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

Table 3: Type II network, divided ranks. This table presents the output of the simulation of a type-II network in which we relied on the high confidence interactions and micro-array results. The output of the micro-array was then ranked and these ranks used as input into the network simulation. After performing two such simulations (one for the MK5 off and one for the MK5 on microarray output), we divided the ranks and sorted the results accordingly. The output of this technique is a collection of proteins that cluster naturally together.


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 [...,...].
Gene Value Type Rank description Interaction Map Filtered Network Comparison Type green red network_comparison
Results: HTML CSV LaTeX Showing element 2051 to 2100 of 38536 in total
Value Type  : Measured
Network Comparison Type  : Divided
Rank
description
Interaction Map
Filtered
green
red
network_comparison
517 dynein intermediate chain 2, cytosolic (dh ic-2) (cytoplasmic dynein intermediate chain 2). [swissprot;acc:q13409] Low confidence 1 7349.22 7011.57 1.04816
galactose-1-phosphate uridylyltransferase (ec 2.7.7.12) (gal-1-p uridylyltransferase) (udp-glucose--hexose-1-phosphate uridylyltransferase). [swissprot;acc:p07902] High confidence 5600.61 4910.6 1.14051
transcription factor-like protein morf4 (mortality factor 4) (cellular senescence-related protein 1) (sen1). [swissprot;acc:q9y690] Low confidence 0 1311.25 1385.47 1.0566
518 conserved oligomeric golgi complex subunit 5 (13s golgi transport complex 90 kda subunit) (gtc-90) (golgi transport complex 1). [swissprot;acc:q9up83] 1 7675.44 7322.99 1.04813
cytochrome c oxidase subunit viia-l related protein, mitochondrial precursor. [swissprot;acc:o60397] 0 1279.26 1351.4 1.05639
udp-glucose 4-epimerase (ec 5.1.3.2) (galactowaldenase) (udp- galactose 4-epimerase). [swissprot;acc:q14376] High confidence 1 5600.61 4910.6 1.14051
519 dna repair protein rad51 homolog 1 (hrad51) (hsrad51). [swissprot;acc:q06609] Low confidence 8452.01 8064.19 1.04809
glycogen [starch] synthase, muscle (ec 2.4.1.11). [swissprot;acc:p13807] High confidence 10994.9 9648.27 1.13957
keratin associated protein 9.2. [refseq;acc:nm_031961] Low confidence 0 958.097 1011.61 1.05585
520 dipeptidyl peptidase 8 isoform 2; dipeptidyl peptidase 8. [refseq;acc:nm_017743] 402.138 380.866
disks large-associated protein 2 (dap-2) (sap90/psd-95-associated protein 2) (sapap2) (psd-95/sap90 binding protein 2) (fragment). [swissprot;acc:q9p1a6] 1 6781.51 7107.45 1.04806
endo-beta-n-acetylglucosaminidase. [refseq;acc:nm_022759] High confidence 10986.4 9642.22 1.13941
521 cellular repressor of e1a-stimulated genes. [refseq;acc:nm_003851] Low confidence 6783.73 7108.79 1.04792
u4/u6-associated rna splicing factor. [refseq;acc:nm_004698] High confidence 6142.07 5390.78 1.13937
zinc finger protein slug (neural crest transcription factor slug) (snail homolog 2). [swissprot;acc:o43623] Low confidence 0 2192.97 2077.04 1.05582
522 cellular repressor of e1a-stimulated genes 2. [refseq;acc:nm_153836] 1 6783.88 7108.88 1.04791
glycogen [starch] synthase, liver (ec 2.4.1.11). [swissprot;acc:p54840] High confidence 10976.2 9634.98 1.1392
keratin associated protein 4.3 (fragment). [sptrembl;acc:q9byr4] Low confidence 0 958.728 1011.83 1.05539
523 aquaporin 4 (wch4) (mercurial-insensitive water channel) (miwc). [swissprot;acc:p55087] High confidence 1 12117.8 10640.2 1.13887
keratin associated protein 2-4; keratin associated protein 2.4. [refseq;acc:nm_033184] Low confidence 0 958.724 1011.83 1.05539
polymerase (dna directed) iota; rad30 (s. cerevisiae) homolog b; polymerase (dna-directed), iota. [refseq;acc:nm_007195] 1 8025.15 7659.62 1.04772
524 aquaporin 5. [swissprot;acc:p55064] High confidence 12117.6 10640 1.13887
disks large-associated protein 1 (dap-1) (guanylate kinase-associated protein) (hgkap) (sap90/psd-95-associated protein 1) (sapap1) (psd- 95/sap90 binding protein 1). [swissprot;acc:o14490] Low confidence 6787.41 7111.02 1.04768
keratin associated protein 1.5. [refseq;acc:nm_031957] 0 958.726 1011.83 1.05539
525 disks large-associated protein 4 (dap-4) (sap90/psd-95-associated protein 4) (sapap4) (psd-95/sap90 binding protein 4). [swissprot;acc:q9y2h0] 1 6787.41 7111.02 1.04768
keratin, ultra high-sulfur matrix protein a (uhs keratin a) (uhs kera). [swissprot;acc:p26371] 0 958.726 1011.83 1.05539
lens fiber major intrinsic protein (mip26) (mp26) (aquaporin 0). [swissprot;acc:p30301] High confidence 1 12117.3 10639.8 1.13887
526 aquaporin-cd (aqp-cd) (water channel protein for renal collecting duct) (adh water channel) (aquaporin 2) (collecting duct water channel protein) (wch-cd). [swissprot;acc:p41181] 12117.4 10639.9 1.13886
keratin associated protein 1-3; keratin associated protein 1.3. [refseq;acc:nm_030966] Low confidence 0 958.728 1011.83 1.05539
mitochondrial 2-oxodicarboxylate carrier. [swissprot;acc:q9bqt8] 1 9227.11 8808.17 1.04756
527 keratin associated protein 4-10; keratin associated protein 4.10. [refseq;acc:nm_033060] 0 958.732 1011.83 1.05538
nuclear factor, interleukin 3 regulated. [refseq;acc:nm_005384] 1 8598.61 8208.19 1.04756
protein phosphatase 2c beta isoform (ec 3.1.3.16) (pp2c-beta). [swissprot;acc:o75688] High confidence 5438.18 4775.11 1.13886
528 aquaporin-chip (water channel protein for red blood cells and kidney proximal tubule) (aquaporin 1) (aqp-1) (urine water channel). [swissprot;acc:p29972] 12111.4 10635.3 1.13879
cdc42-interacting protein 4 (thyroid receptor interacting protein 10) (trip-10). [swissprot;acc:q15642] Low confidence 8373.8 7995.2 1.04735
keratin associated protein 4-12; keratin associated protein 4.12. [refseq;acc:nm_031854] 0 958.748 1011.84 1.05538
529 mitochondrial import receptor subunit tom20 homolog (mitochondrial 20 kda outer membrane protein) (outer mitochondrial membrane receptor tom20). [swissprot;acc:q15388] High confidence 1 9792.49 8600.02 1.13866
peroxisomal targeting signal 2 receptor (pts2 receptor) (peroxin-7). [swissprot;acc:o00628] Low confidence 8876.05 8475.71 1.04723
star-related lipid transfer protein 6 (stard6) (start domain- containing protein 6). [swissprot;acc:p59095] 0 958.749 1011.84 1.05538
530 peroxisomal farnesylated protein (33 kda housekeeping protein) (peroxin 19). [swissprot;acc:p40855] High confidence 1 9792.49 8600.02 1.13866
similar to peptidylprolyl isomerase a (cyclophilin a); cyclophilin-lc; cyclophilin homolog overexpressed in liver cancer; chromosome 1 amplified sequence 2. [refseq;acc:nm_178230] Low confidence 0 958.753 1011.84 1.05537
ubiquitin-conjugating enzyme e2 c (ec 6.3.2.19) (ubiquitin-protein ligase c) (ubiquitin carrier protein c) (ubch10). [swissprot;acc:o00762] 1 8497.85 8114.7 1.04722
531 keratin associated protein 4-14; keratin associated protein 4.14. [refseq;acc:nm_033059] 0 958.745 1011.83 1.05537
stip1 homology and u-box containing protein 1; serologically defined colon cancer antigen 7; carboxy terminus of hsp70p-interacting protein; heat shock protein a binding protein 2 (c-terminal). [refseq;acc:nm_005861] 1 8287.57 7913.91 1.04722
transcription initiation factor iib (general transcription factor tfiib) (s300-ii). [swissprot;acc:q00403] High confidence 5296.78 4651.88 1.13863
532 heterogeneous nuclear ribonucleoprotein h3 (hnrnp h3) (hnrnp 2h9). [swissprot;acc:p31942] Low confidence 7639.5 7295.46 1.04716
keratin associated protein 4.9 (fragment). [sptrembl;acc:q9byq8] 0 958.745 1011.83 1.05537
thyroid receptor interacting protein 3 (trip-3) (fragment). [swissprot;acc:q15649] High confidence 1 5296.78 4651.88 1.13863
533 myosin va (myosin 5a) (dilute myosin heavy chain, non-muscle) (myosin heavy chain 12) (myoxin). [swissprot;acc:q9y4i1] Low confidence 0 2312.27 2439.81 1.05516
nhp2-like protein 1 (high mobility group-like nuclear protein 2 homolog 1) ([u4/u6.u5] tri-snrnp 15.5 kda protein) (otk27). [swissprot;acc:p55769] High confidence 1 5296.78 4651.88 1.13863

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
- 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/