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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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 Hugo description Network Comparison Type Value Type Interaction Map Filtered red network_comparison green
Results: HTML CSV LaTeX Showing element 2058 to 2107 of 12912 in total
Network Comparison Type  : Divided
Interaction Map  : High confidence
Filtered  : 1
Rank
Hugo
description
Value Type
red
network_comparison
green
515 LSM1 u6 snrna-associated sm-like protein lsm1 (small nuclear ribonuclear casm) (cancer-associated sm-like). [swissprot;acc:o15116] Rooted 56.3551 1.09009 61.4322
MPST 3-mercaptopyruvate sulfurtransferase (ec 2.8.1.2) (mst). [swissprot;acc:p25325] Squared 19987.6 1.19878 23960.7
PES1 pescadillo homolog 1. [swissprot;acc:o00541] Ranked 251.297 1.06962 234.941
516 AK2 adenylate kinase isoenzyme 2, mitochondrial (ec 2.7.4.3) (atp-amp transphosphorylase). [swissprot;acc:p54819] Rooted 50.7935 1.08989 46.6042
GALK2 n-acetylgalactosamine kinase (ec 2.7.1.-) (galnac kinase) (galactokinase 2). [swissprot;acc:q01415] Measured 4910.6 1.14051 5600.61
LSM8 u6 snrna-associated sm-like protein lsm8. [swissprot;acc:o95777] Ranked 228.255 1.0695 213.422
RHOA transforming protein rhoa (h12). [swissprot;acc:p06749] Squared 19987.6 1.19878 23960.7
517 no value galactose-1-phosphate uridylyltransferase (ec 2.7.7.12) (gal-1-p uridylyltransferase) (udp-glucose--hexose-1-phosphate uridylyltransferase). [swissprot;acc:p07902] Measured 4910.6 1.14051 5600.61
splicing factor 3b subunit 3 (spliceosome associated protein 130) (sap 130) (sf3b130) (pre-mrna splicing factor sf3b 130 kda subunit). [swissprot;acc:q15393] Squared 19263.3 1.19877 23092.3
EIF3I eukaryotic translation initiation factor 3 subunit 2 (eif-3 beta) (eif3 p36) (eif3i) (tgf-beta receptor interacting protein 1) (trip-1). [swissprot;acc:q13347] Rooted 50.0578 1.08974 54.5502
MTX2 metaxin 2. [swissprot;acc:o75431] Ranked 219.537 1.06949 234.793
518 no value trinucleotide repeat containing 15. [refseq;acc:nm_015575] Rooted 50.0578 1.08974 54.5502
GALE udp-glucose 4-epimerase (ec 5.1.3.2) (galactowaldenase) (udp- galactose 4-epimerase). [swissprot;acc:q14376] Measured 4910.6 1.14051 5600.61
GNL3 nucleostemin; putative nucleotide binding protein, estradiol-induced. [refseq;acc:nm_014366] Ranked 250.858 1.06947 234.563
PROSC proline synthetase co-transcribed bacterial homolog protein. [swissprot;acc:o94903] Squared 11447.3 1.19847 13719.2
519 DVL3 segment polarity protein dishevelled homolog dvl-3 (dishevelled-3) (dsh homolog 3). [swissprot;acc:q92997] Ranked 218.702 1.06902 204.582
GYS1 glycogen [starch] synthase, muscle (ec 2.4.1.11). [swissprot;acc:p13807] Measured 9648.27 1.13957 10994.9
POLI polymerase (dna directed) iota; rad30 (s. cerevisiae) homolog b; polymerase (dna-directed), iota. [refseq;acc:nm_007195] Squared 22387.1 1.19834 26827.3
SEPT8 septin-like protein kiaa0202 (fragment). [swissprot;acc:q92599] Rooted 114.309 1.08939 124.527
520 no value endo-beta-n-acetylglucosaminidase. [refseq;acc:nm_022759] Measured 9642.22 1.13941 10986.4
BCAS2 breast carcinoma amplified sequence 2; spliceosome associated protein, amplified in breast cancer. [refseq;acc:nm_005872] Rooted 61.1902 1.08923 66.6503
PXN paxillin. [swissprot;acc:p49023] Squared 22387.1 1.19834 26827.3
SLC35D2 sqv-7-like protein (fragment). [sptrembl;acc:o95454] Ranked 214.754 1.06897 229.565
521 CDC5L 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] Rooted 61.1902 1.08923 66.6503
CPA5 carboxypeptidase a5. [refseq;acc:nm_080385] Squared 53174 1.19822 44377.4
EXOSC4 exosome complex exonuclease rrp41 (ec 3.1.13.-) (ribosomal rna processing protein 41) (p12a). [swissprot;acc:q9npd3] Ranked 215.237 1.06891 230.07
PRPF3 u4/u6-associated rna splicing factor. [refseq;acc:nm_004698] Measured 5390.78 1.13937 6142.07
522 CPB1 carboxypeptidase b precursor (ec 3.4.17.2) (pancreas-specific protein) (pasp). [swissprot;acc:p15086] Squared 53174 1.19822 44377.4
GYS2 glycogen [starch] synthase, liver (ec 2.4.1.11). [swissprot;acc:p54840] Measured 9634.98 1.1392 10976.2
PLRG1 pleiotropic regulator 1 (prl1homolog, arabidopsis); pleiotropic regulator 1 (prl1, arabidopsis homolog). [refseq;acc:nm_002669] Ranked 222.893 1.06891 208.523
SEPT10 septin 10 isoform 1. [refseq;acc:nm_144710] Rooted 113.733 1.08914 123.871
523 AQP4 aquaporin 4 (wch4) (mercurial-insensitive water channel) (miwc). [swissprot;acc:p55087] Measured 10640.2 1.13887 12117.8
EXOSC2 exosome complex exonuclease rrp4 (ec 3.1.13.-) (ribosomal rna processing protein 4). [swissprot;acc:q13868] Ranked 215.237 1.06891 230.07
RRM1 ribonucleoside-diphosphate reductase m1 chain (ec 1.17.4.1) (ribonucleotide reductase large chain). [swissprot;acc:p23921] Rooted 66.377 1.08899 72.2842
SLC3A1 neutral and basic amino acid transport protein rbat (b(0,+)-type amino acid transport protein) (nbat) (d2h). [swissprot;acc:q07837] Squared 53174 1.19822 44377.4
524 ACY1 aminoacylase-1 (ec 3.5.1.14) (n-acyl-l-amino-acid amidohydrolase) (acy-1). [swissprot;acc:q03154]
AQP5 aquaporin 5. [swissprot;acc:p55064] Measured 10640 1.13887 12117.6
BRP44 brain protein 44. [swissprot;acc:o95563] Rooted 113.374 1.08899 123.463
EXOSC3 exosome complex exonuclease rrp40 (ec 3.1.13.-) (ribosomal rna processing protein 40) (p10) (cgi-102). [swissprot;acc:q9nqt5] Ranked 215.237 1.06891 230.07
525 CPA1 carboxypeptidase a1 precursor (ec 3.4.17.1). [swissprot;acc:p15085] Squared 53174 1.19822 44377.4
EXOSC5 exosome complex exonuclease rrp46 (ec 3.1.13.-) (ribosomal rna processing protein 46) (p12b) (chronic myelogenous leukemia tumor antigen 28). [swissprot;acc:q9nqt4] Ranked 215.237 1.06891 230.07
MIP lens fiber major intrinsic protein (mip26) (mp26) (aquaporin 0). [swissprot;acc:p30301] Measured 10639.8 1.13887 12117.3
SEPT7 septin 7 (cdc10 protein homolog). [swissprot;acc:q16181] Rooted 113.374 1.08899 123.463
526 AQP2 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] Measured 10639.9 1.13886 12117.4
ETFB electron transfer flavoprotein beta-subunit (beta-etf). [swissprot;acc:p38117] Squared 31189.6 1.1976 37352.8
RRP1 nnp-1 protein (novel nuclear protein 1) (nucleolar protein nop52) (nop52) (d21s2056e). [swissprot;acc:p56182] Ranked 250.538 1.06884 234.401
SEPT6 septin 6. [swissprot;acc:q14141] Rooted 113.169 1.0889 123.23
527 DDX31 dead (asp-glu-ala-asp) box polypeptide 31 isoform 1; dead/dexh helicase ddx31. [refseq;acc:nm_022779] Ranked 248.56 1.06871 232.579
DNASE2B deoxyribonuclease ii beta isoform 1 precursor; deoxyribonuclease ii beta; endonuclease dlad. [refseq;acc:nm_021233] Rooted 153.191 1.08865 166.771
LSM5 u6 snrna-associated sm-like protein lsm5. [swissprot;acc:q9y4y9] Squared 18011.9 1.19659 21552.8

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/