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

Results: HTML CSV LaTeX

Showing element 6986 to 7035 of 8289 in total

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

Rank	Hugo	description	red	green	network_comparison
3758	MRPL9	60s ribosomal protein l9, mitochondrial precursor (l9mt). [swissprot;acc:q9byd2]	201.668	198.992	1.01345
3759	TMCO1	putative membrane protein. [refseq;acc:nm_019026]
3760	KCNK15	potassium channel subfamily k member 15 (acid-sensitive potassium channel protein task-5) (twik-related acid-sensitive k+ channel 5) (two pore potassium channel kt3.3). [swissprot;acc:q9h427]	205.792	203.06
3761	SERPINI2	serpin i2 precursor (myoepithelium-derived serine protease inhibitor) (pancpin) (protease inhibitor 14) (tsa2004). [swissprot;acc:o75830]	201.668	198.991
3762	USP39	snrnp assembly defective 1 homolog. [refseq;acc:nm_006590]	202.934	200.242	1.01344
3763	NR4A1	orphan nuclear receptor hmr (early response protein nak1) (tr3 orphan receptor). [swissprot;acc:p22736]	197.845	195.224	1.01343
3764	SLC4A10	solute carrier family 4, sodium bicarbonate transporter-like, member 10; solute carrier family 4, sodium bicarbonate cotransporter-like, member 10. [refseq;acc:nm_022058]	204.483	201.775	1.01342
3765	NR4A3	nuclear hormone receptor nor-1 (neuron-derived orphan receptor 1) (mitogen induced nuclear orphan receptor). [swissprot;acc:q92570]	197.848	195.228
3766	SLC4A8	solute carrier family 4, sodium bicarbonate cotransporter, member 8. [refseq;acc:nm_004858]	204.484	201.777
3767	FUT8	alpha-(1,6)-fucosyltransferase (ec 2.4.1.68) (glycoprotein 6-alpha-l- fucosyltransferase) (gdp-fucose--glycoprotein fucosyltransferase) (gdp-l-fuc:n-acetyl-beta-d-glucosaminide alpha1,6-fucosyltransferase) (alpha1-6fuct) (fucosyltransferase 8). [swissprot;acc:q9byc5]	200.573	197.917
3768	no value	dj153g14.2 (possible ca binding protein similar to nefa) (fragment). [sptrembl;acc:q9ujn8]	213.191	216.048	1.0134
3769	RELB	transcription factor relb (i-rel). [swissprot;acc:q01201]	201.68	199.016	1.01339
3770	SALL4	sal-like protein 4 (zinc finger protein sall4). [swissprot;acc:q9ujq4]	204.072	201.375
3771	FTH1	ferritin heavy chain (ferritin h subunit). [swissprot;acc:p02794]	204.05	201.359	1.01336
3772	FMN2	formin 2 (fragments). [swissprot;acc:q9nz56]	203.61	200.926
3773	SCOC	short coiled-coil protein; short coiled coil protein. [refseq;acc:nm_032547]
3774	CENPE	centromeric protein e (cenp-e protein). [swissprot;acc:q02224]
3775	DYNLL2	dynein light chain 2. [refseq;acc:nm_080677]
3776	FIGNL1	fidgetin-like 1. [refseq;acc:nm_022116]	201.671	199.015	1.01335
3777	RPS13	40s ribosomal protein s13. [swissprot;acc:q02546]	201.886	199.227
3778	FTMT	mitochondrial ferritin; ferritin heavy chain-like; ferritin h subunit. [refseq;acc:nm_177478]	204.043	201.357	1.01334
3779	ASPSCR1	alveolar soft part sarcoma chromosome region, candidate 1; aspl protein; renal cell carcinoma gene on chromosome 17; renal cell carcinoma, papillary, 17 gene; aspscr1/tfe3 fusion gene, included. [refseq;acc:nm_024083]	200.614	197.974
3780	CREBL2	camp responsive element binding protein-like 2. [refseq;acc:nm_001310]
3781	RALB	ras-related protein ral-b. [swissprot;acc:p11234]	201.947	199.29	1.01333
3782	SMO	smoothened homolog precursor (smo) (gx protein). [swissprot;acc:q99835]	203.027	200.356
3783	WNT5A	wnt-5a protein precursor. [swissprot;acc:p41221]	201.947	199.29
3784	WNT5B	wnt-5b protein precursor. [swissprot;acc:q9h1j7]
3785	RALA	ras-related protein ral-a. [swissprot;acc:p11233]
3786	RAD9A	rad9 homolog; cell cycle checkpoint control protein; rad9 homolog (s. pombe). [refseq;acc:nm_004584]	198.506	195.896	1.01332
3787	PTPLA	protein tyrosine phosphatase-like, member a; proline instead of catalytic arginine. [refseq;acc:nm_014241]	200.744	198.105
3788	NR4A2	orphan nuclear receptor nurr1 (immediate-early response protein not) (transcriptionally inducible nuclear receptor). [swissprot;acc:p43354]	197.879	195.278
3789	MPHOSPH10	u3 small nucleolar ribonucleoprotein protein mpp10 (m phase phosphoprotein 10). [swissprot;acc:o00566]	202.91	200.242
3790	FTSJ1	putative ribosomal rna methyltransferase 1 (ec 2.1.1.-) (rrna (uridine-2'-o-)-methyltransferase) (jm23 protein). [swissprot;acc:q9uet6]	200.744	198.105
3791	FTHL17	ferritin heavy polypeptide-like 17. [swissprot;acc:q9bxu8]	204.036	201.356	1.01331
3792	SCRIB	scribble. [refseq;acc:nm_015356]	202.759	200.098	1.0133
3793	PPP2R4	protein phosphatase 2a, regulatory subunit b' (pp2a, subunit b', pr53 isoform) (phosphotyrosyl phosphatase activator) (ptpa). [swissprot;acc:q15257]	202.052	199.4
3794	RPS21	40s ribosomal protein s21. [swissprot;acc:p35265]	202.443	199.787	1.01329
3795	SERPINB9	cytoplasmic antiproteinase 3 (cap3) (cap-3) (protease inhibitor 9) (serpin b9). [swissprot;acc:p50453]
3796	no value	maspin precursor (protease inhibitor 5). [swissprot;acc:p36952]
3797	SERPINB10	bomapin (protease inhibitor 10) (serpin b10). [swissprot;acc:p48595]
3798	SERPINB8	plasminogen activator inhibitor-2 precursor (pai-2) (placental plasminogen activator inhibitor) (monocyte arg-serpin) (urokinase inhibitor). [swissprot;acc:p05120]
3799	no value	serpin b11. [swissprot;acc:q96p15]
3800	LRRC1	lap (leucine-rich repeats and pdz) and no pdz protein. [refseq;acc:nm_018214]	202.765	200.106
3801	SERPINB6	placental thrombin inhibitor (cytoplasmic antiproteinase) (cap) (protease inhibitor 6) (pi-6). [swissprot;acc:p35237]	202.443	199.787
3802	no value	cytoplasmic antiproteinase 2 (cap2) (cap-2) (protease inhibitor 8) (serpin b8). [swissprot;acc:p50452]
3803	ARID4A	retinoblastoma-binding protein 1 (rbbp-1). [swissprot;acc:p29374]	213.146	215.978
3804	SERPINB1	leukocyte elastase inhibitor (lei) (monocyte/neutrophil elastase inhibitor) (m/nei) (ei). [swissprot;acc:p30740]	202.443	199.787
3805	BZRAP1	peripheral benzodiazepine receptor-associated protein 1. [refseq;acc:nm_004758]	213.146	215.977	1.01328
3806	DSCAML1	down syndrome cell adhesion molecule like 1; downs syndrome cell adhesion molecule like 1. [refseq;acc:nm_020693]	206.222	208.959	1.01327
3807	DSCAM	down syndrome cell adhesion molecule precursor (chd2). [swissprot;acc:o60469]

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.