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 description Value Type Network Comparison Type Interaction Map Filtered red green network_comparison
Results: HTML CSV LaTeX Showing element 5958 to 6007 of 8289 in total
Value Type  : Measured
Network Comparison Type  : Divided
Filtered  : 1
Rank
description
Interaction Map
red
green
network_comparison
2979 udp-glucuronosyltransferase 2b28 precursor, microsomal (ec 2.4.1.17). [swissprot;acc:q9by64] High confidence 0.00001 0.00001 1
2980 choline o-acetyltransferase (ec 2.3.1.6) (choactase) (choline acetylase) (chat). [swissprot;acc:p28329] Low confidence 7993.65 8218.51 1.02813
ste20-like kinase; ste2-like kinase. [refseq;acc:nm_016281] High confidence 0.00001 0.00001 1
2981 carbonic anhydrase-related protein 2 precursor (carp-2) (ca-rp ii) (ca-xi) (carbonic anhydrase-related protein 11) (carp xi) (ca-rp xi). [swissprot;acc:o75493] Low confidence 7819.64 8039.6 1.02813
zinc finger daz interacting protein 1. [refseq;acc:nm_014934] High confidence 0.00001 0.00001 1
2982 cell division cycle 2-like protein kinase 5 (ec 2.7.1.-) (cholinesterase-related cell division controller) (cdc2-related protein kinase 5). [swissprot;acc:q14004] Low confidence 7854.16 8075.04 1.02812
serine/threonine protein kinase mask; ste20-like kinase mst4. [refseq;acc:nm_016542] High confidence 0.00001 0.00001 1
2983 candidate tumor suppressor protein. [refseq;acc:nm_020381] Low confidence 7989.61 8214.14 1.0281
cyclin h (mo15-associated protein) (p37) (p34). [swissprot;acc:p51946] High confidence 0.00001 0.00001 1
2984 acyl-coenzyme a oxidase 1, peroxisomal (ec 1.3.3.6) (palmitoyl-coa oxidase) (aox). [swissprot;acc:q15067] Low confidence 7989.61 8214.14 1.0281
similar to cg5057 gene product. [sptrembl;acc:q9btt4] High confidence 0.00001 0.00001 1
2985 acyl-coa-binding protein (acbp) (diazepam binding inhibitor) (dbi) (endozepine) (ep). [swissprot;acc:p07108] Low confidence 7989.61 8214.14 1.0281
myosin heavy chain, smooth muscle isoform (smmhc). [swissprot;acc:p35749] High confidence 0.00001 0.00001 1
2986 casein kinase i, gamma 2 isoform (ec 2.7.1.-) (cki-gamma 2). [swissprot;acc:p78368]
supervillin isoform 1; membrane-associated f-actin binding protein p205; archvillin. [refseq;acc:nm_003174] Low confidence 7989.61 8214.14 1.0281
2987 ny-ren-62 antigen (fragment). [sptrembl;acc:q9y590] 7930.81 8153.58 1.02809
spartin; trans-activated by hepatitis c virus core protein 1. [refseq;acc:nm_015087] High confidence 0.00001 0.00001 1
2988 elav-like protein 3 (hu-antigen c) (huc) (paraneoplastic cerebellar degeneration-associated antigen) (paraneoplastic limbic encephalitis antigen 21). [swissprot;acc:q14576] Low confidence 8036.91 8262.69 1.02809
myosin heavy chain, nonmuscle type b (cellular myosin heavy chain, type b) (nonmuscle myosin heavy chain-b) (nmmhc-b). [swissprot;acc:p35580] High confidence 0.00001 0.00001 1
2989 high mobility group protein 1 (hmg-1). [swissprot;acc:p09429]
serotransferrin precursor (transferrin) (siderophilin) (beta-1-metal binding globulin) (pro1400). [swissprot;acc:p02787] Low confidence 7844.31 8064.63 1.02809
2990 cell division protein kinase 8 (ec 2.7.1.-) (protein kinase k35). [swissprot;acc:p49336] High confidence 0.00001 0.00001 1
lactotransferrin precursor (lactoferrin) [contains: lactoferroxin a; lactoferroxin b; lactoferroxin c]. [swissprot;acc:p02788] Low confidence 7844.3 8064.63 1.02809
2991 mam domain containing glycosylphosphatidylinositol anchor 1; glycosyl-phosphatidyl-inositol-mam. [refseq;acc:nm_153487] 7903.24 8125.13 1.02808
neuromedin u receptor 2. [refseq;acc:nm_020167] High confidence 0.00001 0.00001 1
2992 aldehyde dehydrogenase 8 (ec 1.2.1.5). [swissprot;acc:p48448]
cell division cycle 2-related protein kinase 7 (ec 2.7.1.-) (cdc2- related protein kinase 7) (crkrs). [swissprot;acc:q9nyv4] Low confidence 7847.98 8068.23 1.02806
2993 elav-like protein 1 (hu-antigen r) (hur). [swissprot;acc:q15717] 8042.27 8267.94
vacuolar protein sorting factor 4a; skd1-homolog; vacuolar sorting protein 4. [refseq;acc:nm_013245] High confidence 0.00001 0.00001 1
2994 protein kinase clk3 (ec 2.7.1.-) (cdc-like kinase 3). [swissprot;acc:p49761] Low confidence 8132.71 8360.82 1.02805
skeletal muscle and kidney enriched inositol phosphatase isoform 1; 43-kda form skeletal muscle and kidney enriched inositol phosphatase. [refseq;acc:nm_016532] High confidence 0.00001 0.00001 1
2995 calmodulin. [swissprot;acc:p02593] Low confidence 8122.15 8349.99 1.02805
t-complex protein 1, zeta-2 subunit (tcp-1-zeta-2) (cct-zeta-2) (tcp- 1-zeta-like) (cct-zeta-like) (testis-specific tcp20) (testis-specific protein tsa303). [swissprot;acc:q92526] High confidence 0.00001 0.00001 1
2996 arp2/3 complex 41 kda subunit (p41-arc) (actin-related protein 2/3 complex subunit 1b). [swissprot;acc:o15143] Low confidence 8061.15 8287.23 1.02805
rna-binding protein 8a (rna binding motif protein 8a) (ribonucleoprotein rbm8a) (rna-binding protein y14) (binder of ovca1- 1) (bov-1). [swissprot;acc:q9y5s9] High confidence 0.00001 0.00001 1
2997 asp (abnormal spindle)-like, microcephaly associated; microcephaly, primary autosomal recessive 5. [refseq;acc:nm_018136] Low confidence 8122.15 8349.99 1.02805
proteasome activator complex subunit 3 (proteasome activator 28-gamma subunit) (pa28gamma) (pa28g) (activator of multicatalytic protease subunit 3) (11s regulator complex gamma subunit) (reg-gamma) (ki nuclear autoantigen). [swissprot;acc:q12920] High confidence 0.00001 0.00001 1
2998 fyve-finger-containing rab5 effector protein rabenosyn-5. [refseq;acc:nm_022340]
protein kinase clk2 (ec 2.7.1.-) (cdc-like kinase 2). [swissprot;acc:p49760] Low confidence 8128.8 8356.74 1.02804
2999 nucleophosmin (npm) (nucleolar phosphoprotein b23) (numatrin) (nucleolar protein no38). [swissprot;acc:p06748] 7921.09 8143.1 1.02803
transcription initiation factor tfiid 135 kda subunit (tafii-135) (tafii135) (tafii-130) (tafii130). [swissprot;acc:o00268] High confidence 0.00001 0.00001 1
3000 myeloblast kiaa0230 (fragment). [sptrembl;acc:q92626]
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] Low confidence 7786.8 8005.04 1.02803
3001 sarcoplasmic/endoplasmic reticulum calcium atpase 2 (ec 3.6.3.8) (calcium pump 2) (serca2) (sr ca(2+)-atpase 2) (calcium-transporting atpase sarcoplasmic reticulum type, slow twitch skeletal muscle isoform) (endoplasmic reticulum class 1/2 ca(2+) atpase). [swissprot;acc:p16615] 7787.08 8005.34
ubiquitin-like protein nedd8. [swissprot;acc:q15843] High confidence 0.00001 0.00001 1
3002 cyclin t1 (cyclin t) (cyct1). [swissprot;acc:o60563]
nucleoplasmin 3. [swissprot;acc:o75607] Low confidence 7920.36 8142.34 1.02803
3003 sarcoplasmic/endoplasmic reticulum calcium atpase 3 (ec 3.6.3.8) (calcium pump 3) (serca3) (sr ca(2+)-atpase 3). [swissprot;acc:q93084] 7786.68 8004.91
testis specific leucine rich repeat protein. [refseq;acc:nm_012472] High confidence 0.00001 0.00001 1
3004 dna-directed rna polymerase iii largest subunit (ec 2.7.7.6) (rpc155) (rpc1). [swissprot;acc:o14802] Low confidence 7867.43 8087.77 1.02801

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/