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 Analysis - Divided Values

Type II network, divided values. Interestingly most of the proteins in the first 100 positions in this table would occur in the divided ranks table between position 100 and 200, indicating a difference in emphasis between the two simulations but not in the overall function. The fully annotated table, include Ensembl gene identifiers and network values can be found in the supplementary data.


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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 [...,...].
Rank Gene Hugo Value Type description Network Comparison Type Interaction Map Filtered red green network_comparison
Results: HTML CSV LaTeX Showing element 2877 to 2926 of 12912 in total
Network Comparison Type  : Divided
Interaction Map  : High confidence
Filtered  : 1
Rank
Hugo
Value Type
description
red
green
network_comparison
720 ATP6V1G1 Squared vacuolar atp synthase subunit g 1 (ec 3.6.3.14) (v-atpase g subunit 1) (vacuolar proton pump g subunit 1) (v-atpase 13 kda subunit 1) (vacuolar atp synthase subunit m16). [swissprot;acc:o75348] 25911.5 30281.9 1.16867
CCDC22 Rooted jm1 protein. [refseq;acc:nm_014008] 61.5849 65.9155 1.07032
CPXM1 Measured potential carboxypeptidase x precursor (ec 3.4.17.-) (metallocarboxypeptidase cpx-1). [swissprot;acc:q96sm3] 6593.17 7364.55 1.117
RPLP2 Ranked 60s acidic ribosomal protein p2. [swissprot;acc:p05387] 231.92 244.435 1.05396
721 ATP6V1E1 Squared vacuolar atp synthase subunit e (ec 3.6.3.14) (v-atpase e subunit) (vacuolar proton pump e subunit) (v-atpase 31 kda subunit) (p31). [swissprot;acc:p36543] 25911.7 30282.1 1.16867
EXOC5 Ranked exocyst complex component sec10 (hsec10). [swissprot;acc:o00471] 214.765 203.8 1.0538
PPIL4 Rooted peptidylprolyl isomerase-like 4; cyclophilin-type peptidyl-prolyl cis-trans isomerase; ppiase; serologically defined breast cancer antigen ny-br-18. [refseq;acc:nm_139126] 60.8463 65.123 1.07029
STX7 Measured syntaxin 7. [swissprot;acc:o15400] 5580.97 6233.52 1.11692
722 DYNC1I1 Rooted dynein intermediate chain 1, cytosolic (dh ic-1) (cytoplasmic dynein intermediate chain 1). [swissprot;acc:o14576] 58.4551 62.5601 1.07022
GDAP1L1 Squared ganglioside-induced differentiation-associated protein 1-like 1. [refseq;acc:nm_024034] 25911.7 30282.1 1.16867
HARS2 Measured histidyl-trna synthetase homolog (ec 6.1.1.21) (histidine--trna ligase homolog) (hisrs). [swissprot;acc:p49590] 8061.05 9002.33 1.11677
TREH Ranked trehalase precursor (ec 3.2.1.28) (alpha,alpha-trehalase) (alpha,alpha-trehalose glucohydrolase). [swissprot;acc:o43280] 217.952 206.902 1.05341
723 no value histone h3.3 (h3.a) (h3.b) (h3.3q). [swissprot;acc:p06351] 244.842 232.577 1.05274
DDX39 Squared dead (asp-glu-ala-asp) box polypeptide 39 isoform 1; nuclear rna helicase, decd variant of dead box family. [refseq;acc:nm_005804] 25911.5 30281.9 1.16867
HARS Measured histidyl-trna synthetase (ec 6.1.1.21) (histidine--trna ligase) (hisrs). [swissprot;acc:p12081] 8056.09 8996.46 1.11673
POLR2E Rooted dna-directed rna polymerase ii 23 kda polypeptide (ec 2.7.7.6) (rpb25) (xap4) (rpb5) (rpabc1). [swissprot;acc:p19388] 51.7007 48.3103 1.07018
724 no value Ranked dj1099d15.1 (putative dnaj protein). [sptrembl;acc:q9h4j9] 244.842 232.577 1.05274
FARSA Measured phenylalanyl-trna synthetase alpha chain (ec 6.1.1.20) (phenylalanine- -trna ligase alpha chain) (phers) (cml33). [swissprot;acc:q9y285] 5384.41 6012.82 1.11671
GDAP1 Squared ganglioside-induced differentiation-associated protein 1. [refseq;acc:nm_018972] 25911.7 30282.1 1.16867
STX12 Rooted syntaxin 12. [refseq;acc:nm_177424] 61.3557 65.66 1.07015
725 ATP6V1D Squared vacuolar atp synthase subunit d (ec 3.6.3.14) (v-atpase d subunit) (vacuolar proton pump d subunit) (v-atpase 28 kda accessory protein). [swissprot;acc:q9y5k8] 25911.7 30282.1 1.16867
FARS2 Measured phenylalanine-trna synthetase. [refseq;acc:nm_006567] 5384.41 6012.82 1.11671
HNRPM Rooted heterogeneous nuclear ribonucleoprotein m (hnrnp m). [swissprot;acc:p52272] 57.5045 53.7387 1.07008
MVK Ranked mevalonate kinase (ec 2.7.1.36) (mk). [swissprot;acc:q03426] 235.296 247.673 1.0526
726 FTSJ3 ftsj homolog 3; likely ortholog of mouse ectoplacental cone, invasive trophoblast giant cells, extraembryonic ectoderm and chorion sequence 3. [refseq;acc:nm_017647] 244.495 232.419 1.05196
MLH3 Measured dna mismatch repair protein mlh3 (mutl protein homolog 3). [swissprot;acc:q9uhc1] 6327.86 7064.13 1.11635
SEC31B Squared secretory pathway component sec31b-1. [refseq;acc:nm_015490] 25911.7 30282.1 1.16867
TBL3 Rooted transducin beta-like 3; wd-repeat protein sazd. [refseq;acc:nm_006453] 51.4482 55.0529 1.07006
727 ATP6V1H Squared vacuolar atp synthase subunit h (ec 3.6.3.14) (v-atpase h subunit) (vacuolar proton pump h subunit) (v-atpase 50/57 kda subunits) (vacuolar proton pump subunit sfd) (cgi-11). [swissprot;acc:q9ui12] 25911.5 30281.9 1.16867
NUAK1 Ranked probable serine/threonine-protein kinase kiaa0537 (ec 2.7.1.-). [swissprot;acc:o60285] 208.873 219.71 1.05188
RPL24 Measured 60s ribosomal protein l24 (l30). [swissprot;acc:p38663] 7087.23 7911.25 1.11627
SF3A3 Rooted splicing factor 3a subunit 3 (spliceosome associated protein 61) (sap 61) (sf3a60). [swissprot;acc:q12874] 59.7414 63.909 1.06976
728 ASNSD1 Measured hcv ns3-transactivated protein 1. [refseq;acc:nm_019048] 6000.23 6696.89 1.11611
ATP6V1B2 Squared vacuolar atp synthase subunit b, brain isoform (ec 3.6.3.14) (v-atpase b2 subunit) (vacuolar proton pump b isoform 2) (endomembrane proton pump 58 kda subunit) (ho57). [swissprot;acc:p21281] 25911.8 30282.2 1.16866
B3GNT1 Ranked n-acetyllactosaminide beta-1,3-n-acetylglucosaminyltransferase (ec 2.4.1.149) (poly-n-acetyllactosamine extension enzyme) (i-beta- 1,3-n-acetylglucosaminyltransferase) (ignt) (udp-glcnac:betagal beta- 1,3-n-acetylglucosaminyltransferase 6). [swissprot;acc:o43505] 208.874 219.708 1.05187
SF3A1 Rooted splicing factor 3 subunit 1 (spliceosome associated protein 114) (sap 114) (sf3a120). [swissprot;acc:q15459] 59.7414 63.909 1.06976
729 no value Ranked huntingtin interacting protein e; huntingtin interactor protein e. [refseq;acc:nm_007076] 208.874 219.708 1.05187
ATP6V1A Measured vacuolar atp synthase catalytic subunit a, ubiquitous isoform (ec 3.6.3.14) (v-atpase a subunit 1) (vacuolar proton pump alpha subunit 1) (v-atpase 69 kda subunit 1) (isoform va68). [swissprot;acc:p38606] 6000.23 6696.89 1.11611
ATP6V1B1 Squared vacuolar atp synthase subunit b, kidney isoform (ec 3.6.3.14) (v- atpase b1 subunit) (vacuolar proton pump b isoform 1) (endomembrane proton pump 58 kda subunit). [swissprot;acc:p15313] 25910.8 30280.9 1.16866
EXOC6 Rooted exocyst complex component sec15a. [swissprot;acc:q8tag9] 62.5069 66.8603 1.06965
730 no value Squared dihydropyrimidine dehydrogenase [nadp+] precursor (ec 1.3.1.2) (dpd) (dhpdhase) (dihydrouracil dehydrogenase) (dihydrothymine dehydrogenase). [swissprot;acc:q12882] 24644.9 28800.7 1.16863
ASNS Measured asparagine synthetase [glutamine-hydrolyzing] (ec 6.3.5.4) (glutamine- dependent asparagine synthetase) (ts11 cell cycle control protein). [swissprot;acc:p08243] 6000.23 6696.89 1.11611
EXOC6B Rooted exocyst complex component sec15b. [swissprot;acc:q9y2d4] 62.5729 66.9286 1.06961
TIMM10 Ranked mitochondrial import inner membrane translocase subunit tim10. [swissprot;acc:q9y5j8] 208.874 219.708 1.05187
731 no value Measured methyltransferase like 2. [refseq;acc:nm_018396] 13241.4 11864 1.1161
Rooted cyclin-dependent kinases regulatory subunit 1 (cks-1) (sid1334) (pnas-16 / pnas-143). [swissprot;acc:p33551] 98.2298 91.8648 1.06929
FH Ranked fumarate hydratase, mitochondrial precursor (ec 4.2.1.2) (fumarase). [swissprot;acc:p07954] 208.874 219.708 1.05187
VCL Squared vinculin (metavinculin). [swissprot;acc:p18206] 27463 32090.3 1.16849
732 ATP6V0A2 vacuolar proton translocating atpase 116 kda subunit a isoform 2 (v-atpase 116-kda isoform a2) (tj6). [swissprot;acc:q9y487] 26029.8 30414.4 1.16845
DYNLT1 Measured cytoplasmic dynein light chain (t-complex testis-specific protein 1 homolog) (protein cw-1). [swissprot;acc:q15763] 13241.4 11864 1.1161

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.
- http://analysis.yellowcouch.org/