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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Gene Value Type Network Comparison Type Rank description Interaction Map green Filtered red network_comparison
Results: HTML CSV LaTeX Showing element 425 to 474 of 7460 in total
Value Type  : Ranked
Network Comparison Type  : Divided
Interaction Map  : High confidence
Rank
description
green
Filtered
red
network_comparison
213 pallidin; pallid (mouse) homolog, pallidin. [refseq;acc:nm_012388] 186.95 1 210.693 1.127
protein disulfide isomerase precursor (pdi) (ec 5.3.4.1) (prolyl 4- hydroxylase beta subunit) (cellular thyroid hormone binding protein) (p55). [swissprot;acc:p07237] 8436.39 0 9379.47 1.11179
214 lag1 longevity assurance homolog 2 isoform 1; l3 pigment; tumor metastasis-suppressor. [refseq;acc:nm_022075] 170.192 1 191.644 1.12605
probable glutamyl-trna(gln) amidotransferase subunit b, mitochondrial precursor (ec 6.3.5.-) (glu-adt subunit b) (cytochrome oxidase assembly factor pet112 homolog). [swissprot;acc:o75879] 8473.85 0 7621.99 1.11176
215 myosin heavy chain, cardiac muscle alpha isoform (myhc-alpha). [swissprot;acc:p13533] 126 1 112 1.125
myosin vi. [swissprot;acc:q9um54] 11250.5 0 10121.5 1.11154
216 maleylacetoacetate isomerase (ec 5.2.1.2) (maai) (glutathione s- transferase zeta 1) (ec 2.5.1.18) (gstz1-1). [swissprot;acc:o43708] 11732 10559.7 1.11102
myosin heavy chain, skeletal muscle, fetal (myosin heavy chain iib) (myhc-iib). [swissprot;acc:q9y623] 126 1 112 1.125
217 baculoviral iap repeat-containing protein 5 (apoptosis inhibitor survivin) (apoptosis inhibitor 4). [swissprot;acc:o15392] 6406.18 0 7101.79 1.10858
myosin heavy chain, skeletal muscle, perinatal (myhc-perinatal). [swissprot;acc:p13535] 126 1 112 1.125
218 lim domain binding 1; carboxy terminal lim domain protein 2; lim domain-binding factor-1. [refseq;acc:nm_003893] 17469.2 0 19355 1.10795
myosin heavy chain, skeletal muscle, adult 2 (myosin heavy chain iia) (myhc-iia). [swissprot;acc:q9ukx2] 126 1 112 1.125
219 myosin heavy chain, fast skeletal muscle, embryonic (muscle embryonic myosin heavy chain) (smhce). [swissprot;acc:p11055]
succinate dehydrogenase [ubiquinone] flavoprotein subunit, mitochondrial precursor (ec 1.3.5.1) (fp) (flavoprotein subunit of complex ii). [swissprot;acc:p31040] 11009.7 0 12196.2 1.10777
220 myosin heavy chain, skeletal muscle, adult 1 (myosin heavy chain iix/d) (myhc-iix/d). [swissprot;acc:p12882] 126 1 112 1.125
neurocalcin delta. [swissprot;acc:p29554] 15473.5 0 13973.6 1.10734
221 estrogen-related receptor gamma (estrogen receptor related protein 3) (err gamma-2). [swissprot;acc:o75454] 13497.2 12190.3 1.10721
myosin heavy chain, cardiac muscle beta isoform (myhc-beta). [swissprot;acc:p12883] 126 1 112 1.125
222 40s ribosomal protein s15 (rig protein). [swissprot;acc:p11174] 11013.2 0 12183 1.10622
dj756n5.1.1 (continues in em:al133324 as dj1161h23.3) (fragment). [sptrembl;acc:q9h430] 126 1 112 1.125
223 myosin heavy chain, skeletal muscle, extraocular (myhc-eo). [swissprot;acc:q9ukx3]
pnas-18. [sptrembl;acc:q9bzu3] 13939.6 0 12602.7 1.10608
224 atp-dependent clp protease atp-binding subunit clpx-like, mitochondrial precursor. [swissprot;acc:o76031] 8889.93 9815.6 1.10413
oligopeptide transporter, kidney isoform (peptide transporter 2) (kidney h+/peptide cotransporter) (solute carrier family 15, member 2). [swissprot;acc:q16348] 165.623 1 185.969 1.12285
225 40s ribosomal protein s29. [swissprot;acc:p30054] 9997.71 0 11035.3 1.10378
small nuclear ribonucleoprotein sm d2 (snrnp core protein d2) (sm-d2). [swissprot;acc:p43330] 201.769 1 226.471 1.12243
226 cartilage oligomeric matrix protein precursor (comp). [swissprot;acc:p49747] 269.238 239.991 1.12187
rab gdp dissociation inhibitor alpha (rab gdi alpha) (gdi-1) (xap-4) (oligophrenin 2). [swissprot;acc:p31150] 16992.9 0 15395.7 1.10374
227 thrombospondin 3 precursor. [swissprot;acc:p49746] 269.234 1 239.99 1.12186
tigger transposable element derived 6. [refseq;acc:nm_030953] 11200.2 0 12360 1.10355
228 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] 202.088 1 226.411 1.12036
soluble liver antigen/liver pancreas antigen. [refseq;acc:nm_153825] 11370.4 0 10303.5 1.10355
229 breast cancer antiestrogen resistance 3. [refseq;acc:nm_003567] 202.094 1 226.401 1.12028
poly (adp-ribose) glycohydrolase. [refseq;acc:nm_003631] 9878.1 0 10899.4 1.10339
230 cysteine-rich protein 1 (crp1) (crp). [swissprot;acc:p21291] 267.915 1 239.35 1.11934
tigger transposable element derived 7; jerky (mouse) homolog-like. [refseq;acc:nm_033208] 11207.7 0 12364.7 1.10323
231 likely ortholog of mouse shc sh2-domain binding protein 1. [refseq;acc:nm_024745] 267.881 1 239.336 1.11927
tigger transposable element derived 1; jerky (mouse) homolog-like. [refseq;acc:nm_145702] 11207.9 0 12364.8 1.10322
232 kynureninase (ec 3.7.1.3) (l-kynurenine hydrolase). [swissprot;acc:q16719] 11240.2 12394.7 1.10271
smooth muscle cell lim protein (cysteine-rich protein 2) (crp2) (lim-only protein 5). [swissprot;acc:q16527] 267.879 1 239.336 1.11926
233 60s acidic ribosomal protein p1. [swissprot;acc:p05386] 10560 0 9586.97 1.1015
lim domain protein, cardiac (muscle lim protein) (cysteine-rich protein 3) (crp3). [swissprot;acc:p50461] 267.842 1 239.32 1.11918
234 chromatin accessibility complex protein 1 (chrac-1) (chrac-15) (huchrac15) (dna polymerase epsilon subunit p15). [swissprot;acc:q9nrg0] 256.835 287.41 1.11905
transcription factor 4 (immunoglobulin transcription factor 2) (itf-2) (sl3-3 enhancer factor 2) (sef-2). [swissprot;acc:p15884] 18296 0 16614 1.10124
235 elongation factor 1-alpha 1 (ef-1-alpha-1) (elongation factor 1 a-1) (eef1a-1) (elongation factor tu) (ef-tu). [swissprot;acc:p04720] 16027.9 14554.5 1.10123
phenylalanine-4-hydroxylase (ec 1.14.16.1) (pah) (phe-4- monooxygenase). [swissprot;acc:p00439] 254.15 1 227.357 1.11785
236 pp3111 protein. [refseq;acc:nm_022156]
protein phosphatase inhibitor 2 (ipp-2). [swissprot;acc:p41236] 16788.5 0 15245.4 1.10122
237 bifunctional 3'-phosphoadenosine 5'-phosphosulfate synthethase 2 (paps synthethase 2) (papss 2) (sulfurylase kinase 2) (sk2) (sk 2) [includes: sulfate adenylyltransferase (ec 2.7.7.4) (sulfate adenylate transferase) (sat) (atp-sulfurylase); adenylylsulfate kinase (ec 2.7.1.25) (adenylylsulfate 3'-phosphotransferase) (aps kinase) (adenosine-5'-phosphosulfate 3'-phosphotransferase) (3'- phosphoadenosine-5'-phosphosulfate synthetase)]. [swissprot;acc:o95340] 9067 9984 1.10114
syntaxin 18. [swissprot;acc:q9p2w9] 254.15 1 227.357 1.11785

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/