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 green network_comparison
Results: HTML CSV LaTeX Showing element 1830 to 1879 of 6456 in total
Value Type  : Ranked
Interaction Map  : High confidence
Filtered  : 1
Rank
Hugo
description
Network Comparison Type
red
green
network_comparison
915 ZRF1 zuotin related factor-1 (m-phase phosphoprotein 11). [swissprot;acc:q99543] Subtracted 237.558 229.677 7.881
916 no value histone h4. [swissprot;acc:p02304] 227.765 219.902 7.863
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] Divided 232.512 241.288 1.03774
917 CDC73 parafibromin. [refseq;acc:nm_024529] 239.704 230.991 1.03772
DNASE2B deoxyribonuclease ii beta isoform 1 precursor; deoxyribonuclease ii beta; endonuclease dlad. [refseq;acc:nm_021233] Subtracted 86.7483 78.8995 7.8488
918 IMMP2L imp2 inner mitochondrial membrane protease-like; inner mitochondrial membrane peptidase 2 like. [refseq;acc:nm_032549] 217.942 210.139 7.803
SORBS1 ponsin; sh3-domain protein 5 (ponsin). [refseq;acc:nm_015385] Divided 212.952 205.292 1.03731
919 no value microsomal signal peptidase 18 kda subunit (ec 3.4.-.-) (spase 18 kda subunit) (spc18) (endopeptidase sp18). [swissprot;acc:p21378] Subtracted 217.942 210.139 7.803
MDN1 midasin (midas-containing protein). [swissprot;acc:q9nu22] Divided 237.218 228.698 1.03725
920 BRCA1 breast cancer type 1 susceptibility protein. [swissprot;acc:p38398] Subtracted 216.501 224.27 7.769
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] Divided 236.741 245.547 1.0372
921 RIOK1 rio kinase 1 isoform 1; ad034 protein. [refseq;acc:nm_031480]
WDR46 wd-repeat protein bing4. [swissprot;acc:o15213] Subtracted 243.227 235.475 7.752
922 MARK1 map/microtubule affinity-regulating kinase 1. [refseq;acc:nm_018650] Divided 236.741 245.547 1.0372
PEF1 pef protein with a long n-terminal hydrophobic domain (peflin). [refseq;acc:nm_012392] Subtracted 215.665 207.942 7.723
923 HPRT1 hypoxanthine-guanine phosphoribosyltransferase (ec 2.4.2.8) (hgprt) (hgprtase). [swissprot;acc:p00492] 193.114 185.412 7.702
MARK2 map/microtubule affinity-regulating kinase 2 isoform b; elkl motif kinase 1; elkl motif kinase. [refseq;acc:nm_004954] Divided 236.741 245.547 1.0372
924 no value sh2 domain binding protein 1; tpr-containing, sh2-binding phosphoprotein. [refseq;acc:nm_014633] Subtracted 238.725 231.059 7.666
SPO11 meiotic recombination protein spo11. [swissprot;acc:q9y5k1] Divided 236.741 245.547 1.0372
925 HEATR1 protein bap28. [swissprot;acc:q9h583] Subtracted 244.312 236.647 7.665
PEF1 pef protein with a long n-terminal hydrophobic domain (peflin). [refseq;acc:nm_012392] Divided 215.665 207.942 1.03714
926 IMMP2L imp2 inner mitochondrial membrane protease-like; inner mitochondrial membrane peptidase 2 like. [refseq;acc:nm_032549] 217.942 210.139 1.03713
SORBS1 ponsin; sh3-domain protein 5 (ponsin). [refseq;acc:nm_015385] Subtracted 212.952 205.292 7.66
927 no value microsomal signal peptidase 18 kda subunit (ec 3.4.-.-) (spase 18 kda subunit) (spc18) (endopeptidase sp18). [swissprot;acc:p21378] Divided 217.942 210.139 1.03713
SF3A3 splicing factor 3a subunit 3 (spliceosome associated protein 61) (sap 61) (sf3a60). [swissprot;acc:q12874] Subtracted 220.246 212.618 7.628
928 MTRF1 peptide chain release factor 1, mitochondrial precursor (mrf-1). [swissprot;acc:o75570] Divided 225.976 218.017 1.03651
SF3A1 splicing factor 3 subunit 1 (spliceosome associated protein 114) (sap 114) (sf3a120). [swissprot;acc:q15459] Subtracted 220.246 212.618 7.628
929 AATF apoptosis antagonizing transcription factor. [refseq;acc:nm_012138] 243.045 235.422 7.623
MPDU1 mannose-p-dolichol utilization defect 1 protein (suppressor of lec15 and lec35 glycosylation mutation homolog) (sl15). [swissprot;acc:o75352] Divided 225.955 218.015 1.03642
930 PDCD5 programmed cell death protein 5 (tfar19 protein) (tf-1 cell apoptosis related gene-19 protein). [swissprot;acc:o14737] Subtracted 233.402 225.782 7.62
PKM2 pyruvate kinase, m1 isozyme (ec 2.7.1.40) (pyruvate kinase muscle isozyme) (cytosolic thyroid hormone-binding protein) (cthbp) (thbp1). [swissprot;acc:p14618] Divided 231.357 239.778 1.0364
931 BHLHB4 ba305p22.3 (breast carcinoma amplified sequence 4). [sptrembl;acc:q8ndy6] 159.13 164.917 1.03637
PFDN5 prefoldin subunit 5 (c-myc binding protein mm-1) (myc modulator 1). [swissprot;acc:q99471] Subtracted 228.953 221.421 7.532
932 no value prefoldin subunit 6 (protein ke2). [swissprot;acc:o15212]
MTRF1L mitochondrial translational release factor 1-like. [refseq;acc:nm_019041] Divided 225.939 218.013 1.03636
933 BHLHB5 basic helix-loop-helix domain containing, class b, 5; trinucleotide repeat containing 20. [refseq;acc:nm_152414] 159.165 164.951 1.03635
EMG1 probable ribosome biogenesis protein nep1 (c2f protein). [swissprot;acc:q92979] Subtracted 242.978 235.518 7.46
934 NOL6 nucleolar rna-associated protein alpha isoform. [refseq;acc:nm_022917] Divided 242.024 233.544 1.03631
TOM1 target of myb protein 1. [swissprot;acc:o60784] Subtracted 217.254 209.824 7.43
935 no value huntingtin-associated protein-interacting protein (duo protein). [swissprot;acc:o60229] 217.253 209.826 7.427
sirtuin 7; sir2-related protein type 7; sirtuin type 7; sirtuin (silent mating type information regulation 2, s.cerevisiae, homolog) 7; silent mating type information regulation 2, s.cerevisiae, homolog 7; sirtuin silent mating type information regulation 2 homolog 7 (s. cerevisiae). [refseq;acc:nm_016538] Divided 232.473 224.372 1.03611
936 casein kinase ii beta chain (ck ii) (phosvitin) (g5a). [swissprot;acc:p13862]
TRIO triple functional domain protein (ptprf interacting protein). [swissprot;acc:o75962] Subtracted 217.253 209.827 7.426
937 SF3A3 splicing factor 3a subunit 3 (spliceosome associated protein 61) (sap 61) (sf3a60). [swissprot;acc:q12874] Divided 220.246 212.618 1.03588
TOM1L2 target of myb1-like 2; target of myb1 (chicken) homolog-like 2. [refseq;acc:nm_144678] Subtracted 217.252 209.83 7.422
938 SF3A1 splicing factor 3 subunit 1 (spliceosome associated protein 114) (sap 114) (sf3a120). [swissprot;acc:q15459] Divided 220.246 212.618 1.03588
SRI sorcin (22 kda protein) (cp-22) (v19). [swissprot;acc:p30626] Subtracted 212.442 205.087 7.355
939 ARID1B brg1-binding protein eld/osa1; eld (eyelid)/osa protein. [refseq;acc:nm_020732] 212.44 205.085
BRCA1 breast cancer type 1 susceptibility protein. [swissprot;acc:p38398] Divided 216.501 224.27 1.03588
940 CAPNS1 calcium-dependent protease, small subunit (calpain regulatory subunit) (calcium-activated neutral proteinase) (canp). [swissprot;acc:p04632] 212.442 205.088 1.03586

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/