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 Network Type I Analysis

Type 1 network in which we propagated the absolute log regulation ratio abs(log(r/g)). We used the filtered lowest boundary of the confidence interval for the microarray measurement based and used the high confidence interaction map. Because type-I networks tend to favour highly connected proteins we tested a normalisation scheme in which we would run the network once with real values (the measured column) and once with simulated values where each measured point is set to 1 instead of the actual signal (the expected column). Afterwards we divided the measured value by the expected value. This normalisation scheme works to a certain extend but will lead to a variance that is directly related to the connectivity of each protein. In the end we dropped the use of Type-I networks due to the many technical problems they pose.

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Hugo	measured	Gene	expected	final	Rank	description

Results: HTML CSV LaTeX

Showing element 3158 to 3206 of 3206 in total

Hugo	measured	expected	final	Rank	description
ZC3H12A	0.0282774	0.12412	0.227823074	2143
ZC3H12C	0.0218584	0.0959445	0.227823377	2141
ZC3H14	0.200368	0.582135	0.344195075	163	NUCLEAR PROTEIN UKP68. [RefSeq;Acc:NM_024824]
ZCCHC4	0.0584321	0.25466	0.229451425	2069
ZCCHC7	0.0929892	0.41666	0.223177651	2250
ZCCHC8	0.0385694	0.145821	0.264498255	741
ZEB1	0.0329569	0.15207	0.216721904	2456	TRANSCRIPTION FACTOR 8 (NIL-2-A ZINC FINGER PROTEIN) (NEGATIVE REGULATOR OF IL2). [SWISSPROT;Acc:P37275]
ZEB2	0.0271894	0.125458	0.216721134	2457	ZINC FINGER HOMEOBOX PROTEIN 1B (SMAD INTERACTING PROTEIN 1) (SMADIP1) (HRIHFB2411). [SWISSPROT;Acc:O60315]
ZFAND1	0.0370737	0.147075	0.252073432	1081
ZFHX3	0.0721691	0.301896	0.239052853	1640	ALPHA-FETOPROTEIN ENHANCER BINDING PROTEIN (AT MOTIF-BINDING FACTOR) (AT-BINDING TRANSCRIPTION FACTOR 1). [SWISSPROT;Acc:Q15911]
ZFPL1	0.0418885	0.170469	0.245725029	1313	ZINC FINGER PROTEIN-LIKE 1; ZINC-FINGER PROTEIN IN MEN1 REGION. [RefSeq;Acc:NM_006782]
ZIC1	0.272286	1.01187	0.269091879	603	ZINC FINGER PROTEIN ZIC 1 (ZINC FINGER PROTEIN OF THE CEREBELLUM 1). [SWISSPROT;Acc:Q15915]
ZIC2	0.307359	1.14212	0.269112703	599	ZINC FINGER PROTEIN ZIC 2 (ZINC FINGER PROTEIN OF THE CEREBELLUM 2). [SWISSPROT;Acc:O95409]
ZIC3	0.25098	0.932647	0.269105031	600	ZINC FINGER PROTEIN ZIC 3 (ZINC FINGER PROTEIN OF THE CEREBELLUM 3). [SWISSPROT;Acc:O60481]
ZIC4	0.0906044	0.337014	0.268844618	613	ZINC FINGER PROTEIN ZIC 4 (ZINC FINGER PROTEIN OF THE CEREBELLUM 4) (FRAGMENT). [SWISSPROT;Acc:Q8N9L1]
ZMAT2	0.0394844	0.143261	0.275611646	456
ZMIZ1	0.204901	0.765015	0.267839193	649	RETINOIC ACID INDUCED 17; PIAS-LIKE PROTEIN HZIMP10. [RefSeq;Acc:NM_020338]
ZMIZ2	0.170567	0.63684	0.267833365	652
ZMPSTE24	0.205647	0.94731	0.21708522	2448	CAAX PRENYL PROTEASE 1 HOMOLOG (EC 3.4.24.-) (PRENYL PROTEIN-SPECIFIC ENDOPROTEASE 1) (FARNESYLATED-PROTEINS CONVERTING ENZYME 1) (FACE-1) (ZINC METALLOPROTEINASE STE24 HOMOLOG). [SWISSPROT;Acc:O75844]
ZMYM2	0.0311669	0.117755	0.26467581	731	ZINC FINGER PROTEIN 198 (FUSED IN MYELOPROLIFERATIVE DISORDERS PROTEIN) (REARRANGED IN ATYPICAL MYELOPROLIFERATIVE DISORDER PROTEIN). [SWISSPROT;Acc:Q9UBW7]
ZMYM3	0.030934	0.116875	0.264675936	730	ZINC FINGER PROTEIN 261 (DXS6673E PROTEIN). [SWISSPROT;Acc:Q14202]
ZMYM4	0.0398851	0.150694	0.264676099	727	ZINC FINGER PROTEIN 262; CELL DEATH INHIBITING RNA. [RefSeq;Acc:NM_005095]
ZMYM6	0.0317441	0.119935	0.264677534	720	ZINC FINGER PROTEIN 258. [RefSeq;Acc:NM_145310]
ZMYND11	0.0552487	0.210853	0.262024728	789	ADENOVIRUS 5 E1A-BINDING PROTEIN (BS69 PROTEIN). [SWISSPROT;Acc:Q15326]
ZMYND8	0.0371202	0.141681	0.261998433	809	PROTEIN KINASE C BINDING PROTEIN 1 (RACK7) (CUTANEOUS T-CELL LYMPHOMA ASSOCIATED ANTIGEN SE14-3) (CTCL TUMOR ANTIGEN SE14-3) (ZINC FINGER MYND DOMAIN CONTAINING PROTEIN 8). [SWISSPROT;Acc:Q9ULU4]
ZNF174	0.158934	0.821543	0.19345792	2828	ZINC FINGER PROTEIN 174 (AW-1). [SWISSPROT;Acc:Q15697]
ZNF18	0.164415	0.84962	0.193515925	2826	ZINC FINGER PROTEIN 18 (ZINC FINGER PROTEIN KOX11) (FRAGMENT). [SWISSPROT;Acc:P17022]
ZNF207	0.0769103	0.32156	0.239178691	1637	ZINC FINGER PROTEIN 207. [SWISSPROT;Acc:O43670]
ZNF213	0.166266	0.8591	0.193535095	2818	ZINC FINGER PROTEIN 213 (PUTATIVE TRANSCRIPTION FACTOR CR53). [SWISSPROT;Acc:O14771]
ZNF215	0.164486	0.849984	0.193516584	2825	ZINC FINGER PROTEIN 215 (BWSCR2 ASSOCIATED ZINC-FINGER PROTEIN 2) (BAZ 2). [SWISSPROT;Acc:Q9UL58]
ZNF232	0.16591	0.857277	0.193531379	2820	ZINC FINGER PROTEIN 232. [SWISSPROT;Acc:Q9UNY5]
ZNF24	0.164842	0.851807	0.193520363	2823	ZINC FINGER PROTEIN 24 (ZINC FINGER PROTEIN 191) (ZINC FINGER PROTEIN KOX17) (RETINOIC ACID SUPPRESSION PROTEIN A) (RSG-A). [SWISSPROT;Acc:P17028]
ZNF259	0.0726736	0.296523	0.245085879	1356	ZINC-FINGER PROTEIN ZPR1 (ZINC FINGER PROTEIN 259). [SWISSPROT;Acc:O75312]
ZNF274	0.166977	0.862746	0.19354132	2817	ZINC FINGER PROTEIN 274 (ZINC FINGER PROTEIN SP2114) (ZINC FINGER PROTEIN HFB101) (ZINC FINGER PROTEIN ZFP2) (ZF2). [SWISSPROT;Acc:Q96GC6]
ZNF289	0.02648	0.0965355	0.274303236	489	"ZINC FINGER PROTEIN 289, ID1 REGULATED; LIKELY ORTHOLOG OF MOUSE ZFP289. [RefSeq;Acc:NM_032389]"
ZNF394	0.166195	0.858735	0.193534676	2819	ZINC FINGER PROTEIN 99. [RefSeq;Acc:NM_032164]
ZNF444	0.225841	1.1643	0.193971485	2816	ZINC FINGER PROTEIN 444; ENDOTHELIAL ZINC FINGER PROTEIN 2. [RefSeq;Acc:NM_018337]
ZNF449	0.164985	0.852537	0.193522393	2822
ZNF496	0.164486	0.849984	0.193516584	2824
ZNF503	0.0700114	0.260164	0.269104872	601
ZNF547	0.0250043	0.209553	0.119322081	3025	SEDLIN. [SWISSPROT;Acc:O14582]
ZNF593	0.130571	0.525788	0.248333929	1205	ZINC FINGER PROTEIN T86. [SWISSPROT;Acc:O00488]
ZNF622	0.0473076	0.192307	0.246000406	1288	ZINC FINGER-LIKE PROTEIN 9. [RefSeq;Acc:NM_033414]
ZNF703	0.0897926	0.333672	0.26910439	602
ZNHIT3	0.0671887	0.24133	0.278410061	399	THYROID RECEPTOR INTERACTING PROTEIN 3 (TRIP-3) (FRAGMENT). [SWISSPROT;Acc:Q15649]
ZNRD1	0.193407	0.847287	0.228266219	2110	"ZINC RIBBON DOMAIN CONTAINING, 1; TRANSCRIPTION-ASSOCIATED ZINC RIBBON PROTEIN; RNA POLYMERASE I SMALL SPECIFIC SUBUNIT RPA12. [RefSeq;Acc:NM_014596]"
ZRF1	0.0271819	0.112006	0.242682535	1503	ZUOTIN RELATED FACTOR-1 (M-PHASE PHOSPHOPROTEIN 11). [SWISSPROT;Acc:Q99543]
ZSCAN12	0.165839	0.856912	0.193530958	2821	ZINC FINGER PROTEIN 305. [SWISSPROT;Acc:O43309]
ZYG11B	0.0789696	0.370007	0.213427314	2567

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 bloody hugo identifier as demanded by the BMC Bioinformatics idiots