precursor (ec 1.2.4.1) (pdhe1-b). [swissprot;acc:p11177]	1483	198.927	202.726	1.0191
pyruvate kinase, m1 isozyme (ec 2.7.1.40) (pyruvate kinase muscle isozyme) (cytosolic thyroid hormone-binding protein) (cthbp) (thbp1). [swissprot;acc:p14618]	930	231.357	239.778	1.0364
quaking isoform 6. [sptrembl;acc:q9p0x9]	1937	218.43	216.279	1.00995
r3h domain (binds single-stranded nucleic acids) containing-like. [refseq;acc:nm_178491]	3132	0.00001	0.00001	1
r3h domain protein 1. [swissprot;acc:q15032]	1573	218.105	214.573	1.01646
rab acceptor 1 (prenylated); prenylated rab acceptor 1. [refseq;acc:nm_006423]	1964	211.633	213.703	1.00978
rab coupling protein; rab-interacting recycling protein; rab effector protein; rab11-family interacting protein 1. [refseq;acc:nm_025151]	1816	220.462	217.926	1.01164
rab gdp dissociation inhibitor alpha (rab gdi alpha) (gdi-1) (xap-4) (oligophrenin 2). [swissprot;acc:p31150]	3119	0.00001	0.00001	1
rab gdp dissociation inhibitor beta (rab gdi beta) (gdi-2). [swissprot;acc:p50395]	3193
rab geranylgeranyltransferase alpha subunit (ec 2.5.1.-) (rab geranyl- geranyltransferase alpha subunit) (rab gg transferase alpha) (rab ggtase alpha). [swissprot;acc:q92696]	3134
rab3a interacting protein (rabin3)-like 1. [refseq;acc:nm_013401]	1889	211.27	209.067	1.01054
rab3a interacting protein isoform alpha 1; rabin3; ssx2 interacting protein. [refseq;acc:nm_022456]	1890	211.314	209.111
rabaptin, rab gtpase binding effector protein 1; rabaptin-5; neurocrescin. [refseq;acc:nm_004703]	2183	218.062	216.624	1.00664
rac gtpase activating protein 1; gtpase activating protein. [refseq;acc:nm_013277]	2070	223.199	225.008	1.0081
rac-alpha serine/threonine kinase (ec 2.7.1.-) (rac-pk-alpha) (protein kinase b) (pkb) (c-akt). [swissprot;acc:p31749]	598	248.463	234.095	1.06138
rac-beta serine/threonine protein kinase (ec 2.7.1.-) (rac-pk-beta) (protein kinase akt-2) (protein kinase b, beta) (pkb beta). [swissprot;acc:p31751]	600
rac-gamma serine/threonine protein kinase (ec 2.7.1.-) (rac-pk-gamma) (protein kinase akt-3) (protein kinase b, gamma) (pkb gamma) (stk-2). [swissprot;acc:q9y243]	599
rad1 homolog isoform 1; exonuclease homolog rad1; cell cycle checkpoint protein rad1 a/b; rad1-like protein; cell cycle checkpoint protein hrad1; dna repair exonuclease (rec1); dna repair protein rad1; rad1-like dna damage checkpoint protein. [refseq;acc:nm_002853]	2195	209.54	208.162	1.00662
rad17 homolog isoform 1; rad17-like protein; cell cycle checkpoint protein (rad17); rf-c activator 1 homolog. [refseq;acc:nm_002873]	2726	221.001	220.927	1.00033
rad50 homolog isoform 1. [refseq;acc:nm_005732]	1312	199.739	204.407	1.02337
rad50-interacting protein 1. [refseq;acc:nm_021930]	11	337	232	1.45259
rad54-like protein; rad54 homolog. [refseq;acc:nm_003579]	2320	219.292	218.218	1.00492
rad9 homolog; cell cycle checkpoint control protein; rad9 homolog (s. pombe). [refseq;acc:nm_004584]	2673	216.372	216.588	1.001
raf proto-oncogene serine/threonine-protein kinase (ec 2.7.1.-) (raf-1) (c-raf). [swissprot;acc:p04049]	958	129.921	134.406	1.03452
ral guanine nucleotide dissociation stimulator (ralgef) (ralgds). [swissprot;acc:q12967]	1007	162.055	156.884	1.03296
ral guanine nucleotide dissociation stimulator-like 1 (ralgds-like 1). [swissprot;acc:q9nzl6]	818	168.592	161.452	1.04422
ral guanine nucleotide dissociation stimulator-like 2 (ralgds-like factor) (ras-associated protein rab2l). [swissprot;acc:o15211]	2678	144.411	144.552	1.00098
ral guanine nucleotide exchange factor ralgps1a. [refseq;acc:nm_014636]	1807	211.102	208.651	1.01175
ral-a exchange factor ralgps2. [refseq;acc:nm_152663]	1808
rala binding protein 1; rala-binding protein. [refseq;acc:nm_006788]	3212	0.00001	0.00001	1
ran binding protein 11. [refseq;acc:nm_016338]	2597	212.711	212.401	1.00146
ran binding protein 3 isoform ranbp3-d; ran-binding protein-3. [refseq;acc:nm_007322]	3202	0.00001	0.00001	1
ran-binding protein 2 (ranbp2) (nuclear pore complex protein nup358) (nucleoporin nup358) (358 kda nucleoporin) (p270). [swissprot;acc:p49792]	2109	219.032	217.47	1.00718
ran-binding protein 2-like 1 isoform 2; sperm membrane protein bs-63; ran-binding protein 2-like 1. [refseq;acc:nm_032260]	2111	219.047	217.511	1.00706
	2113	219.055	217.533	1.007
ran-gtp binding protein (fragment). [sptrembl;acc:o60518]	1476	218.591	214.457	1.01928
rap1 gtpase-activating protein 1 (rap1gap). [swissprot;acc:p47736]	161	249.663	298.263	1.19466
ras gtpase-activating protein ngap (ras protein activator like 1). [swissprot;acc:q9ujf2]	137	350	290	1.2069
ras suppressor protein 1 (rsu-1) (rsp-1). [swissprot;acc:q15404]	1253	219.354	224.7	1.02437
ras-gtpase-activating protein binding protein 1 (gap sh3-domain binding protein 1) (g3bp-1). [swissprot;acc:q13283]	1254
ras-gtpase-activating protein binding protein 2 (gap sh3-domain binding protein 2) (g3bp-2). [swissprot;acc:q9un86]	1255
ras-related c3 botulinum toxin substrate 1 (p21-rac1) (ras-like protein tc25). [swissprot;acc:p15154]	1669	228.496	231.729	1.01415
ras-related c3 botulinum toxin substrate 2 (p21-rac2) (small g protein) (gx). [swissprot;acc:p15153]	1672
ras-related c3 botulinum toxin substrate 3 (p21-rac3). [swissprot;acc:o14658]	1670
ras-related gtp binding a; ras-related gtp-binding protein. [refseq;acc:nm_006570]	140	59	49	1.20408

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.