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.


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 [...,...].
Filtered green Value Type Gene Rank Interaction Map description network_comparison Network Comparison Type red
Results: HTML CSV LaTeX Showing element 551 to 600 of 77072 in total
Filtered  : 0
green
Value Type
Rank
Interaction Map
description
network_comparison
Network Comparison Type
red
5.80678 Rooted 199 Low confidence melanoma-associated antigen 2 (mage-2 antigen). [swissprot;acc:p43356] 4.04087 Subtracted 9.84765
200 hepatocellular carcinoma-associated protein hca1. [refseq;acc:nm_020932]
201 melanoma-associated antigen 6 (mage-6 antigen) (mage3b). [swissprot;acc:p43360]
202 melanoma-associated antigen f1 (mage-f1 antigen). [swissprot;acc:q9hay2]
203 melanoma-associated antigen 4 (mage-4 antigen) (mage-x2) (mage-41). [swissprot;acc:p43358]
204 melanoma-associated antigen 9 (mage-9 antigen). [swissprot;acc:p43362]
205 melanoma-associated antigen 8 (mage-8 antigen). [swissprot;acc:p43361]
206 melanoma-associated antigen c1 (mage-c1 antigen) (cancer-testis antigen ct7). [swissprot;acc:o60732]
207 melanoma-associated antigen 12 (mage-12 antigen) (mage12f). [swissprot;acc:p43365]
208 melanoma-associated antigen 1 (mage-1 antigen) (antigen mz2-e). [swissprot;acc:p43355]
209 melanoma-associated antigen b1 (mage-b1 antigen) (mage-xp antigen) (dss-ahc critical interval mage superfamily 10) (dam10). [swissprot;acc:p43366]
210 melanoma-associated antigen d2 (mage-d2 antigen) (breast cancer associated gene 1 protein) (bcg-1) (11b6) (hepatocellular carcinoma associated protein jcl-1). [swissprot;acc:q9unf1]
5.80679 38 melanoma-associated antigen d1 (mage-d1 antigen) (neurotrophin receptor-interacting mage homolog) (pro2292). [swissprot;acc:q9y5v3] 1.69589 Divided
46 melanoma-associated antigen 10 (mage-10 antigen). [swissprot;acc:p43363]
211 melanoma-associated antigen d1 (mage-d1 antigen) (neurotrophin receptor-interacting mage homolog) (pro2292). [swissprot;acc:q9y5v3] 4.04086 Subtracted
212 melanoma-associated antigen 10 (mage-10 antigen). [swissprot;acc:p43363]
5.86733 Squared 206 High confidence small nuclear ribonucleoprotein associated proteins b and b' (snrnp-b) (sm protein b/b') (sm-b/sm-b') (smb/smb'). [swissprot;acc:p14678] 1.41064 Divided 8.27667
434 2.40934 Subtracted
5.87091 Rooted 41 suppressor of actin 1. [refseq;acc:nm_014016] 1.77599 Divided 3.30572
218 2.56519 Subtracted
5.90479 119 proto-oncogene tyrosine-protein kinase src (ec 2.7.1.112) (p60-src) (c-src). [swissprot;acc:p12931] 1.25036 Divided 4.72248
351 1.18231 Subtracted
5.90864 Squared 17 Low confidence ptd016 protein. [refseq;acc:nm_016125] 27.7377 Divided 0.213018
28 High confidence
408 5.69562 Subtracted
767 Low confidence
5.9911 114 protein tyrosine phosphatase type iva, member 2 isoform 1; protein tyrosine phosphatase iva2; protein tyrosine phosphatase iva; phosphatase of regenerating liver 2. [refseq;acc:nm_003479] 1.90678 Divided 11.4237
768 5.4326 Subtracted
6.06104 Rooted 110 High confidence protein phosphatase inhibitor 2 (ipp-2). [swissprot;acc:p41236] 1.27732 Divided 7.7419
299 1.68086 Subtracted
6.08276 87 Low confidence arf gtpase-activating protein. [refseq;acc:nm_133446] 1.33558 Divided 8.12404
88 up-regulated in liver cancer 1; similar to development- and differentiation-enhancing factor 2. [refseq;acc:nm_017707]
365 arf gtpase-activating protein. [refseq;acc:nm_133446] 2.04128 Subtracted
366 up-regulated in liver cancer 1; similar to development- and differentiation-enhancing factor 2. [refseq;acc:nm_017707]
6.15501 Squared 62 High confidence elongation factor 1-alpha 1 (ef-1-alpha-1) (elongation factor 1 a-1) (eef1a-1) (elongation factor tu) (ef-tu). [swissprot;acc:p04720] 3.44563 Divided 21.2079
386 15.0529 Subtracted
6.23127 Rooted 59 metabotropic glutamate receptor 3 precursor (mglur3). [swissprot;acc:q14832] 1.45391 Divided 4.28588
62 Low confidence
281 High confidence 1.94539 Subtracted
375 Low confidence
6.30196 478 High confidence adapter-related protein complex 1 sigma 1b subunit (sigma-adaptin 1b) (adaptor protein complex ap-1 sigma-1b subunit) (golgi adaptor ha1/ap1 adaptin sigma-1b subunit) (clathrin assembly protein complex 1 sigma- 1b small chain) (sigma 1b subunit of ap-1 clathrin) (dc22). [swissprot;acc:p56377] 1.0084 Divided 6.24948
486 0.05248 Subtracted
6.32456 589 Low confidence probable mitochondrial import receptor subunit tom7 homolog (translocase of outer membrane 7 kda subunit homolog) (protein ad- 014). [swissprot;acc:q9p0u1] 1.03682 Divided 6.55744
776 0.23288 Subtracted
6.488 112 sarcoplasmic/endoplasmic reticulum calcium atpase 1 (ec 3.6.3.8) (calcium pump 1) (serca1) (sr ca(2+)-atpase 1) (calcium-transporting atpase sarcoplasmic reticulum type, fast twitch skeletal muscle isoform) (endoplasmic reticulum class 1/2 ca(2+) atpase). [swissprot;acc:o14983] 1.25512 Divided 8.14325
436 1.65525 Subtracted
6.50325 Measured 14 High confidence cyclin h (mo15-associated protein) (p37) (p34). [swissprot;acc:p51946] 20.0687 Divided 130.512
258 124.009 Subtracted
6.55744 Rooted 11 sedlin. [swissprot;acc:o14582] 655744 Divided 0.00001
12 synbindin (trs23 homolog) (hematopoietic stem/progenitor cell protein 172) (hspc172) (ptd009) (cgi-104). [swissprot;acc:q9y296]

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/