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 description Value Type Network Comparison Type Interaction Map Filtered red green network_comparison
Results: HTML CSV LaTeX Showing element 1101 to 1150 of 6456 in total
Value Type  : Measured
Interaction Map  : High confidence
Filtered  : 1
Rank
description
Network Comparison Type
red
green
network_comparison
551 adenylosuccinate synthase-like 1. [refseq;acc:nm_152328] Subtracted 6503.1 7282.94 779.84
repressor of estrogen receptor activity; b-cell associated protein. [refseq;acc:nm_007273] Divided 5773.45 6563.69 1.13687
552 adenylosuccinate synthetase (ec 6.3.4.4) (imp--aspartate ligase) (adss) (ampsase). [swissprot;acc:p30520] Subtracted 6503.03 7282.5 779.47
cleavage stimulation factor, 64 kda subunit (cstf 64 kda subunit) (cf-1 64 kda subunit). [swissprot;acc:p33240] Divided 15427.2 13572.8 1.13663
553 coatomer beta subunit (beta-coat protein) (beta-cop). [swissprot;acc:p53618] Subtracted 10430.3 9656.4 773.9
tgf beta-inducible nuclear protein 1; hairy cell leukemia protein 1. [refseq;acc:nm_014886] Divided 3853.64 4379.71 1.13651
554 dendritic cell protein. [refseq;acc:nm_006360] Subtracted 6593.17 7364.55 771.38
pre-mrna cleavage complex ii protein clp1. [swissprot;acc:q92989] Divided 14830.5 13050.3 1.13641
555 potential carboxypeptidase-like protein x2 precursor. [swissprot;acc:q8n436] Subtracted 6593.17 7364.55 771.38
selenide,water dikinase 2 (ec 2.7.9.3) (selenophosphate synthetase 2) (selenium donor protein 2). [swissprot;acc:q99611] Divided 6167.93 7007.7 1.13615
556 carboxypeptidase n catalytic chain precursor (ec 3.4.17.3) (arginine carboxypeptidase) (kininase 1) (serum carboxypeptidase n) (scpn) (anaphylatoxin inactivator) (plasma carboxypeptidase b). [swissprot;acc:p15169] Subtracted 6593.17 7364.55 771.38
flavoprotein oxidoreductase mical2. [refseq;acc:nm_014632] Divided 6167.93 7007.7 1.13615
557 cpz gene product. [refseq;acc:nm_003652] Subtracted 6593.17 7364.55 771.38
inositol polyphosphate-4-phosphatase, type ii, 105kd; inositol polyphosphate 4-phosphatase ii; 4-phosphatase ii. [refseq;acc:nm_003866] Divided 6167.93 7007.7 1.13615
558 carboxypeptidase h precursor (ec 3.4.17.10) (cph) (carboxypeptidase e) (cpe) (enkephalin convertase) (prohormone processing carboxypeptidase). [swissprot;acc:p16870] Subtracted 6593.17 7364.55 771.38
selenide,water dikinase 1 (ec 2.7.9.3) (selenophosphate synthetase 1) (selenium donor protein 1). [swissprot;acc:p49903] Divided 6167.93 7007.7 1.13615
559 inositol polyphosphate-4-phosphatase, type 1 isoform b; inositol polyphosphate-4-phosphatase, type i, 107kd; 4-phosphatase i; inositol polyphosphate-4-phosphatase i. [refseq;acc:nm_001566]
potential carboxypeptidase x precursor (ec 3.4.17.-) (metallocarboxypeptidase cpx-1). [swissprot;acc:q96sm3] Subtracted 6593.17 7364.55 771.38
560 cystathionine beta-synthase (ec 4.2.1.22) (serine sulfhydrase) (beta-thionase). [swissprot;acc:p35520] Divided 5480.24 6222.04 1.13536
partitioning defective-6 homolog gamma (par-6 gamma) (par6d). [swissprot;acc:q9byg4] Subtracted 6374.65 7145.59 770.94
561 transforming protein rhoc (h9). [swissprot;acc:p08134] Divided 5480.24 6222.04 1.13536
tubby protein homolog. [swissprot;acc:p50607] Subtracted 6374.65 7145.59 770.94
562 protein kinase c, iota type (ec 2.7.1.37) (npkc-iota) (atypical protein kinase c-lamda/iota) (apkc-lambda/iota). [swissprot;acc:p41743]
thiosulfate sulfurtransferase (ec 2.8.1.1) (rhodanese). [swissprot;acc:q16762] Divided 5480.24 6222.04 1.13536
563 3-mercaptopyruvate sulfurtransferase (ec 2.8.1.2) (mst). [swissprot;acc:p25325]
numb protein homolog (h-numb) (protein s171). [swissprot;acc:p49757] Subtracted 6374.65 7145.59 770.94
564 tbc1 domain family member 5. [swissprot;acc:q92609]
transforming protein rhoa (h12). [swissprot;acc:p06749] Divided 5480.24 6222.04 1.13536
565 small glutamine-rich tetratricopeptide repeat-containing protein (vpu-binding protein) (ubp). [swissprot;acc:o43765] 10434.4 11846.2 1.1353
tubby related protein 1 (tubby-like protein 1). [swissprot;acc:o00294] Subtracted 6374.65 7145.59 770.94
566 autoantigen ngp-1. [swissprot;acc:q13823] Divided 3766.14 4274.79 1.13506
vacuolar protein sorting 29 (vesicle protein sorting 29) (hvps29) (mds007) (pep11) (dc7/dc15). [swissprot;acc:q9ubq0] Subtracted 6374.65 7145.59 770.94
567 deoxyuridine 5'-triphosphate nucleotidohydrolase, mitochondrial precursor (ec 3.6.1.23) (dutpase) (dutp pyrophosphatase). [swissprot;acc:p33316] Divided 10264.9 9043.51 1.13506
numb-like protein (numb-r). [swissprot;acc:q9y6r0] Subtracted 6374.65 7145.59 770.94
568 grpe protein homolog 2, mitochondrial precursor (mt-grpe#2). [swissprot;acc:q8taa5] Divided 4134.77 4691.24 1.13458
tubby related protein 3 (tubby-like protein 3). [swissprot;acc:o75386] Subtracted 6374.65 7145.59 770.94
569 grpe protein homolog 1, mitochondrial precursor (mt-grpe#1) (hmge). [swissprot;acc:q9hav7] Divided 4134.77 4691.24 1.13458
vacuolar protein sorting 35 (vesicle protein sorting 35) (hvps35) (maternal-embryonic 3). [swissprot;acc:q96qk1] Subtracted 6374.65 7145.59 770.94
570 protein kinase c, zeta type (ec 2.7.1.37) (npkc-zeta). [swissprot;acc:q05513]
swi/snf-related matrix-associated actin-dependent regulator of chromatin d2; rsc6p; mammalian chromatin remodeling complex brg1-associated factor 60b; swp73-like protein; chromatin remodeling complex baf60b subunit; swi/snf complex 60 kda subunit b. [refseq;acc:nm_003077] Divided 4134.77 4691.24 1.13458
571 odd-skipped related 1; odz (odd oz/ten-m) related 1. [refseq;acc:nm_145260] Subtracted 3856.29 4624.15 767.86
swi/snf-related matrix-associated actin-dependent regulator of chromatin d3; rsc6p; mammalian chromatin remodeling complex brg1-associated factor 60c; swp73-like protein; chromatin remodeling complex baf60c subunit; swi/snf complex 60 kda subunit c. [refseq;acc:nm_003078] Divided 4134.77 4691.24 1.13458
572 pyrroline 5-carboxylate reductase isoform. [refseq;acc:nm_013328] Subtracted 5277.4 6042.88 765.48
swi/snf related, matrix associated, actin dependent regulator of chromatin subfamily d member 1 (swi/snf complex 60 kda subunit) (brg1- associated factor 60a). [swissprot;acc:q96gm5] Divided 4134.77 4691.24 1.13458
573 homeobox protein hox-a10 (hox-1h) (hox-1.8) (pl). [swissprot;acc:p31260] 6739.43 7644.55 1.1343
pyrroline-5-carboxylate reductase (ec 1.5.1.2) (p5cr) (p5c reductase). [swissprot;acc:p32322] Subtracted 5281.11 6044.61 763.5
574 galectin-4 (lactose-binding lectin 4) (l-36 lactose binding protein) (l36lbp) (antigen ny-co-27). [swissprot;acc:p56470] 7817.9 8575.12 757.22
homeobox protein hox-b9 (hox-2e) (hox-2.5). [swissprot;acc:p17482] Divided 6739.61 7644.58 1.13428
575 homeobox protein hox-a9 (hox-1g). [swissprot;acc:p31269] 6739.63 7644.59 1.13427
spectrin beta chain, brain 4 (spectrin, non-erythroid beta chain 4) (beta-v spectrin) (bspecv). [swissprot;acc:q9nrc6] Subtracted 7813.48 8570.11 756.63

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/