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:
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description Rank Gene measured expected final Hugo
Results: HTML CSV LaTeX Showing element 1551 to 1600 of 3206 in total
description
Rank
measured
expected
final
Hugo
ELKS PROTEIN. [RefSeq;Acc:NM_015064] 1702 0.0412444 0.173407 0.237847376 ERC1
ELONGATION FACTOR 1-ALPHA 1 (EF-1-ALPHA-1) (ELONGATION FACTOR 1 A-1) (EEF1A-1) (ELONGATION FACTOR TU) (EF-TU). [SWISSPROT;Acc:P04720] 1358 0.14659 0.598119 0.245085008 EEF1AL3
ELONGATION FACTOR 1-ALPHA 2 (EF-1-ALPHA-2) (ELONGATION FACTOR 1 A-2) (EEF1A-2) (STATIN S1). [SWISSPROT;Acc:Q05639] 1357 0.145347 0.593047 0.245085128 EEF1A2
ELONGATION FACTOR 2 (EF-2). [SWISSPROT;Acc:P13639] 2558 0.432107 2.01624 0.214313276 EEF2
ELONGATION OF VERY LONG CHAIN FATTY ACIDS PROTEIN 1 (CGI-88). [SWISSPROT;Acc:Q9BW60] 334 0.0756863 0.265419 0.285157807 ELOVL1
ELONGATION PROTEIN 4 HOMOLOG; PAX6 NEIGHBOR GENE; CHROMOSOME 11 OPEN READING FRAME 19. [RefSeq;Acc:NM_019040] 349 0.135144 0.478436 0.282470383 ELP4
ENDO-BETA-N-ACETYLGLUCOSAMINIDASE. [RefSeq;Acc:NM_022759] 3004 0.0444453 0.352603 0.126049126 no value
ENDOTHELIAL-DERIVED GENE 1. [RefSeq;Acc:NM_025205] 1900 0.0600275 0.258242 0.232446697 MED28
ENHANCER OF FILAMENTATION 1 (HEF1) (CRK-ASSOCIATED SUBSTRATE-RELATED PROTEIN) (CAS-L) (CASL) (PP105) (NEURAL PRECURSOR CELL EXPRESSED DEVELOPMENTALLY DOWN-REGULATED 9). [SWISSPROT;Acc:Q14511] 192 0.133951 0.410433 0.326365083 NEDD9
ENHANCER OF RUDIMENTARY HOMOLOG. [SWISSPROT;Acc:Q14259] 1326 0.271803 1.10704 0.245522294 ERH
ENIGMA PROTEIN; LIM DOMAIN PROTEIN. [RefSeq;Acc:NM_005451] 504 0.0286746 0.104626 0.274067631 no value
ENTEROPEPTIDASE PRECURSOR (EC 3.4.21.9) (ENTEROKINASE). [SWISSPROT;Acc:P98073] 276 0.0355659 0.116699 0.304766108 PRSS7
ENTHOPROTIN; EPSIN 4; CLATHRIN INTERACTING PROTEIN LOCALIZED IN THE TRANS-GOLGI REGION. [RefSeq;Acc:NM_014666] 1431 0.086609 0.355321 0.24374861 no value
EPIDERMAL GROWTH FACTOR RECEPTOR KINASE SUBSTRATE EPS8. [SWISSPROT;Acc:Q12929] 700 0.101882 0.383993 0.265322545 EPS8
EPIDERMAL GROWTH FACTOR RECEPTOR PATHWAY SUBSTRATE 8-LIKE PROTEIN 1 ISOFORM C; EPIDERMAL GROWTH FACTOR RECEPTOR PATHWAY SUBSTRATE 8-RELATED PROTEIN 1; EPS8-RELATED PROTEIN 1. [RefSeq;Acc:NM_139204] 702 0.0987306 0.372159 0.265291448 EPS8L1
EPIDERMAL GROWTH FACTOR RECEPTOR PATHWAY SUBSTRATE 8-LIKE PROTEIN 2; EPS8-RELATED PROTEIN 2; EPIDERMAL GROWTH FACTOR RECEPTOR PATHWAY SUBSTRATE 8-RELATED PROTEIN 2. [RefSeq;Acc:NM_022772] 697 0.128497 0.483922 0.265532462 EPS8L2
EPIDERMAL GROWTH FACTOR RECEPTOR PRECURSOR (EC 2.7.1.112) (RECEPTOR PROTEIN-TYROSINE KINASE ERBB-1). [SWISSPROT;Acc:P00533] 1492 0.0818867 0.337266 0.242795598 EGFR
EPIDIDYMAL SECRETORY PROTEIN E1 PRECURSOR (NIEMANN-PICK DISEASE TYPE C2 PROTEIN) (EPI-1) (HE1) (EPIDIDYMAL SECRETORY PROTEIN 14.6) (ESP14.6). [SWISSPROT;Acc:Q15668] 272 0.115432 0.377878 0.305474254 NPC2
EPITHELIAL-CADHERIN PRECURSOR (E-CADHERIN) (UVOMORULIN) (CADHERIN-1) (CAM 120/80). [SWISSPROT;Acc:P12830] 1936 1.2328 5.32089 0.231690563 CDH1
EPOXIDE HYDROLASE 1 (EC 3.3.2.3) (MICROSOMAL EPOXIDE HYDROLASE) (EPOXIDE HYDRATASE). [SWISSPROT;Acc:P07099] 1984 0.160147 0.693413 0.230954712 EPHX1
EPSIN 1; EH DOMAIN-BINDING MITOTIC PHOSPHOPROTEIN. [RefSeq;Acc:NM_013333] 1279 0.0423484 0.171872 0.246394992 EPN1
EPSIN 2 ISOFORM B; EPS15 BINDING PROTEIN. [RefSeq;Acc:NM_014964] 1184 0.0512587 0.206095 0.248713943 EPN2
EPSIN 3. [RefSeq;Acc:NM_017957] 1404 0.0468234 0.191876 0.244029477 EPN3
ERO1-LIKE. [RefSeq;Acc:NM_014584] 127 0.0588477 0.165745 0.355049624 no value
ERYTHROID DIFFERENTIATION AND DENUCLEATION FACTOR 1. [SWISSPROT;Acc:O60584] 749 0.0317812 0.120157 0.264497283 SLMO1
ESPIN. [RefSeq;Acc:NM_031475] 2515 0.0601277 0.279967 0.214767098 ESPNP
ESTERASE D (EC 3.1.1.1). [SWISSPROT;Acc:P10768] 2620 0.025126 0.119364 0.210498978 ESD
ESTRADIOL 17 BETA-DEHYDROGENASE 1 (EC 1.1.1.62) (17-BETA-HSD 1) (PLACENTAL 17-BETA-HYDROXYSTEROID DEHYDROGENASE) (20 ALPHA- HYDROXYSTEROID DEHYDROGENASE) (20-ALPHA-HSD) (E2DH). [SWISSPROT;Acc:P14061] 1781 0.0258082 0.109656 0.235356022 HSD17B1
ESTRADIOL 17 BETA-DEHYDROGENASE 4 (EC 1.1.1.62) (17-BETA-HSD 4) (17-BETA-HYDROXYSTEROID DEHYDROGENASE 4). [SWISSPROT;Acc:P51659] 2765 0.284553 1.40784 0.202120269 HSD17B4
ESTROGEN-RELATED RECEPTOR GAMMA (ESTROGEN RECEPTOR RELATED PROTEIN 3) (ERR GAMMA-2). [SWISSPROT;Acc:O75454] 2698 0.151787 0.730409 0.207810966 no value
ETHANOLAMINE KINASE (EC 2.7.1.82) (EKI). [SWISSPROT;Acc:Q9HBU6] 1177 0.0730322 0.292836 0.249396249 ETNK1
ETHANOLAMINE KINASE-LIKE PROTEIN EKI2 (FLJ10761). [SWISSPROT;Acc:Q9NVF9] 1172 0.0576807 0.231281 0.249396621 ETNK2
ETHANOLAMINE-PHOSPHATE CYTIDYLYLTRANSFERASE (EC 2.7.7.14) (PHOSPHORYLETHANOLAMINE TRANSFERASE) (CTP:PHOSPHOETHANOLAMINE CYTIDYLYLTRANSFERASE). [SWISSPROT;Acc:Q99447] 816 0.278946 1.06742 0.261327313 PCYT2
EUKARYOTIC PEPTIDE CHAIN RELEASE FACTOR SUBUNIT 1 (ERF1) (EUKARYOTIC RELEASE FACTOR 1) (TB3-1) (C11 PROTEIN). [SWISSPROT;Acc:P46055] 967 0.100509 0.39329 0.255559511 ETF1
EUKARYOTIC TRANSLATION INITIATION FACTOR 2 SUBUNIT 1 (EUKARYOTIC TRANSLATION INITIATION FACTOR 2 ALPHA SUBUNIT) (EIF-2-ALPHA) (EIF- 2ALPHA) (EIF-2A). [SWISSPROT;Acc:P05198] 2007 0.761536 3.30114 0.230688792 EIF2S1
EUKARYOTIC TRANSLATION INITIATION FACTOR 2 SUBUNIT 2 (EUKARYOTIC TRANSLATION INITIATION FACTOR 2 BETA SUBUNIT) (EIF-2-BETA). [SWISSPROT;Acc:P20042] 1403 0.291311 1.19358 0.244064914 EIF2S2
EUKARYOTIC TRANSLATION INITIATION FACTOR 2 SUBUNIT 3 (EUKARYOTIC TRANSLATION INITIATION FACTOR 2 GAMMA SUBUNIT) (EIF-2-GAMMA). [SWISSPROT;Acc:P41091] 1397 0.361623 1.48057 0.244245797 EIF2S3
EUKARYOTIC TRANSLATION INITIATION FACTOR 3 SUBUNIT 10 (EIF-3 THETA) (EIF3 P167) (EIF3 P180) (EIF3 P185) (EIF3A). [SWISSPROT;Acc:Q14152] 219 0.194219 0.608459 0.319198171 EIF3A
EUKARYOTIC TRANSLATION INITIATION FACTOR 3 SUBUNIT 11 (EIF-3 P25) (EIF3K) (MUSCLE SPECIFIC GENE M9 PROTEIN) (PTD001) (HSPC029) (ARG134). [SWISSPROT;Acc:Q9UBQ5] 746 0.216085 0.816964 0.264497579 EIF3K
EUKARYOTIC TRANSLATION INITIATION FACTOR 3 SUBUNIT 2 (EIF-3 BETA) (EIF3 P36) (EIF3I) (TGF-BETA RECEPTOR INTERACTING PROTEIN 1) (TRIP-1). [SWISSPROT;Acc:Q13347] 181 0.336662 0.99966 0.336776504 EIF3I
EUKARYOTIC TRANSLATION INITIATION FACTOR 3 SUBUNIT 4 (EIF-3 DELTA) (EIF3 P44) (EIF-3 RNA-BINDING SUBUNIT) (EIF3 P42) (EIF3G). [SWISSPROT;Acc:O75821] 220 0.194219 0.608459 0.319198171 EIF3G
EUKARYOTIC TRANSLATION INITIATION FACTOR 3 SUBUNIT 6 INTERACTING PROTEIN (HSPC021/HSPC025). [SWISSPROT;Acc:Q9Y262] 750 0.115708 0.437464 0.264497193 EIF3EIP
EUKARYOTIC TRANSLATION INITIATION FACTOR 3 SUBUNIT 7 (EIF-3 ZETA) (EIF3 P66) (EIF3D). [SWISSPROT;Acc:O15371] 503 0.367035 1.33921 0.274068294 EIF3D
EUKARYOTIC TRANSLATION INITIATION FACTOR 3 SUBUNIT 8 (EIF3 P110) (EIF3C). [SWISSPROT;Acc:Q99613] 266 0.419259 1.36159 0.307918683 EIF3C
EUKARYOTIC TRANSLATION INITIATION FACTOR 3 SUBUNIT 9 (EIF-3 ETA) (EIF3 P116) (EIF3 P110) (EIF3B). [SWISSPROT;Acc:P55884] 258 0.416665 1.3435 0.310133978 EIF3B
EUKARYOTIC TRANSLATION INITIATION FACTOR 4 GAMMA (EIF-4-GAMMA) (EIF- 4G) (EIF4G) (P220). [SWISSPROT;Acc:Q04637] 265 0.856237 2.77604 0.308438279 EIF4G1
EUKARYOTIC TRANSLATION INITIATION FACTOR 4E (EIF-4E) (EIF4E) (MRNA CAP-BINDING PROTEIN) (EIF-4F 25 KDA SUBUNIT). [SWISSPROT;Acc:P06730] 655 0.173445 0.648176 0.267589358 EIF4E
EUKARYOTIC TRANSLATION INITIATION FACTOR 5 (EIF-5). [SWISSPROT;Acc:P55010] 84 0.375556 0.956345 0.392699287 EIF5
EUKARYOTIC TRANSLATION INITIATION FACTOR 5A (EIF-5A) (EIF-4D) (REV- BINDING FACTOR). [SWISSPROT;Acc:P10159] 1586 0.376553 1.56403 0.24075817 EIF5AP1
EUKARYOTIC TRANSLATION INITIATION FACTOR 6 (EIF-6) (B4 INTEGRIN INTERACTOR) (CAB) (P27(BBP)) (B(2)GCN HOMOLOG). [SWISSPROT;Acc:P56537] 1530 0.850503 3.51033 0.242285768 EIF6

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/