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 Network Comparison Type Hugo description Value Type Interaction Map Filtered network_comparison red green
Results: HTML CSV LaTeX Showing element 1801 to 1850 of 6456 in total
Value Type  : Ranked
Interaction Map  : High confidence
Filtered  : 1
Rank
Network Comparison Type
Hugo
description
network_comparison
red
green
901 Divided SSRP1 structure-specific recognition protein 1 (ssrp1) (recombination signal sequence recognition protein) (t160) (chromatin-specific transcription elongation factor 80 kda subunit) (fact 80 kda subunit). [swissprot;acc:q08945] 1.03872 237.62 228.762
Subtracted DIRAS1 small gtp-binding tumor suppressor 1. [refseq;acc:nm_145173] 7.973 212.028 204.055
902 Divided SUPT16H chromatin-specific transcription elongation factor large subunit. [refseq;acc:nm_007192] 1.03872 237.62 228.762
Subtracted DIRAS2 di-ras2. [refseq;acc:nm_017594] 7.973 212.028 204.055
903 Divided EIF3G eukaryotic translation initiation factor 3 subunit 4 (eif-3 delta) (eif3 p44) (eif-3 rna-binding subunit) (eif3 p42) (eif3g). [swissprot;acc:o75821] 1.03849 246.354 237.223
Subtracted no value uba/ubx 33.3 kda protein. [swissprot;acc:q04323] 7.961 217.168 209.207
904 Divided EIF3A eukaryotic translation initiation factor 3 subunit 10 (eif-3 theta) (eif3 p167) (eif3 p180) (eif3 p185) (eif3a). [swissprot;acc:q14152] 1.03849 246.354 237.223
Subtracted CIRH1A cirhin; testis expressed gene 292; cirrhosis, autosomal recessive 1a. [refseq;acc:nm_032830] 7.961 243.312 235.351
905 Divided no value dna directed rna polymerase ii polypeptide j-related gene isoform 3; rpb11b1alpha protein; rpb11b1beta; dna-directed rna polymerase ii subunit 11. [refseq;acc:nm_032959] 1.03841 230.768 239.632
Subtracted ero1-like. [refseq;acc:nm_014584] 7.961 217.168 209.207
906 Divided dna directed rna polymerase ii polypeptide j-related gene isoform 1; rpb11b1alpha protein; rpb11b1beta; dna-directed rna polymerase ii subunit 11. [refseq;acc:nm_145325] 1.03838 230.764 239.62
Subtracted RSL1D1 pbk1 protein. [sptrembl;acc:o76021] 7.959 243.312 235.353
907 Divided JUP junction plakoglobin (desmoplakin iii). [swissprot;acc:p14923] 1.03827 223.906 215.653
Subtracted MTRF1 peptide chain release factor 1, mitochondrial precursor (mrf-1). [swissprot;acc:o75570] 7.959 225.976 218.017
908 Divided no value tax interaction protein 1. [refseq;acc:nm_014604] 1.03827 223.906 215.653
Subtracted ZNF547 sedlin. [swissprot;acc:o14582] 7.958 129.219 121.261
909 Divided SEPT1 septin 1 (larp) (serologically defined breast cancer antigen ny-br- 24). [swissprot;acc:q8wyj6] 1.03823 142.077 136.846
Subtracted no value synbindin (trs23 homolog) (hematopoietic stem/progenitor cell protein 172) (hspc172) (ptd009) (cgi-104). [swissprot;acc:q9y296] 7.958 129.219 121.261
910 Divided uba/ubx 33.3 kda protein. [swissprot;acc:q04323] 1.03805 217.168 209.207
Subtracted TRAPPC3 bet3 homolog. [swissprot;acc:o43617] 7.958 129.219 121.261
911 Divided no value ero1-like. [refseq;acc:nm_014584] 1.03805 217.168 209.207
Subtracted MPDU1 mannose-p-dolichol utilization defect 1 protein (suppressor of lec15 and lec35 glycosylation mutation homolog) (sl15). [swissprot;acc:o75352] 7.94 225.955 218.015
912 Divided WDR3 wd-repeat protein 3. [swissprot;acc:q9unx4] 1.03803 243.896 234.96
Subtracted MTRF1L mitochondrial translational release factor 1-like. [refseq;acc:nm_019041] 7.926 225.939 218.013
913 Divided TGS1 prip-interacting protein pipmt; prip-interacting protein with methyltransferase domain. [refseq;acc:nm_024831] 1.03801 210.863 218.878
Subtracted DDX52 atp-dependent rna helicase rok1; atp-dependent rna helicase. [refseq;acc:nm_007010] 7.924 243.297 235.373
914 Divided GOPC pdz/coiled-coil domain binding partner for the rho-family gtpase tc10; fused in glioblastoma; golgi associated pdz and coiled-coil motif containing protein; cftr-associated ligand. [refseq;acc:nm_020399] 1.03801 210.863 218.878
Subtracted no value guanine nucleotide-binding protein beta subunit-like protein 12.3 (p205) (receptor of activated protein kinase c 1) (rack1) (receptor for activated c kinase). [swissprot;acc:p25388] 7.881 237.558 229.677
915 Divided TRMU trna (5-methylaminomethyl-2-thiouridylate)-methyltransferase (ec 2.1.1.61). [swissprot;acc:o75648] 1.03798 146.036 140.692
Subtracted ZRF1 zuotin related factor-1 (m-phase phosphoprotein 11). [swissprot;acc:q99543] 7.881 237.558 229.677
916 Divided HAO2 hydroxyacid oxidase 2 (ec 1.1.3.15) (haox2) ((s)-2-hydroxy-acid oxidase, peroxisomal) (long chain alpha-hydroxy acid oxidase) (long- chain l-2-hydroxy acid oxidase). [swissprot;acc:q9nyq3] 1.03774 232.512 241.288
Subtracted no value histone h4. [swissprot;acc:p02304] 7.863 227.765 219.902
917 Divided CDC73 parafibromin. [refseq;acc:nm_024529] 1.03772 239.704 230.991
Subtracted DNASE2B deoxyribonuclease ii beta isoform 1 precursor; deoxyribonuclease ii beta; endonuclease dlad. [refseq;acc:nm_021233] 7.8488 86.7483 78.8995
918 Divided SORBS1 ponsin; sh3-domain protein 5 (ponsin). [refseq;acc:nm_015385] 1.03731 212.952 205.292
Subtracted IMMP2L imp2 inner mitochondrial membrane protease-like; inner mitochondrial membrane peptidase 2 like. [refseq;acc:nm_032549] 7.803 217.942 210.139
919 Divided MDN1 midasin (midas-containing protein). [swissprot;acc:q9nu22] 1.03725 237.218 228.698
Subtracted no value microsomal signal peptidase 18 kda subunit (ec 3.4.-.-) (spase 18 kda subunit) (spc18) (endopeptidase sp18). [swissprot;acc:p21378] 7.803 217.942 210.139
920 Divided DEAF1 deformed epidermal autoregulatory factor 1 homolog (nuclear deaf-1 related transcriptional regulator) (nudr) (suppressin) (zinc finger mynd domain containing protein 5). [swissprot;acc:o75398] 1.0372 236.741 245.547
Subtracted BRCA1 breast cancer type 1 susceptibility protein. [swissprot;acc:p38398] 7.769 216.501 224.27
921 Divided RIOK1 rio kinase 1 isoform 1; ad034 protein. [refseq;acc:nm_031480] 1.0372 236.741 245.547
Subtracted WDR46 wd-repeat protein bing4. [swissprot;acc:o15213] 7.752 243.227 235.475
922 Divided MARK1 map/microtubule affinity-regulating kinase 1. [refseq;acc:nm_018650] 1.0372 236.741 245.547
Subtracted PEF1 pef protein with a long n-terminal hydrophobic domain (peflin). [refseq;acc:nm_012392] 7.723 215.665 207.942
923 Divided MARK2 map/microtubule affinity-regulating kinase 2 isoform b; elkl motif kinase 1; elkl motif kinase. [refseq;acc:nm_004954] 1.0372 236.741 245.547
Subtracted HPRT1 hypoxanthine-guanine phosphoribosyltransferase (ec 2.4.2.8) (hgprt) (hgprtase). [swissprot;acc:p00492] 7.702 193.114 185.412
924 Divided SPO11 meiotic recombination protein spo11. [swissprot;acc:q9y5k1] 1.0372 236.741 245.547
Subtracted no value sh2 domain binding protein 1; tpr-containing, sh2-binding phosphoprotein. [refseq;acc:nm_014633] 7.666 238.725 231.059
925 Divided PEF1 pef protein with a long n-terminal hydrophobic domain (peflin). [refseq;acc:nm_012392] 1.03714 215.665 207.942
Subtracted HEATR1 protein bap28. [swissprot;acc:q9h583] 7.665 244.312 236.647

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/