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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Rank Gene Value Type description Network Comparison Type Interaction Map Filtered red green network_comparison
Results: HTML CSV LaTeX Showing element 2130 to 2179 of 8289 in total
Value Type  : Measured
Network Comparison Type  : Divided
Filtered  : 1
Rank
description
Interaction Map
red
green
network_comparison
1065 porphobilinogen deaminase (ec 4.3.1.8) (hydroxymethylbilane synthase) (hmbs) (pre-uroporphyrinogen synthase) (pbg-d). [swissprot;acc:p08397] Low confidence 7837.41 8131.17 1.03748
1066 leucyl-trna synthetase. [refseq;acc:nm_020117] High confidence 5417.06 5917.79 1.09244
shroom-related protein; f-actin-binding protein; likely ortholog of mouse shroom. [refseq;acc:nm_020859] Low confidence 7946.14 8243.93 1.03748
1067 adaptor-related protein complex 1, mu 1 subunit (mu-adaptin 1) (adaptor protein complex ap-1 mu-1 subunit) (golgi adaptor ha1/ap1 adaptin mu-1 subunit) (clathrin assembly protein assembly protein complex 1 medium chain 1) (clathrin coat assembly protein ap47) (clathrin coat associated protein ap47) (ap-mu chain family member mu1a). [swissprot;acc:q9bxs5] 7794.59 8086.72
probable leucyl-trna synthetase, mitochondrial precursor (ec 6.1.1.4) (leucine--trna ligase) (leurs). [swissprot;acc:q15031] High confidence 5417.07 5917.79 1.09243
1068 exocyst complex component sec15a. [swissprot;acc:q8tag9] 6201.54 6774.35 1.09237
lactation elevated 1; cg8520 gene product; lactation elevated-1. [refseq;acc:nm_145315] Low confidence 8377.37 8691.26 1.03747
1069 elongation factor 2 (ef-2). [swissprot;acc:p13639] High confidence 5494.73 6001.08 1.09215
puromycin-sensitive aminopeptidase (ec 3.4.11.-) (psa). [swissprot;acc:p55786] Low confidence 8043.1 8344.4 1.03746
1070 coatomer delta subunit (delta-coat protein) (delta-cop) (archain). [swissprot;acc:p48444] 8031.35 8332.24
metabotropic glutamate receptor 2 precursor (mglur2). [swissprot;acc:q14416] High confidence 5494.73 6001.08 1.09215
1071 metabotropic glutamate receptor 3 precursor (mglur3). [swissprot;acc:q14832]
ubiquitin. [swissprot;acc:p02248] Low confidence 8012.12 8312.15 1.03745
1072 apical-like protein (apxl protein). [swissprot;acc:q13796] 7945.84 8242.97 1.03739
prefoldin subunit 3 (von hippel-lindau binding protein 1) (vhl binding protein-1) (vbp-1) (hibbj46). [swissprot;acc:q15765] High confidence 5207.39 5687.2 1.09214
1073 26s proteasome non-atpase regulatory subunit 12 (26s proteasome regulatory subunit p55). [swissprot;acc:o00232] Low confidence 8358.82 8671.34 1.03739
prefoldin subunit 2 (hspc231). [swissprot;acc:q9uhv9] High confidence 5207.39 5687.2 1.09214
1074 exocyst complex component sec15a. [swissprot;acc:q8tag9] Low confidence 8150.76 8455.21 1.03735
uxt protein (ubiquitously expressed transcript protein) (hspc024). [swissprot;acc:q9ubk9] High confidence 5207.39 5687.2 1.09214
1075 guanine nucleotide-binding protein beta subunit 4 (transducin beta chain 4). [swissprot;acc:q9hav0] Low confidence 7720.27 8008.52 1.03734
phosphatidate cytidylyltransferase 1 (ec 2.7.7.41) (cdp-diglyceride synthetase 1) (cdp-diglyceride pyrophosphorylase 1) (cdp- diacylglycerol synthase 1) (cds 1) (ctp:phosphatidate cytidylyltransferase 1) (cdp-dag synthase 1) (cdp-dg synthetase 1). [swissprot;acc:q92903] High confidence 6441.56 7034.86 1.09211
1076 katanin p80 subunit b 1; katanin (80 kda); katanin p80 (wd40-containing) subunit b 1. [refseq;acc:nm_005886] Low confidence 7992.1 8290.46 1.03733
solute carrier family 13, member 4 (na+/sulfate cotransporter sut-1). [swissprot;acc:q9ukg4] High confidence 6439.63 7032.19 1.09202
1077 60s ribosomal protein l8. [swissprot;acc:p25120] Low confidence 8157.25 8461.66 1.03732
solute carrier family 13, member 3 (sodium-dependent high-affinity dicarboxylate transporter 2) (na(+)/dicarboxylate cotransporter 3) (nadc-3) (hnadc3). [swissprot;acc:q8wwt9] High confidence 6439.66 7032.22 1.09202
1078 glycyl-trna synthetase (ec 6.1.1.14) (glycine--trna ligase) (glyrs). [swissprot;acc:p41250] Low confidence 7948.9 8245.45 1.03731
solute carrier family 13, member 1 (renal sodium/sulfate cotransporter) (na(+)/sulfate cotransporter) (hnasi-1). [swissprot;acc:q9bzw2] High confidence 6439.63 7032.19 1.09202
1079 solute carrier family 13, member 2 (renal sodium/dicarboxylate cotransporter) (na(+)/dicarboxylate cotransporter 1) (nadc-1). [swissprot;acc:q13183] 6439.66 7032.22
thromboxane-a synthase (ec 5.3.99.5) (txa synthase) (txs). [swissprot;acc:p24557] Low confidence 8008.28 8307 1.0373
1080 ras-related protein rab-18. [swissprot;acc:q9np72] 8237.83 8545.01 1.03729
secretory carrier-associated membrane protein 2. [swissprot;acc:o15127] High confidence 6439.3 7031.73 1.092
1081 exocyst complex component sec15b. [swissprot;acc:q9y2d4] Low confidence 8149.38 8453.2 1.03728
secretory carrier-associated membrane protein 3. [swissprot;acc:o14828] High confidence 6439.3 7031.73 1.092
1082 lymphoid enhancer binding factor 1 (lef-1) (t cell-specific transcription factor 1-alpha) (tcf1-alpha). [swissprot;acc:q9uju2] Low confidence 7502.79 7782.47 1.03728
secretory carrier-associated membrane protein 1. [swissprot;acc:o15126] High confidence 6439.35 7031.8 1.092
1083 60s ribosomal protein l18a. [swissprot;acc:q02543] Low confidence 7735.75 8024.04 1.03727
exocyst complex component sec15b. [swissprot;acc:q9y2d4] High confidence 6213.51 6785.04 1.09198
1084 nadh-ubiquinone oxidoreductase mlrq subunit (ec 1.6.5.3) (ec 1.6.99.3) (complex i-mlrq) (ci-mlrq). [swissprot;acc:o00483] Low confidence 7936.58 8232.26 1.03726
phosphatidate cytidylyltransferase 2 (ec 2.7.7.41) (cdp-diglyceride synthetase 2) (cdp-diglyceride pyrophosphorylase 2) (cdp- diacylglycerol synthase 2) (cds 2) (ctp:phosphatidate cytidylyltransferase 2) (cdp-dag synthase 2) (cdp-dg synthetase 2). [swissprot;acc:o95674] High confidence 6437.49 7029.22 1.09192
1085 glycerol-3-phosphate transporter (g-3-p transporter) (g-3-p permease). [swissprot;acc:p57057] 6520.28 7119.28 1.09187
nadh:ubiquinone oxidoreductase mlrq subunit homolog (nuoms). [swissprot;acc:q9nrx3] Low confidence 7936.58 8232.26 1.03726
1086 cdc5-like; cdc5 (cell division cycle 5, s. pombe, homolog)-like; cell division cycle 5, s. pombe, homolog-like; cdc5-related protein. [refseq;acc:nm_001253]
proline oxidase, mitochondrial precursor (ec 1.5.3.-) (proline dehydrogenase). [swissprot;acc:o43272] High confidence 6520.28 7119.28 1.09187
1087 cad protein [includes: glutamine-dependent carbamoyl-phosphate synthase (ec 6.3.5.5); aspartate carbamoyltransferase (ec 2.1.3.2); dihydroorotase (ec 3.5.2.3)]. [swissprot;acc:p27708] Low confidence 8173.2 8477.69 1.03725
junction plakoglobin (desmoplakin iii). [swissprot;acc:p14923] High confidence 5732.73 6256.63 1.09139
1088 tax interaction protein 1. [refseq;acc:nm_014604]
thioredoxin interacting protein; upregulated by 1,25-dihydroxyvitamin d-3. [refseq;acc:nm_006472] Low confidence 8012.03 8310.32 1.03723
1089 metaxin 1. [swissprot;acc:q13505] 8387.04 8699.24 1.03722
serine--pyruvate aminotransferase (ec 2.6.1.51) (spt) (alanine-- glyoxylate aminotransferase) (ec 2.6.1.44) (agt). [swissprot;acc:p21549] High confidence 6390.28 6973.08 1.0912
1090 catenin (cadherin-associated protein), alpha-like 1; alpha-catulin. [refseq;acc:nm_003798] Low confidence 8271.17 8579.05 1.03722

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/