Scientific

MK5 Microarray Data

Affected Genes - Ontology Breakdown - Gene Enrichment - Proteome Analysis

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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Click on the attribute name to hide/unhide it. The green arrows can be used to shift columns left/right. Exact word match is written as =..., regular expressions can be matched with ~.... To select all values larger or equal than use >.... This would be <... for values smaller or equal than. To select all values within a specific range use [...,...].
Hugo final measured expected Gene Rank description
Results: HTML CSV LaTeX Showing element 3158 to 3206 of 3206 in total
Hugo
final
measured
expected
Rank
description
ZC3H12A 0.227823074 0.0282774 0.12412 2143
ZC3H12C 0.227823377 0.0218584 0.0959445 2141
ZC3H14 0.344195075 0.200368 0.582135 163 NUCLEAR PROTEIN UKP68. [RefSeq;Acc:NM_024824]
ZCCHC4 0.229451425 0.0584321 0.25466 2069
ZCCHC7 0.223177651 0.0929892 0.41666 2250
ZCCHC8 0.264498255 0.0385694 0.145821 741
ZEB1 0.216721904 0.0329569 0.15207 2456 TRANSCRIPTION FACTOR 8 (NIL-2-A ZINC FINGER PROTEIN) (NEGATIVE REGULATOR OF IL2). [SWISSPROT;Acc:P37275]
ZEB2 0.216721134 0.0271894 0.125458 2457 ZINC FINGER HOMEOBOX PROTEIN 1B (SMAD INTERACTING PROTEIN 1) (SMADIP1) (HRIHFB2411). [SWISSPROT;Acc:O60315]
ZFAND1 0.252073432 0.0370737 0.147075 1081
ZFHX3 0.239052853 0.0721691 0.301896 1640 ALPHA-FETOPROTEIN ENHANCER BINDING PROTEIN (AT MOTIF-BINDING FACTOR) (AT-BINDING TRANSCRIPTION FACTOR 1). [SWISSPROT;Acc:Q15911]
ZFPL1 0.245725029 0.0418885 0.170469 1313 ZINC FINGER PROTEIN-LIKE 1; ZINC-FINGER PROTEIN IN MEN1 REGION. [RefSeq;Acc:NM_006782]
ZIC1 0.269091879 0.272286 1.01187 603 ZINC FINGER PROTEIN ZIC 1 (ZINC FINGER PROTEIN OF THE CEREBELLUM 1). [SWISSPROT;Acc:Q15915]
ZIC2 0.269112703 0.307359 1.14212 599 ZINC FINGER PROTEIN ZIC 2 (ZINC FINGER PROTEIN OF THE CEREBELLUM 2). [SWISSPROT;Acc:O95409]
ZIC3 0.269105031 0.25098 0.932647 600 ZINC FINGER PROTEIN ZIC 3 (ZINC FINGER PROTEIN OF THE CEREBELLUM 3). [SWISSPROT;Acc:O60481]
ZIC4 0.268844618 0.0906044 0.337014 613 ZINC FINGER PROTEIN ZIC 4 (ZINC FINGER PROTEIN OF THE CEREBELLUM 4) (FRAGMENT). [SWISSPROT;Acc:Q8N9L1]
ZMAT2 0.275611646 0.0394844 0.143261 456
ZMIZ1 0.267839193 0.204901 0.765015 649 RETINOIC ACID INDUCED 17; PIAS-LIKE PROTEIN HZIMP10. [RefSeq;Acc:NM_020338]
ZMIZ2 0.267833365 0.170567 0.63684 652
ZMPSTE24 0.21708522 0.205647 0.94731 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 0.26467581 0.0311669 0.117755 731 ZINC FINGER PROTEIN 198 (FUSED IN MYELOPROLIFERATIVE DISORDERS PROTEIN) (REARRANGED IN ATYPICAL MYELOPROLIFERATIVE DISORDER PROTEIN). [SWISSPROT;Acc:Q9UBW7]
ZMYM3 0.264675936 0.030934 0.116875 730 ZINC FINGER PROTEIN 261 (DXS6673E PROTEIN). [SWISSPROT;Acc:Q14202]
ZMYM4 0.264676099 0.0398851 0.150694 727 ZINC FINGER PROTEIN 262; CELL DEATH INHIBITING RNA. [RefSeq;Acc:NM_005095]
ZMYM6 0.264677534 0.0317441 0.119935 720 ZINC FINGER PROTEIN 258. [RefSeq;Acc:NM_145310]
ZMYND11 0.262024728 0.0552487 0.210853 789 ADENOVIRUS 5 E1A-BINDING PROTEIN (BS69 PROTEIN). [SWISSPROT;Acc:Q15326]
ZMYND8 0.261998433 0.0371202 0.141681 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 0.19345792 0.158934 0.821543 2828 ZINC FINGER PROTEIN 174 (AW-1). [SWISSPROT;Acc:Q15697]
ZNF18 0.193515925 0.164415 0.84962 2826 ZINC FINGER PROTEIN 18 (ZINC FINGER PROTEIN KOX11) (FRAGMENT). [SWISSPROT;Acc:P17022]
ZNF207 0.239178691 0.0769103 0.32156 1637 ZINC FINGER PROTEIN 207. [SWISSPROT;Acc:O43670]
ZNF213 0.193535095 0.166266 0.8591 2818 ZINC FINGER PROTEIN 213 (PUTATIVE TRANSCRIPTION FACTOR CR53). [SWISSPROT;Acc:O14771]
ZNF215 0.193516584 0.164486 0.849984 2825 ZINC FINGER PROTEIN 215 (BWSCR2 ASSOCIATED ZINC-FINGER PROTEIN 2) (BAZ 2). [SWISSPROT;Acc:Q9UL58]
ZNF232 0.193531379 0.16591 0.857277 2820 ZINC FINGER PROTEIN 232. [SWISSPROT;Acc:Q9UNY5]
ZNF24 0.193520363 0.164842 0.851807 2823 ZINC FINGER PROTEIN 24 (ZINC FINGER PROTEIN 191) (ZINC FINGER PROTEIN KOX17) (RETINOIC ACID SUPPRESSION PROTEIN A) (RSG-A). [SWISSPROT;Acc:P17028]
ZNF259 0.245085879 0.0726736 0.296523 1356 ZINC-FINGER PROTEIN ZPR1 (ZINC FINGER PROTEIN 259). [SWISSPROT;Acc:O75312]
ZNF274 0.19354132 0.166977 0.862746 2817 ZINC FINGER PROTEIN 274 (ZINC FINGER PROTEIN SP2114) (ZINC FINGER PROTEIN HFB101) (ZINC FINGER PROTEIN ZFP2) (ZF2). [SWISSPROT;Acc:Q96GC6]
ZNF289 0.274303236 0.02648 0.0965355 489 "ZINC FINGER PROTEIN 289, ID1 REGULATED; LIKELY ORTHOLOG OF MOUSE ZFP289. [RefSeq;Acc:NM_032389]"
ZNF394 0.193534676 0.166195 0.858735 2819 ZINC FINGER PROTEIN 99. [RefSeq;Acc:NM_032164]
ZNF444 0.193971485 0.225841 1.1643 2816 ZINC FINGER PROTEIN 444; ENDOTHELIAL ZINC FINGER PROTEIN 2. [RefSeq;Acc:NM_018337]
ZNF449 0.193522393 0.164985 0.852537 2822
ZNF496 0.193516584 0.164486 0.849984 2824
ZNF503 0.269104872 0.0700114 0.260164 601
ZNF547 0.119322081 0.0250043 0.209553 3025 SEDLIN. [SWISSPROT;Acc:O14582]
ZNF593 0.248333929 0.130571 0.525788 1205 ZINC FINGER PROTEIN T86. [SWISSPROT;Acc:O00488]
ZNF622 0.246000406 0.0473076 0.192307 1288 ZINC FINGER-LIKE PROTEIN 9. [RefSeq;Acc:NM_033414]
ZNF703 0.26910439 0.0897926 0.333672 602
ZNHIT3 0.278410061 0.0671887 0.24133 399 THYROID RECEPTOR INTERACTING PROTEIN 3 (TRIP-3) (FRAGMENT). [SWISSPROT;Acc:Q15649]
ZNRD1 0.228266219 0.193407 0.847287 2110 "ZINC RIBBON DOMAIN CONTAINING, 1; TRANSCRIPTION-ASSOCIATED ZINC RIBBON PROTEIN; RNA POLYMERASE I SMALL SPECIFIC SUBUNIT RPA12. [RefSeq;Acc:NM_014596]"
ZRF1 0.242682535 0.0271819 0.112006 1503 ZUOTIN RELATED FACTOR-1 (M-PHASE PHOSPHOPROTEIN 11). [SWISSPROT;Acc:Q99543]
ZSCAN12 0.193530958 0.165839 0.856912 2821 ZINC FINGER PROTEIN 305. [SWISSPROT;Acc:O43309]
ZYG11B 0.213427314 0.0789696 0.370007 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
- http://analysis.yellowcouch.org/