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.


Navigation/Query Panel:
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 description Value Type Network Comparison Type Interaction Map Filtered red green network_comparison
Results: HTML CSV LaTeX Showing element 1380 to 1429 of 8289 in total
Value Type  : Measured
Network Comparison Type  : Divided
Filtered  : 1
Rank
description
Interaction Map
red
green
network_comparison
690 chromosome x open reading frame 9; likely ortholog of mouse sh3 gene sly. [refseq;acc:nm_018990] Low confidence 8530.46 8175.53 1.04341
691 5'-amp-activated protein kinase, beta-1 subunit (ampk beta-1 chain) (ampkb). [swissprot;acc:q9y478] High confidence 6920.69 7747.63 1.11949
sterol o-acyltransferase 2 (ec 2.3.1.26) (cholesterol acyltransferase 2) (acyl coenzyme a:cholesterol acyltransferase 2) (acat-2). [swissprot;acc:o75908] Low confidence 7643.24 7974.94 1.0434
692 5'-amp-activated protein kinase, gamma-2 subunit (ampk gamma-2 chain) (ampk gamma2) (h91620p). [swissprot;acc:q9ugj0] High confidence 6920.69 7747.63 1.11949
homer, neuronal immediate early gene, 2; homer homolog 3 (drosophila). [refseq;acc:nm_004839] Low confidence 7229.1 7542.73 1.04338
693 j kappa-recombination signal binding protein (rbp-j kappa). [swissprot;acc:q06330] High confidence 7725.1 8647.74 1.11943
sterol o-acyltransferase 1 (ec 2.3.1.26) (cholesterol acyltransferase 1) (acyl coenzyme a:cholesterol acyltransferase 1) (acat-1). [swissprot;acc:p35610] Low confidence 7644.92 7976.53 1.04338
694 human immunodeficiency virus type i enhancer binding protein 3. [refseq;acc:nm_024503] High confidence 7725.1 8647.74 1.11943
ring finger protein 10. [refseq;acc:nm_014868] Low confidence 7644.85 7976.46 1.04338
695 solute carrier family 35, member b2; 3'-phosphoadenosine 5'-phosphosulfate transporter. [refseq;acc:nm_178148] 8810.44 9191.9 1.0433
zinc finger protein 40 (human immunodeficiency virus type i enhancer- binding protein 1) (hiv-ep1) (major histocompatibility complex binding protein 1) (mbp-1) (positive regulatory domain ii binding factor 1) (prdii-bf1). [swissprot;acc:p15822] High confidence 7725.1 8647.74 1.11943
696 aminoacylase-1 (ec 3.5.1.14) (n-acyl-l-amino-acid amidohydrolase) (acy-1). [swissprot;acc:q03154] Low confidence 8004.18 8350.7 1.04329
human immunodeficiency virus type i enhancer-binding protein 2 (hiv-ep2). [swissprot;acc:p31629] High confidence 7725.1 8647.74 1.11943
697 enteropeptidase precursor (ec 3.4.21.9) (enterokinase). [swissprot;acc:p98073] Low confidence 7691.66 8024.18 1.04323
sh3-containing grb2-like protein 2 (sh3 domain protein 2a) (endophilin 1) (een-b1). [swissprot;acc:q99962] High confidence 7105.27 7953.71 1.11941
698 armet protein precursor (arginine-rich protein). [swissprot;acc:p55145] 7101.95 7949.85 1.11939
polyamine oxidase isoform 1; polyamine oxidase; flavin-containing spermine oxidase; putative cyclin g1 interacting protein; flavin containing amine oxidase. [refseq;acc:nm_019025] Low confidence 8800.04 9180.2 1.0432
699 histidine decarboxylase (ec 4.1.1.22) (hdc). [swissprot;acc:p19113] High confidence 7101.94 7949.84 1.11939
ponsin; sh3-domain protein 5 (ponsin). [refseq;acc:nm_015385] Low confidence 7624.08 7952.91 1.04313
700 40s ribosomal protein s28. [swissprot;acc:p25112] High confidence 7161.14 8015.92 1.11936
mitochondrial carrier protein mgc4399. [refseq;acc:nm_032315] Low confidence 8059.36 8406.81 1.04311
701 cathepsin l2 precursor (ec 3.4.22.43) (cathepsin v) (cathepsin u). [swissprot;acc:o60911] 7280.59 7593.87 1.04303
importin-alpha re-exporter (chromosome segregation 1-like protein) (cellular apoptosis susceptibility protein). [swissprot;acc:p55060] High confidence 7802.31 8731.82 1.11913
702 lbp-9. [refseq;acc:nm_014553] Low confidence 7067.65 7371.74 1.04303
sh3-containing grb2-like protein 3 (sh3 domain protein 2c) (een-b2). [swissprot;acc:q99963] High confidence 7067.46 7909.27 1.11911
703 mitochondrial intermediate peptidase, mitochondrial precursor (ec 3.4.24.59) (mip). [swissprot;acc:q99797] Low confidence 8539.46 8906.94 1.04303
nascent-polypeptide-associated complex alpha polypeptide. [refseq;acc:nm_005594] High confidence 6912.56 7735.12 1.11899
704 alpha-nac protein. [sptrembl;acc:q9h009] 6912.27 7734.68 1.11898
transcription factor cp2; transcription factor cp2, alpha globin. [refseq;acc:nm_005653] Low confidence 7068.18 7372.24 1.04302
705 alpha-amylase, salivary precursor (ec 3.2.1.1) (1,4-alpha-d-glucan glucanohydrolase). [swissprot;acc:p04745] 7068.57 7372.62 1.04301
small gtp-binding tumor suppressor 1. [refseq;acc:nm_145173] High confidence 6912.09 7734.41 1.11897
706 di-ras2. [refseq;acc:nm_017594] 6912.08 7734.39
elongation factor 1-beta (ef-1-beta). [swissprot;acc:p24534] Low confidence 7733.49 8066.07 1.04301
707 c18b11 homolog (44.9kd). [refseq;acc:nm_152260] High confidence 5317.78 5944.25 1.11781
upstream binding protein 1 (lbp-1a). [refseq;acc:nm_014517] Low confidence 7069.69 7373.69 1.043
708 cathepsin l precursor (ec 3.4.22.15) (major excreted protein) (mep). [swissprot;acc:p07711] 7278.71 7591.58 1.04298
z-protein (protein cgi-119) (s1r protein). [swissprot;acc:q9hc24] High confidence 5317.78 5944.25 1.11781
709 gtp-binding protein sar1b. [swissprot;acc:q9y6b6] Low confidence 7917.51 8257.75 1.04297
pp1201 protein. [refseq;acc:nm_022152] High confidence 5317.78 5944.25 1.11781
710 lifeguard; kiaa0950 protein. [refseq;acc:nm_012306]
rna 3'-terminal phosphate cyclase-like protein (hspc338). [swissprot;acc:q9y2p8] Low confidence 7822.22 8158.36 1.04297
711 sam-domain protein samsn-1 (sam domain, sh3 domain and nuclear localisation signals protein 1). [swissprot;acc:q9nsi8] 8534.3 8182.77 1.04296
sterol regulatory element binding protein-2 (srebp-2) (sterol regulatory element-binding transcription factor 2). [swissprot;acc:q12772] High confidence 5317.78 5944.25 1.11781
712 mitogen-activated protein kinase kinase kinase 3 (ec 2.7.1.-) (mapk/erk kinase kinase 3) (mek kinase 3) (mekk 3). [swissprot;acc:q99759] Low confidence 8281.14 8636.93 1.04296
sterol regulatory element binding protein-1 (srebp-1) (sterol regulatory element-binding transcription factor 1). [swissprot;acc:p36956] High confidence 5317.78 5944.25 1.11781
713 c1 domain-containing phosphatase and tensin-like protein isoform 2; putative protein tyrosine phosphatase; c1 domain-containing phosphatase and tensin-like protein; tensin 2. [refseq;acc:nm_015319] Low confidence 7273.8 7586.18 1.04295
upf0202 protein kiaa1709. [swissprot;acc:q9h0a0] High confidence 3996.81 4465.61 1.11729
714 dihydropyrimidine dehydrogenase [nadp+] precursor (ec 1.3.1.2) (dpd) (dhpdhase) (dihydrouracil dehydrogenase) (dihydrothymine dehydrogenase). [swissprot;acc:q12882] 5222.71 5834.57 1.11715
sam and sh3 domain containing 1. [refseq;acc:nm_015278] Low confidence 8534.42 8183.02 1.04294
715 dendritic cell protein. [refseq;acc:nm_006360] High confidence 6593.17 7364.55 1.117

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/