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 2962 to 3011 of 6456 in total
Value Type  : Ranked
Interaction Map  : High confidence
Filtered  : 1
Rank
Network Comparison Type
Hugo
description
network_comparison
red
green
1481 Subtracted ACTR1A alpha-centractin (centractin) (centrosome-associated actin homolog) (actin-rpv) (arp1). [swissprot;acc:p42024] 3.971 225.148 221.177
1482 Divided LSAMP limbic system-associated membrane protein precursor (lsamp). [swissprot;acc:q13449] 1.0191 224.354 220.15
Subtracted ACTR1B beta-centractin (actin-related protein 1b) (arp1b). [swissprot;acc:p42025] 3.971 225.148 221.177
1483 Divided PDHB pyruvate dehydrogenase e1 component beta subunit, mitochondrial precursor (ec 1.2.4.1) (pdhe1-b). [swissprot;acc:p11177] 1.0191 198.927 202.726
Subtracted RBM10 rna-binding protein 10 (rna binding motif protein 10) (dxs8237e). [swissprot;acc:p98175] 3.957 228.419 232.376
1484 Divided TMEM91 2-oxoisovalerate dehydrogenase alpha subunit, mitochondrial precursor (ec 1.2.4.4) (branched-chain alpha-keto acid dehydrogenase e1 component alpha chain) (bckdh e1-alpha). [swissprot;acc:p12694] 1.0191 198.927 202.726
Subtracted CYCS cytochrome c. [swissprot;acc:p00001] 3.957 228.419 232.376
1485 Divided RBPJ j kappa-recombination signal binding protein (rbp-j kappa). [swissprot;acc:q06330] 1.01906 207.877 203.989
Subtracted HS6ST2 heparan sulfate 6-o-sulfotransferase 2. [refseq;acc:nm_147174] 3.957 228.419 232.376
1486 Divided HIVEP3 human immunodeficiency virus type i enhancer binding protein 3. [refseq;acc:nm_024503] 1.01906 207.877 203.989
Subtracted HS6ST1 heparan sulfate 6-o-sulfotransferase; heparan-sulfate 6-sulfotransferase. [refseq;acc:nm_004807] 3.957 228.419 232.376
1487 Divided HIVEP1 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] 1.01906 207.877 203.989
Subtracted FA2H fatty acid hydroxylase domain containing 1. [refseq;acc:nm_024306] 3.957 228.419 232.376
1488 Divided HIVEP2 human immunodeficiency virus type i enhancer-binding protein 2 (hiv-ep2). [swissprot;acc:p31629] 1.01906 207.877 203.989
Subtracted WBP11 ww domain binding protein 11; npw38-binding protein npwbp; sh3 domain-binding protein snp70. [refseq;acc:nm_016312] 3.957 228.419 232.376
1489 Divided MAP3K7 mitogen-activated protein kinase kinase kinase 7 (ec 2.7.1.-) (transforming growth factor-beta-activated kinase 1) (tgf-beta- activated kinase 1). [swissprot;acc:o43318] 1.01905 213.251 209.264
Subtracted ELAC2 elac homolog 2; putative prostate cancer susceptibility protein; elac (e. coli) homolog 2. [refseq;acc:nm_018127] 3.957 228.419 232.376
1490 Divided PTRH2 protein cgi-147. [swissprot;acc:q9y3e5] 1.01903 221.961 226.186
Subtracted RBM5 rna-binding protein 5 (rna binding motif protein 5) (putative tumor suppressor luca15) (g15 protein). [swissprot;acc:p52756] 3.957 228.419 232.376
1491 Divided GPI glucose-6-phosphate isomerase (ec 5.3.1.9) (gpi) (phosphoglucose isomerase) (pgi) (phosphohexose isomerase) (phi) (neuroleukin) (nlk) (sperm antigen-36) (sa-36). [swissprot;acc:p06744] 1.01899 217.704 221.839
Subtracted PAPOLA poly(a) polymerase alpha (ec 2.7.7.19) (pap) (polynucleotide adenylyltransferase alpha) (fragment). [swissprot;acc:p51003] 3.944 116.71 120.654
1492 Divided OPCML opioid binding protein/cell adhesion molecule precursor (obcam) (opioid-binding cell adhesion molecule) (opcml). [swissprot;acc:q14982] 1.01883 224.159 220.017
Subtracted EXOC2 exocyst complex component sec5. [swissprot;acc:q96kp1] 3.936 116.771 120.707
1493 Divided PDHA2 pyruvate dehydrogenase e1 component alpha subunit, testis-specific form, mitochondrial precursor (ec 1.2.4.1) (pdhe1-a type ii). [swissprot;acc:p29803] 1.01882 204.146 207.988
Subtracted no value uridine kinase-like 1. [swissprot;acc:q9nwz5] 3.935 218.084 214.149
1494 Divided PDHA1 pyruvate dehydrogenase e1 component alpha subunit, somatic form, mitochondrial precursor (ec 1.2.4.1) (pdhe1-a type i). [swissprot;acc:p08559] 1.01878 204.133 207.967
Subtracted PAPOLG poly(a) polymerase gamma (ec 2.7.7.19) (pap gamma) (polynucleotide adenylyltransferase gamma) (srp rna 3' adenylating enzyme). [swissprot;acc:q9bwt3] 3.927 116.845 120.772
1495 Divided CSNK1A1L casein kinase i alpha s-like. [refseq;acc:nm_145203] 1.01874 229.459 225.237
Subtracted CDC23 cell division cycle protein 23; anaphase-promoting complex subunit 8. [refseq;acc:nm_004661] 3.916 208.432 204.516
1496 Divided CSNK1A1 casein kinase i, alpha isoform (ec 2.7.1.-) (cki-alpha) (ck1). [swissprot;acc:p48729] 1.01874 229.459 225.237
Subtracted KIFC3 kinesin family member c3. [refseq;acc:nm_005550] 3.889 214.727 210.838
1497 Divided XPO1 exportin 1; exportin-1 (required for chromosome region maintenance); exportin 1 (crm1, yeast, homolog); crm1, yeast, homolog. [refseq;acc:nm_003400] 1.01866 224.476 220.363
Subtracted RBPJ j kappa-recombination signal binding protein (rbp-j kappa). [swissprot;acc:q06330] 3.888 207.877 203.989
1498 Divided no value neurotrimin precursor (hnt). [swissprot;acc:q9p121] 1.01863 224.022 219.924
Subtracted HIVEP3 human immunodeficiency virus type i enhancer binding protein 3. [refseq;acc:nm_024503] 3.888 207.877 203.989
1499 Divided DCP1A transcription factor smif; decapping enzyme hdcp1a. [refseq;acc:nm_018403] 1.01859 224.509 220.411
Subtracted HIVEP1 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] 3.888 207.877 203.989
1500 Divided COPS4 cop9 complex subunit 4; likely ortholog of mouse cop9 (constitutive photomorphogenic), subunit 4 (arabidopsis); cop9 (constitutive photomorphogenic, arabidopsis, homolog) subunit 4. [refseq;acc:nm_016129] 1.01851 213.398 209.52
Subtracted HIVEP2 human immunodeficiency virus type i enhancer-binding protein 2 (hiv-ep2). [swissprot;acc:p31629] 3.888 207.877 203.989
1501 Divided KIFC3 kinesin family member c3. [refseq;acc:nm_005550] 1.01845 214.727 210.838
Subtracted COPS4 cop9 complex subunit 4; likely ortholog of mouse cop9 (constitutive photomorphogenic), subunit 4 (arabidopsis); cop9 (constitutive photomorphogenic, arabidopsis, homolog) subunit 4. [refseq;acc:nm_016129] 3.878 213.398 209.52
1502 Divided no value uridine kinase-like 1. [swissprot;acc:q9nwz5] 1.01838 218.084 214.149
Subtracted MPI mannose-6-phosphate isomerase (ec 5.3.1.8) (phosphomannose isomerase) (pmi) (phosphohexomutase). [swissprot;acc:p34949] 3.873 219.306 223.179
1503 Divided KRR1 hiv-1 rev binding protein 2; rev interacting protein. [refseq;acc:nm_007043] 1.01828 242.181 237.834
Subtracted no value putative ankyrin-repeat containing protein. [refseq;acc:nm_025185] 3.873 219.306 223.179
1504 Divided CDC25C m-phase inducer phosphatase 3 (ec 3.1.3.48) (dual specificity phosphatase cdc25c). [swissprot;acc:p30307] 1.01822 259.439 254.797
Subtracted STARD3 mln 64 protein (star-related lipid transfer protein 3) (stard3) (start domain-containing protein 3) (cab1 protein). [swissprot;acc:q14849] 3.873 219.306 223.179
1505 Divided CCDC53 protein ad-016 (protein cgi-116) (x0009). [swissprot;acc:q9y3c0] 1.0181 216.158 212.316
Subtracted FAT2 protocadherin fat 2 precursor (hfat2) (multiple epidermal growth factor-like domains 1). [swissprot;acc:q9nyq8] 3.873 219.306 223.179
1506 Divided C16orf42 c316g12.2 (novel protein similar to predicted yeast, worm and archae- bacterial proteins) (similar to und313) (s. cervisiae) (hypothetical protein). [sptrembl;acc:q9ujk0] 1.01807 212.103 208.339

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/