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.


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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 description Value Type Network Comparison Type Interaction Map Filtered red green network_comparison
Results: HTML CSV LaTeX Showing element 3314 to 3363 of 8289 in total
Value Type  : Measured
Network Comparison Type  : Divided
Filtered  : 1
Rank
description
Interaction Map
red
green
network_comparison
1657 jm4 protein. [refseq;acc:nm_007213] Low confidence 7877.44 8140.64 1.03341
1658 blood group rh(d) polypeptide (rhesus d antigen) (rhxiii) (rh polypeptide 2) (rhpii). [swissprot;acc:q02161] 7949.55 8215.07 1.0334
transcription factor mafk (erythroid transcription factor nf-e2 p18 subunit). [swissprot;acc:o60675] High confidence 7433.73 7950.61 1.06953
1659 blood group rh(ce) polypeptide (rhesus c/e antigens) (rh30a) (rhixb) (rh polypeptide 1) (rhpi). [swissprot;acc:p18577] Low confidence 7949.55 8215.07 1.0334
ubiquinol-cytochrome c reductase complex 14 kda protein (ec 1.10.2.2) (complex iii subunit vi) (qp-c). [swissprot;acc:p14927] High confidence 5488.7 5131.89 1.06953
1660 3-hydroxyisobutyryl-coenzyme a hydrolase. [refseq;acc:nm_014362] Low confidence 7966.46 8232.52 1.0334
cell adhesion molecule with homology to l1cam precursor; neural cell adhesion molecule; cell adhesion molecule l1-like; l1 cell adhesion molecule 2. [refseq;acc:nm_006614] High confidence 7433.73 7950.61 1.06953
1661 blood group rh(ce) polypeptide (rhesus c/e antigens) (rh30a) (rhixb) (rh polypeptide 1) (rhpi). [swissprot;acc:p18577] Low confidence 7949.55 8215.08 1.0334
neural cell adhesion molecule l1 precursor (n-cam l1) (cd171 antigen). [swissprot;acc:p32004] High confidence 7433.73 7950.61 1.06953
1662 lipoic acid synthetase, mitochondrial (lip-syn) (lipoate synthase) (hussy-01) (fragment). [swissprot;acc:o43766] Low confidence 8107.41 8378.13 1.03339
transcription initiation factor tfiid 31 kda subunit (tafii-31) (tafii-32) (tafii32). [swissprot;acc:q16594] High confidence 7433.73 7950.61 1.06953
1663 glutamate dehydrogenase 2, mitochondrial precursor (ec 1.4.1.3) (gdh). [swissprot;acc:p49448] Low confidence 8076.33 8345.8 1.03337
nuclear factor erythroid 2 related factor 1 (nf-e2 related factor 1) (nfe2-related factor 1) (nuclear factor, erythroid derived 2, like 1) (transcription factor 11) (transcription factor hbz17) (transcription factor lcr-f1) (locus control region-factor 1). [swissprot;acc:q14494] High confidence 7433.73 7950.61 1.06953
1664 glutamate dehydrogenase 1, mitochondrial precursor (ec 1.4.1.3) (gdh). [swissprot;acc:p00367] Low confidence 8076.33 8345.8 1.03337
nuclear factor (erythroid-derived 2)-like 3; nf-e2-related factor 3. [refseq;acc:nm_004289] High confidence 7433.73 7950.61 1.06953
1665 fatty acid-binding protein, adipocyte (afabp) (adipocyte lipid-binding protein) (albp) (a-fabp). [swissprot;acc:p15090] 5791.14 6193.02 1.0694
lupus la protein (sjogren syndrome type b antigen) (ss-b) (la ribonucleoprotein) (la autoantigen). [swissprot;acc:p05455] Low confidence 7861.25 8123.5 1.03336
1666 fatty acid-binding protein, epidermal (e-fabp) (psoriasis-associated fatty acid-binding protein homolog) (pa-fabp). [swissprot;acc:q01469] High confidence 5791.14 6193.02 1.0694
retinoic acid receptor rxr-alpha. [swissprot;acc:p19793] Low confidence 7909.09 8172.86 1.03335
1667 adapter-related protein complex 1 sigma 1c subunit (sigma-adaptin 1c) (adaptor protein complex ap-1 sigma-1c subunit) (golgi adaptor ha1/ap1 adaptin sigma-1c subunit) (clathrin assembly protein complex 1 sigma- 1c small chain) (sigma 1c subunit of ap-1 clathrin). [swissprot;acc:q96pc3] 7848.78 8110.43 1.03334
fatty acid-binding protein, brain (b-fabp) (brain lipid-binding protein) (blbp) (mammary derived growth inhibitor related). [swissprot;acc:o15540] High confidence 5791.14 6193.02 1.0694
1668 cleft lip and palate associated transmembrane protein 1. [refseq;acc:nm_001294] Low confidence 7619.38 7873.4 1.03334
wd-repeat protein 4. [swissprot;acc:p57081] High confidence 5791.14 6193.02 1.0694
1669 double c2-like domains, beta. [refseq;acc:nm_003585] Low confidence 8137.18 8408.39 1.03333
myelin p2 protein. [swissprot;acc:p02689] High confidence 5791.14 6193.02 1.0694
1670 double c2-like domains, alpha. [refseq;acc:nm_003586] Low confidence 8136.99 8408.21 1.03333
kelch-like protein 8. [swissprot;acc:q9p2g9] High confidence 5791.14 6193.02 1.0694
1671 phenylethanolamine n-methyltransferase (ec 2.1.1.28) (pnmtase) (noradrenaline n-methyltransferase). [swissprot;acc:p11086]
synaptotagmin v (sytv). [swissprot;acc:o00445] Low confidence 8137.56 8408.77 1.03333
1672 beta-carotene dioxygenase 2; putative b,b-carotene-9',10'-dioxygenase. [refseq;acc:nm_031938] High confidence 5791.14 6193.02 1.0694
synaptotagmin iii (sytiii). [swissprot;acc:q9bqg1] Low confidence 8137.45 8408.66 1.03333
1673 b/k protein. [refseq;acc:nm_016524] 8137.22 8408.44
beta-carotene 15, 15'-dioxygenase; beta-carotene 15,15'-monooxygenase. [refseq;acc:nm_017429] High confidence 5791.14 6193.02 1.0694
1674 fatty acid-binding protein, heart (h-fabp) (muscle fatty acid-binding protein) (m-fabp) (mammary-derived growth inhibitor) (mdgi). [swissprot;acc:p05413]
rabphilin-3a (exophilin 1). [swissprot;acc:q9y2j0] Low confidence 8136.99 8408.21 1.03333
1675 retinal pigment epithelium-specific protein 65kda; retinal pigment epithelium-specific protein (65kd); retinitis pigmentosa 20 (autosomal recessive). [refseq;acc:nm_000329] High confidence 5791.14 6193.02 1.0694
synaptotagmin i (syti) (p65). [swissprot;acc:p21579] Low confidence 8137.56 8408.77 1.03333
1676 indolethylamine n-methyltransferase (ec 2.1.1.49) (aromatic alkylamine n-methyltransferase) (indolamine n-methyltransferase) (arylamine n- methyltransferase) (amine n-methyltransferase). [swissprot;acc:o95050] High confidence 5791.14 6193.02 1.0694
synaptotagmin vii (sytvii). [swissprot;acc:o43581] Low confidence 8137.53 8408.74 1.03333
1677 proteasome subunit beta type 6 precursor (ec 3.4.25.1) (proteasome delta chain) (macropain delta chain) (multicatalytic endopeptidase complex delta chain) (proteasome subunit y). [swissprot;acc:p28072] 8090.46 8360.04 1.03332
ribonuclease hi large subunit (ec 3.1.26.-) (rnase hi large subunit) (rnase h(35)) (ribonuclease h2) (rnase h2). [swissprot;acc:o75792] High confidence 6075.19 6496.61 1.06937
1678 cleavage and polyadenylation specific factor 5, 25 kd subunit; pre-mrna cleavage factor im (25kd); pre-mrna cleavage factor im, 25kd subunit. [refseq;acc:nm_007006] 5763.25 6162.98 1.06936
synaptotagmin iv (sytiv). [swissprot;acc:q9h2b2] Low confidence 8138.69 8409.88 1.03332
1679 proteasome subunit beta type 3 (ec 3.4.25.1) (proteasome theta chain) (proteasome chain 13) (proteasome component c10-ii). [swissprot;acc:p49720] High confidence 6180.24 6608.11 1.06923
synaptotagmin xi (sytxi). [swissprot;acc:q9bt88] Low confidence 8140.33 8411.49 1.03331
1680 methylenetetrahydrofolate reductase (ec 1.5.1.20). [swissprot;acc:p42898] High confidence 6436.73 6882.16 1.0692
splicing factor 3b subunit 3 (spliceosome associated protein 130) (sap 130) (sf3b130) (pre-mrna splicing factor sf3b 130 kda subunit). [swissprot;acc:q15393] Low confidence 8279.84 8555.58 1.0333
1681 dna mismatch repair protein msh2. [swissprot;acc:p43246] 8088.72 8358.06
f-actin capping protein alpha-3 subunit (capz alpha-3) (germ cell- specific protein 3). [swissprot;acc:q96kx2] High confidence 6304.74 6740.66 1.06914
1682 f-actin capping protein beta subunit (capz beta). [swissprot;acc:p47756]

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/