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 [...,...].
Rank Gene Value Type description Interaction Map Network Comparison Type Filtered red green network_comparison
Results: HTML CSV LaTeX Showing element 1225 to 1274 of 25824 in total
Interaction Map  : High confidence
Filtered  : 1
Rank
Value Type
description
Network Comparison Type
red
green
network_comparison
154 Measured melanoma-associated antigen 3 (mage-3 antigen) (antigen mz2-d). [swissprot;acc:p43357] Divided 23693.7 18263 1.29736
myosin heavy chain, skeletal muscle, fetal (myosin heavy chain iib) (myhc-iib). [swissprot;acc:q9y623] Subtracted 9035 7279.6 1755.4
Ranked musashi 2 isoform a. [refseq;acc:nm_138962] 227.491 199.458 28.033
regulator of g-protein signaling 19 (rgs19) (g-alpha interacting protein) (gaip protein). [swissprot;acc:p49795] Divided 249.663 298.263 1.19466
Squared solute carrier family 4 (anion exchanger), member 1, adaptor protein; kidney anion exchanger adaptor protein; kanadaptin; lung cancer oncogene 3. [refseq;acc:nm_018158] Subtracted 70525.9 52678.7 17847.2
t-complex protein 1, gamma subunit (tcp-1-gamma) (cct-gamma). [swissprot;acc:p49368] Divided 42788.3 60162.6 1.40605
Rooted eukaryotic translation initiation factor 5 (eif-5). [swissprot;acc:p55010] 43.5479 51.5473 1.18369
homer, neuronal immediate early gene, 3. [refseq;acc:nm_004838] Subtracted 50.339 62.9975 12.6585
155 Measured melanoma-associated antigen 11 (mage-11 antigen). [swissprot;acc:p43364] Divided 23693.7 18263 1.29736
myosin heavy chain, skeletal muscle, perinatal (myhc-perinatal). [swissprot;acc:p13535] Subtracted 9035 7279.6 1755.4
Ranked musashi 1. [refseq;acc:nm_002442] 227.491 199.458 28.033
putative rna-binding protein 15 (rna binding motif protein 15) (one-twenty two protein). [swissprot;acc:q96t37] Divided 249.663 298.263 1.19466
Squared cleavage stimulation factor, 64 kda subunit (cstf 64 kda subunit) (cf-1 64 kda subunit). [swissprot;acc:p33240] 126408 89940.5 1.40546
cyclin-dependent kinases regulatory subunit 2 (cks-2). [swissprot;acc:p33552] Subtracted 70525.9 52678.7 17847.2
Rooted dj820b18.1 (similar to nuclear cap binding protein) (fragment). [sptrembl;acc:q8wwk2] 54.2343 66.7323 12.498
small nuclear ribonucleoprotein sm d2 (snrnp core protein d2) (sm-d2). [swissprot;acc:p43330] Divided 55.7423 65.6839 1.17835
156 Measured melanoma-associated antigen 2 (mage-2 antigen). [swissprot;acc:p43356] 23693.7 18263 1.29736
myosin heavy chain, skeletal muscle, adult 2 (myosin heavy chain iia) (myhc-iia). [swissprot;acc:q9ukx2] Subtracted 9035 7279.6 1755.4
Ranked nuclear protein ukp68. [refseq;acc:nm_024824] 227.491 199.458 28.033
regulator of g-protein signaling 20 (rgs20) (regulator of gz- selective protein signaling 1) (gz-selective gtpase-activating protein) (g(z)gap). [swissprot;acc:o76081] Divided 249.663 298.263 1.19466
Squared catenin (cadherin-associated protein), alpha-like 1; alpha-catulin. [refseq;acc:nm_003798] Subtracted 70525.9 52678.7 17847.2
septin 10 isoform 1. [refseq;acc:nm_144710] Divided 89578.7 125883 1.40528
Rooted formin binding protein 3; fas-ligand associated factor 1; huntingtin-interacting protein a; ny-ren-6 antigen. [refseq;acc:nm_017892] Subtracted 55.1026 67.5701 12.4675
sh2 domain containing 3c; novel sh2-containing protein 3; sh2 domain-containing 3c; likely ortholog of mouse cas/hef1-associated signal transducer. [refseq;acc:nm_005489] Divided 56.3447 66.124 1.17356
157 Measured hepatocellular carcinoma-associated protein hca1. [refseq;acc:nm_020932] 23693.7 18263 1.29736
myosin heavy chain, fast skeletal muscle, embryonic (muscle embryonic myosin heavy chain) (smhce). [swissprot;acc:p11055] Subtracted 9035 7279.6 1755.4
Ranked neurogenic differentiation factor 2 (neurod2). [swissprot;acc:q15784] 312 284 28
transcription factor lbx1. [swissprot;acc:p52954] Divided 249.663 298.263 1.19466
Squared brain protein 44. [swissprot;acc:o95563] 89182.8 125229 1.40418
huntingtin interacting protein 1 (hip-i). [swissprot;acc:o00291] Subtracted 76438 58889.7 17548.3
Rooted eukaryotic translation initiation factor 4 gamma, 3. [refseq;acc:nm_003760] Divided 52.7582 61.9123 1.17351
huntingtin-interacting protein hypa/fbp11 (fragment). [sptrembl;acc:o75404] Subtracted 55.1113 67.5537 12.4424
158 Measured melanoma-associated antigen 6 (mage-6 antigen) (mage3b). [swissprot;acc:p43360] Divided 23693.7 18263 1.29736
myosin heavy chain, skeletal muscle, adult 1 (myosin heavy chain iix/d) (myhc-iix/d). [swissprot;acc:p12882] Subtracted 9035 7279.6 1755.4
Ranked chromodomain helicase-dna-binding protein 3 (chd-3) (mi-2 autoantigen 240 kda protein) (mi2-alpha). [swissprot;acc:q12873] 312 284 28
mosaic protein lgn. [swissprot;acc:p81274] Divided 249.663 298.263 1.19466
Squared goodpasture antigen-binding protein (ec 2.7.1.37) (gpbp) (collagen type iv alpha 3 binding protein) (star-related lipid transfer protein 11) (stard11) (start domain-containing protein 11). [swissprot;acc:q9y5p4] Subtracted 76360.8 58841.7 17519.1
septin 7 (cdc10 protein homolog). [swissprot;acc:q16181] Divided 89182.8 125229 1.40418
Rooted breast cancer antiestrogen resistance 3. [refseq;acc:nm_003567] 56.3507 66.1252 1.17346
protein phosphatase 1, regulatory subunit 7; sds22. [refseq;acc:nm_002712] Subtracted 149.397 136.972 12.425
159 Measured myosin heavy chain, cardiac muscle beta isoform (myhc-beta). [swissprot;acc:p12883] 9035 7279.6 1755.4
necdin. [swissprot;acc:q99608] Divided 23693.7 18263 1.29736
Ranked doc-1 related protein (doc-1r). [swissprot;acc:o75956] Subtracted 312 284 28
regulator of g-protein signaling 17 (rgs17). [swissprot;acc:q9ugc6] Divided 249.663 298.263 1.19466
Squared huntingtin interacting protein 1 related (hip1-related) (hip 12). [swissprot;acc:o75146] Subtracted 76296.4 58801.6 17494.8
septin 6. [swissprot;acc:q14141] Divided 88953.6 124854 1.40359
Rooted rna-binding protein. [refseq;acc:nm_019027] 52.7642 61.9019 1.17318
ubiquitin activating enzyme e1-like protein. [refseq;acc:nm_006395] Subtracted 113.983 101.979 12.004
160 Measured dj756n5.1.1 (continues in em:al133324 as dj1161h23.3) (fragment). [sptrembl;acc:q9h430] 9035 7279.6 1755.4
melanoma-associated antigen d1 (mage-d1 antigen) (neurotrophin receptor-interacting mage homolog) (pro2292). [swissprot;acc:q9y5v3] Divided 23693.7 18263 1.29736

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/