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 Value Type description Network Comparison Type Interaction Map Filtered red green network_comparison
Results: HTML CSV LaTeX Showing element 2593 to 2642 of 12912 in total
Network Comparison Type  : Divided
Interaction Map  : High confidence
Filtered  : 1
Rank
Hugo
Value Type
description
red
green
network_comparison
649 EIF4E Ranked eukaryotic translation initiation factor 4e (eif-4e) (eif4e) (mrna cap-binding protein) (eif-4f 25 kda subunit). [swissprot;acc:p06730] 233.725 220.751 1.05877
GCA Rooted grancalcin. [swissprot;acc:p28676] 64.5659 69.624 1.07834
RBL2 Squared retinoblastoma-like protein 2 (130 kda retinoblastoma-associated protein) (prb2) (p130) (rbr-2). [swissprot;acc:q08999] 29173.8 34362.7 1.17786
SF3A1 Measured splicing factor 3 subunit 1 (spliceosome associated protein 114) (sap 114) (sf3a120). [swissprot;acc:q15459] 5248.07 5901.72 1.12455
650 no value Ranked u6 snrna-associated sm-like protein lsm7. [swissprot;acc:q9uk45] 228.986 216.276 1.05877
CDYL2 Squared chromodomain y-like protein 2. [refseq;acc:nm_152342] 29016.1 34169.2 1.17759
GORASP2 Measured golgi reassembly stacking protein 2; golgi reassembly stacking protein 2, 55 kda. [refseq;acc:nm_015530] 8362.81 9402.7 1.12435
SRI Rooted sorcin (22 kda protein) (cp-22) (v19). [swissprot;acc:p30626] 64.566 69.6241 1.07834
651 BAIAP3 Ranked bai1-associated protein 3; bai-associated protein 3. [refseq;acc:nm_003933] 233.725 220.751 1.05877
CDY1B Squared testis-specific chromodomain y protein 1. [swissprot;acc:q9y6f8] 29012.2 34163.9 1.17757
PDCD6 Rooted programmed cell death protein 6 (probable calcium-binding protein alg- 2). [swissprot;acc:o75340] 64.5685 69.6269 1.07834
TBC1D10A Measured ebp50-pdz interactor of 64 kda (epi64 protein). [swissprot;acc:q9bxi6] 5168.43 4597.44 1.1242
652 no value Ranked tgf beta-inducible nuclear protein 1; hairy cell leukemia protein 1. [refseq;acc:nm_014886] 248.994 235.255 1.0584
ARID1B Rooted brg1-binding protein eld/osa1; eld (eyelid)/osa protein. [refseq;acc:nm_020732] 64.5672 69.6254 1.07834
CDYL Squared chromodomain protein, y chromosome-like isoform a; cdy-like, autosomal; testis-specific chromodomain y-like protein. [refseq;acc:nm_004824] 29012.2 34163.9 1.17757
TRPC5 Measured short transient receptor potential channel 5 (trpc5) (htrp-5) (htrp5). [swissprot;acc:q9ul62] 5168.43 4597.44 1.1242
653 no value Ranked dok-like protein. [refseq;acc:nm_024872] 216.504 204.622 1.05807
CDY2B Squared testis-specific chromodomain protein y protein 2. [swissprot;acc:q9y6f7] 29012.4 34164 1.17757
MARS Measured methionyl-trna synthetase (ec 6.1.1.10) (methionine--trna ligase) (metrs). [swissprot;acc:p56192] 5560.06 6248.27 1.12378
SORBS2 Rooted arg/abl-interacting protein 2 isoform 2; arg binding protein 2. [refseq;acc:nm_021069] 64.4927 69.539 1.07825
654 no value Measured histone h3.3 (h3.a) (h3.b) (h3.3q). [swissprot;acc:p06351] 4088.63 4593.43 1.12346
Squared sprouty homolog 4 (spry-4). [swissprot;acc:q9c004] 27174.1 31992.4 1.17731
CASK Rooted peripheral plasma membrane protein cask (ec 2.7.1.-) (hcask) (calcium/calmodulin-dependent serine protein kinase) (lin-2 homolog). [swissprot;acc:o14936] 59.9021 64.5838 1.07816
DOK2 Ranked docking protein 2 (p56(dok-2)) (downstream of tyrosine kinase 2). [swissprot;acc:o60496] 216.504 204.622 1.05807
655 no value Measured dj1099d15.1 (putative dnaj protein). [sptrembl;acc:q9h4j9] 4088.63 4593.43 1.12346
DOK1 Ranked docking protein 1 (p62(dok)) (downstream of tyrosine kinase 1) (pp62). [swissprot;acc:q99704] 216.504 204.622 1.05807
HIF3A Rooted hypoxia-inducible factor-3 alpha isoform a; inhibitory pas domain protein. [refseq;acc:nm_152794] 59.9021 64.5838 1.07816
SPRY3 Squared sprouty homolog 3 (spry-3). [swissprot;acc:o43610] 27174.1 31992.4 1.17731
656 APOA1BP Measured apolipoprotein a-i binding protein; apoa-i binding protein. [refseq;acc:nm_144772] 6139.04 6893.7 1.12293
FRK Ranked tyrosine-protein kinase frk (ec 2.7.1.112) (nuclear tyrosine protein kinase rak). [swissprot;acc:p42685] 216.504 204.622 1.05807
SIM1 Rooted single-minded homolog 1. [swissprot;acc:p81133] 59.9021 64.5838 1.07816
SPRY1 Squared sprouty homolog 1 (spry-1) (fragment). [swissprot;acc:o43609] 27174.1 31992.4 1.17731
657 GIPC1 Measured rgs19-interacting protein 1 (gaip c-terminus interacting protein gipc) (rgs-gaip interacting protein) (tax interaction protein 2) (tip-2). [swissprot;acc:o14908] 6079.26 6824.47 1.12258
SORBS3 Rooted vinexin (sh3-containing adaptor molecule-1) (scam-1). [swissprot;acc:o60504] 64.75 69.8065 1.07809
SPRY2 Squared sprouty homolog 2 (spry-2). [swissprot;acc:o43597] 27174.1 31992.4 1.17731
SYN3 Ranked synapsin iii. [swissprot;acc:o14994] 229.072 216.576 1.0577
658 no value aspartate beta-hydroxylase isoform b; junctin isoform 1; junctate; aspartyl/asparaginyl-beta-hydroxylase; peptide-aspartate beta-dioxygenase; humbug. [refseq;acc:nm_032468]
EIF3B Rooted eukaryotic translation initiation factor 3 subunit 9 (eif-3 eta) (eif3 p116) (eif3 p110) (eif3b). [swissprot;acc:p55884] 52.7523 56.8686 1.07803
PARS2 Squared similar to trna synthetase class ii. [refseq;acc:nm_152268] 22293.8 26242.6 1.17713
SHROOM2 Measured apical-like protein (apxl protein). [swissprot;acc:q13796] 6088.77 6834.87 1.12254
659 HEY1 Ranked hairy/enhancer-of-split related with yrpw motif 1 (hairy and enhancer of split related-1) (hesr-1) (cardiovascular helix-loop-helix factor 2) (hes-related repressor protein 2 herp2). [swissprot;acc:q9y5j3] 229.072 216.576 1.0577
MRPS9 Rooted 28s ribosomal protein s9, mitochondrial precursor (mrp-s9). [swissprot;acc:p82933] 51.7081 47.9816 1.07767
OTC Squared ornithine carbamoyltransferase, mitochondrial precursor (ec 2.1.3.3) (otcase) (ornithine transcarbamylase). [swissprot;acc:p00480] 24614 28973.4 1.17711
SHROOM3 Measured shroom-related protein; f-actin-binding protein; likely ortholog of mouse shroom. [refseq;acc:nm_020859] 6089.21 6835.34 1.12253
660 no value u2 small nuclear ribonucleoprotein auxiliary factor 35 kda subunit related-protein 1. [swissprot;acc:q15695] 5575.18 6254.85 1.12191
ABLIM2 Ranked actin binding lim protein 2. [refseq;acc:nm_032432] 229.072 216.576 1.0577
FIP1L1 Rooted fip1-like 1; rearranged in hypereosinophilia. [refseq;acc:nm_030917] 133.216 123.627 1.07756
NDUFB9 Squared nadh-ubiquinone oxidoreductase b22 subunit (ec 1.6.5.3) (ec 1.6.99.3) (complex i-b22) (ci-b22). [swissprot;acc:q9y6m9] 33024.9 38867.8 1.17692
661 ALAD delta-aminolevulinic acid dehydratase (ec 4.2.1.24) (porphobilinogen synthase) (aladh). [swissprot;acc:p13716] 22223.1 26152.4 1.17681
HEYL Ranked hairy/enhancer-of-split related with yrpw motif-like. [refseq;acc:nm_014571] 229.072 216.576 1.0577

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/