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 Hugo Value Type description Network Comparison Type Interaction Map Filtered red green network_comparison
Results: HTML CSV LaTeX Showing element 2075 to 2124 of 12912 in total
Network Comparison Type  : Divided
Interaction Map  : High confidence
Filtered  : 1
Rank
Hugo
Value Type
description
red
green
network_comparison
519 POLI Squared polymerase (dna directed) iota; rad30 (s. cerevisiae) homolog b; polymerase (dna-directed), iota. [refseq;acc:nm_007195] 22387.1 26827.3 1.19834
SEPT8 Rooted septin-like protein kiaa0202 (fragment). [swissprot;acc:q92599] 114.309 124.527 1.08939
520 no value Measured endo-beta-n-acetylglucosaminidase. [refseq;acc:nm_022759] 9642.22 10986.4 1.13941
BCAS2 Rooted breast carcinoma amplified sequence 2; spliceosome associated protein, amplified in breast cancer. [refseq;acc:nm_005872] 61.1902 66.6503 1.08923
PXN Squared paxillin. [swissprot;acc:p49023] 22387.1 26827.3 1.19834
SLC35D2 Ranked sqv-7-like protein (fragment). [sptrembl;acc:o95454] 214.754 229.565 1.06897
521 CDC5L Rooted 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] 61.1902 66.6503 1.08923
CPA5 Squared carboxypeptidase a5. [refseq;acc:nm_080385] 53174 44377.4 1.19822
EXOSC4 Ranked exosome complex exonuclease rrp41 (ec 3.1.13.-) (ribosomal rna processing protein 41) (p12a). [swissprot;acc:q9npd3] 215.237 230.07 1.06891
PRPF3 Measured u4/u6-associated rna splicing factor. [refseq;acc:nm_004698] 5390.78 6142.07 1.13937
522 CPB1 Squared carboxypeptidase b precursor (ec 3.4.17.2) (pancreas-specific protein) (pasp). [swissprot;acc:p15086] 53174 44377.4 1.19822
GYS2 Measured glycogen [starch] synthase, liver (ec 2.4.1.11). [swissprot;acc:p54840] 9634.98 10976.2 1.1392
PLRG1 Ranked pleiotropic regulator 1 (prl1homolog, arabidopsis); pleiotropic regulator 1 (prl1, arabidopsis homolog). [refseq;acc:nm_002669] 222.893 208.523 1.06891
SEPT10 Rooted septin 10 isoform 1. [refseq;acc:nm_144710] 113.733 123.871 1.08914
523 AQP4 Measured aquaporin 4 (wch4) (mercurial-insensitive water channel) (miwc). [swissprot;acc:p55087] 10640.2 12117.8 1.13887
EXOSC2 Ranked exosome complex exonuclease rrp4 (ec 3.1.13.-) (ribosomal rna processing protein 4). [swissprot;acc:q13868] 215.237 230.07 1.06891
RRM1 Rooted ribonucleoside-diphosphate reductase m1 chain (ec 1.17.4.1) (ribonucleotide reductase large chain). [swissprot;acc:p23921] 66.377 72.2842 1.08899
SLC3A1 Squared neutral and basic amino acid transport protein rbat (b(0,+)-type amino acid transport protein) (nbat) (d2h). [swissprot;acc:q07837] 53174 44377.4 1.19822
524 ACY1 aminoacylase-1 (ec 3.5.1.14) (n-acyl-l-amino-acid amidohydrolase) (acy-1). [swissprot;acc:q03154]
AQP5 Measured aquaporin 5. [swissprot;acc:p55064] 10640 12117.6 1.13887
BRP44 Rooted brain protein 44. [swissprot;acc:o95563] 113.374 123.463 1.08899
EXOSC3 Ranked exosome complex exonuclease rrp40 (ec 3.1.13.-) (ribosomal rna processing protein 40) (p10) (cgi-102). [swissprot;acc:q9nqt5] 215.237 230.07 1.06891
525 CPA1 Squared carboxypeptidase a1 precursor (ec 3.4.17.1). [swissprot;acc:p15085] 53174 44377.4 1.19822
EXOSC5 Ranked exosome complex exonuclease rrp46 (ec 3.1.13.-) (ribosomal rna processing protein 46) (p12b) (chronic myelogenous leukemia tumor antigen 28). [swissprot;acc:q9nqt4] 215.237 230.07 1.06891
MIP Measured lens fiber major intrinsic protein (mip26) (mp26) (aquaporin 0). [swissprot;acc:p30301] 10639.8 12117.3 1.13887
SEPT7 Rooted septin 7 (cdc10 protein homolog). [swissprot;acc:q16181] 113.374 123.463 1.08899
526 AQP2 Measured aquaporin-cd (aqp-cd) (water channel protein for renal collecting duct) (adh water channel) (aquaporin 2) (collecting duct water channel protein) (wch-cd). [swissprot;acc:p41181] 10639.9 12117.4 1.13886
ETFB Squared electron transfer flavoprotein beta-subunit (beta-etf). [swissprot;acc:p38117] 31189.6 37352.8 1.1976
RRP1 Ranked nnp-1 protein (novel nuclear protein 1) (nucleolar protein nop52) (nop52) (d21s2056e). [swissprot;acc:p56182] 250.538 234.401 1.06884
SEPT6 Rooted septin 6. [swissprot;acc:q14141] 113.169 123.23 1.0889
527 DDX31 Ranked dead (asp-glu-ala-asp) box polypeptide 31 isoform 1; dead/dexh helicase ddx31. [refseq;acc:nm_022779] 248.56 232.579 1.06871
DNASE2B Rooted deoxyribonuclease ii beta isoform 1 precursor; deoxyribonuclease ii beta; endonuclease dlad. [refseq;acc:nm_021233] 153.191 166.771 1.08865
LSM5 Squared u6 snrna-associated sm-like protein lsm5. [swissprot;acc:q9y4y9] 18011.9 21552.8 1.19659
PPM1B Measured protein phosphatase 2c beta isoform (ec 3.1.3.16) (pp2c-beta). [swissprot;acc:o75688] 4775.11 5438.18 1.13886
528 AQP1 aquaporin-chip (water channel protein for red blood cells and kidney proximal tubule) (aquaporin 1) (aqp-1) (urine water channel). [swissprot;acc:p29972] 10635.3 12111.4 1.13879
PPP2R1A Squared serine/threonine protein phosphatase 2a, 65 kda regulatory subunit a, alpha isoform (pp2a, subunit a, pr65-alpha isoform) (pp2a, subunit a, r1-alpha isoform) (medium tumor antigen-associated 61 kda protein). [swissprot;acc:p30153] 10606 8868.81 1.19588
WIPF1 Rooted wiskott-aldrich syndrome protein interacting protein (wasp interacting protein) (prpl-2 protein). [swissprot;acc:o43516] 66.941 72.7546 1.08685
YME1L1 Ranked yme1-like 1 isoform 3; atp-dependent metalloprotease ftsh1 homolog. [refseq;acc:nm_014263] 222.146 237.393 1.06864
529 DDX18 atp-dependent rna helicase ddx18 (dead-box protein 18) (myc-regulated dead-box protein) (mrdb). [swissprot;acc:q9nvp1] 251.653 235.506 1.06856
NOL5A Rooted nucleolar protein nop56 (nucleolar protein 5a). [swissprot;acc:o00567] 50.3239 54.6658 1.08628
SLC5A6 Squared sodium-dependent multivitamin transporter (na(+)-dependent multivitamin transporter). [swissprot;acc:q9y289] 28990.9 34656.4 1.19542
TOMM20 Measured mitochondrial import receptor subunit tom20 homolog (mitochondrial 20 kda outer membrane protein) (outer mitochondrial membrane receptor tom20). [swissprot;acc:q15388] 8600.02 9792.49 1.13866
530 LSM6 Ranked u6 snrna-associated sm-like protein lsm6 (sm protein f). [swissprot;acc:q9y4y8] 227.483 212.994 1.06803
MGLL Squared monoglyceride lipase; lysophospholipase-like. [refseq;acc:nm_007283] 27179.5 32490.8 1.19542
PEX19 Measured peroxisomal farnesylated protein (33 kda housekeeping protein) (peroxin 19). [swissprot;acc:p40855] 8600.02 9792.49 1.13866
RPS14 Rooted 40s ribosomal protein s14 (pro2640). [swissprot;acc:p06366] 50.6537 46.6413 1.08603
531 no value 40s ribosomal protein s18 (ke-3) (ke3). [swissprot;acc:p25232]
GTF2B Measured transcription initiation factor iib (general transcription factor tfiib) (s300-ii). [swissprot;acc:q00403] 4651.88 5296.78 1.13863
PRPF19 Ranked nuclear matrix protein nmp200 related to splicing factor prp19. [refseq;acc:nm_014502] 223.356 209.149 1.06793
SLC5A8 Squared solute carrier family 5 (iodide transporter), member 8; apical iodide transporter. [refseq;acc:nm_145913] 28980.7 34643.6 1.1954

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
- Hugo is the HGNC identifier if it exists
- 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/