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.


Navigation/Query Panel:
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 measured Gene final expected description Rank
Results: HTML CSV LaTeX Showing element 3158 to 3206 of 3206 in total
Hugo
measured
final
expected
description
Rank
ZC3H12A 0.0282774 0.227823074 0.12412 2143
ZC3H12C 0.0218584 0.227823377 0.0959445 2141
ZC3H14 0.200368 0.344195075 0.582135 NUCLEAR PROTEIN UKP68. [RefSeq;Acc:NM_024824] 163
ZCCHC4 0.0584321 0.229451425 0.25466 2069
ZCCHC7 0.0929892 0.223177651 0.41666 2250
ZCCHC8 0.0385694 0.264498255 0.145821 741
ZEB1 0.0329569 0.216721904 0.15207 TRANSCRIPTION FACTOR 8 (NIL-2-A ZINC FINGER PROTEIN) (NEGATIVE REGULATOR OF IL2). [SWISSPROT;Acc:P37275] 2456
ZEB2 0.0271894 0.216721134 0.125458 ZINC FINGER HOMEOBOX PROTEIN 1B (SMAD INTERACTING PROTEIN 1) (SMADIP1) (HRIHFB2411). [SWISSPROT;Acc:O60315] 2457
ZFAND1 0.0370737 0.252073432 0.147075 1081
ZFHX3 0.0721691 0.239052853 0.301896 ALPHA-FETOPROTEIN ENHANCER BINDING PROTEIN (AT MOTIF-BINDING FACTOR) (AT-BINDING TRANSCRIPTION FACTOR 1). [SWISSPROT;Acc:Q15911] 1640
ZFPL1 0.0418885 0.245725029 0.170469 ZINC FINGER PROTEIN-LIKE 1; ZINC-FINGER PROTEIN IN MEN1 REGION. [RefSeq;Acc:NM_006782] 1313
ZIC1 0.272286 0.269091879 1.01187 ZINC FINGER PROTEIN ZIC 1 (ZINC FINGER PROTEIN OF THE CEREBELLUM 1). [SWISSPROT;Acc:Q15915] 603
ZIC2 0.307359 0.269112703 1.14212 ZINC FINGER PROTEIN ZIC 2 (ZINC FINGER PROTEIN OF THE CEREBELLUM 2). [SWISSPROT;Acc:O95409] 599
ZIC3 0.25098 0.269105031 0.932647 ZINC FINGER PROTEIN ZIC 3 (ZINC FINGER PROTEIN OF THE CEREBELLUM 3). [SWISSPROT;Acc:O60481] 600
ZIC4 0.0906044 0.268844618 0.337014 ZINC FINGER PROTEIN ZIC 4 (ZINC FINGER PROTEIN OF THE CEREBELLUM 4) (FRAGMENT). [SWISSPROT;Acc:Q8N9L1] 613
ZMAT2 0.0394844 0.275611646 0.143261 456
ZMIZ1 0.204901 0.267839193 0.765015 RETINOIC ACID INDUCED 17; PIAS-LIKE PROTEIN HZIMP10. [RefSeq;Acc:NM_020338] 649
ZMIZ2 0.170567 0.267833365 0.63684 652
ZMPSTE24 0.205647 0.21708522 0.94731 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] 2448
ZMYM2 0.0311669 0.26467581 0.117755 ZINC FINGER PROTEIN 198 (FUSED IN MYELOPROLIFERATIVE DISORDERS PROTEIN) (REARRANGED IN ATYPICAL MYELOPROLIFERATIVE DISORDER PROTEIN). [SWISSPROT;Acc:Q9UBW7] 731
ZMYM3 0.030934 0.264675936 0.116875 ZINC FINGER PROTEIN 261 (DXS6673E PROTEIN). [SWISSPROT;Acc:Q14202] 730
ZMYM4 0.0398851 0.264676099 0.150694 ZINC FINGER PROTEIN 262; CELL DEATH INHIBITING RNA. [RefSeq;Acc:NM_005095] 727
ZMYM6 0.0317441 0.264677534 0.119935 ZINC FINGER PROTEIN 258. [RefSeq;Acc:NM_145310] 720
ZMYND11 0.0552487 0.262024728 0.210853 ADENOVIRUS 5 E1A-BINDING PROTEIN (BS69 PROTEIN). [SWISSPROT;Acc:Q15326] 789
ZMYND8 0.0371202 0.261998433 0.141681 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] 809
ZNF174 0.158934 0.19345792 0.821543 ZINC FINGER PROTEIN 174 (AW-1). [SWISSPROT;Acc:Q15697] 2828
ZNF18 0.164415 0.193515925 0.84962 ZINC FINGER PROTEIN 18 (ZINC FINGER PROTEIN KOX11) (FRAGMENT). [SWISSPROT;Acc:P17022] 2826
ZNF207 0.0769103 0.239178691 0.32156 ZINC FINGER PROTEIN 207. [SWISSPROT;Acc:O43670] 1637
ZNF213 0.166266 0.193535095 0.8591 ZINC FINGER PROTEIN 213 (PUTATIVE TRANSCRIPTION FACTOR CR53). [SWISSPROT;Acc:O14771] 2818
ZNF215 0.164486 0.193516584 0.849984 ZINC FINGER PROTEIN 215 (BWSCR2 ASSOCIATED ZINC-FINGER PROTEIN 2) (BAZ 2). [SWISSPROT;Acc:Q9UL58] 2825
ZNF232 0.16591 0.193531379 0.857277 ZINC FINGER PROTEIN 232. [SWISSPROT;Acc:Q9UNY5] 2820
ZNF24 0.164842 0.193520363 0.851807 ZINC FINGER PROTEIN 24 (ZINC FINGER PROTEIN 191) (ZINC FINGER PROTEIN KOX17) (RETINOIC ACID SUPPRESSION PROTEIN A) (RSG-A). [SWISSPROT;Acc:P17028] 2823
ZNF259 0.0726736 0.245085879 0.296523 ZINC-FINGER PROTEIN ZPR1 (ZINC FINGER PROTEIN 259). [SWISSPROT;Acc:O75312] 1356
ZNF274 0.166977 0.19354132 0.862746 ZINC FINGER PROTEIN 274 (ZINC FINGER PROTEIN SP2114) (ZINC FINGER PROTEIN HFB101) (ZINC FINGER PROTEIN ZFP2) (ZF2). [SWISSPROT;Acc:Q96GC6] 2817
ZNF289 0.02648 0.274303236 0.0965355 "ZINC FINGER PROTEIN 289, ID1 REGULATED; LIKELY ORTHOLOG OF MOUSE ZFP289. [RefSeq;Acc:NM_032389]" 489
ZNF394 0.166195 0.193534676 0.858735 ZINC FINGER PROTEIN 99. [RefSeq;Acc:NM_032164] 2819
ZNF444 0.225841 0.193971485 1.1643 ZINC FINGER PROTEIN 444; ENDOTHELIAL ZINC FINGER PROTEIN 2. [RefSeq;Acc:NM_018337] 2816
ZNF449 0.164985 0.193522393 0.852537 2822
ZNF496 0.164486 0.193516584 0.849984 2824
ZNF503 0.0700114 0.269104872 0.260164 601
ZNF547 0.0250043 0.119322081 0.209553 SEDLIN. [SWISSPROT;Acc:O14582] 3025
ZNF593 0.130571 0.248333929 0.525788 ZINC FINGER PROTEIN T86. [SWISSPROT;Acc:O00488] 1205
ZNF622 0.0473076 0.246000406 0.192307 ZINC FINGER-LIKE PROTEIN 9. [RefSeq;Acc:NM_033414] 1288
ZNF703 0.0897926 0.26910439 0.333672 602
ZNHIT3 0.0671887 0.278410061 0.24133 THYROID RECEPTOR INTERACTING PROTEIN 3 (TRIP-3) (FRAGMENT). [SWISSPROT;Acc:Q15649] 399
ZNRD1 0.193407 0.228266219 0.847287 "ZINC RIBBON DOMAIN CONTAINING, 1; TRANSCRIPTION-ASSOCIATED ZINC RIBBON PROTEIN; RNA POLYMERASE I SMALL SPECIFIC SUBUNIT RPA12. [RefSeq;Acc:NM_014596]" 2110
ZRF1 0.0271819 0.242682535 0.112006 ZUOTIN RELATED FACTOR-1 (M-PHASE PHOSPHOPROTEIN 11). [SWISSPROT;Acc:Q99543] 1503
ZSCAN12 0.165839 0.193530958 0.856912 ZINC FINGER PROTEIN 305. [SWISSPROT;Acc:O43309] 2821
ZYG11B 0.0789696 0.213427314 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/