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 Network Comparison Type Value Type Interaction Map Filtered red green network_comparison
Results: HTML CSV LaTeX Showing element 6486 to 6535 of 12912 in total
Network Comparison Type  : Divided
Interaction Map  : High confidence
Filtered  : 1
Rank
description
Value Type
red
green
network_comparison
1622 homeobox protein barh-like 1. [swissprot;acc:q9hbu1] Squared 14652.3 16236.8 1.10814
nhp2-like protein 1 (high mobility group-like nuclear protein 2 homolog 1) ([u4/u6.u5] tri-snrnp 15.5 kda protein) (otk27). [swissprot;acc:p55769] Ranked 228.611 225.185 1.01521
phospholipase d1 (ec 3.1.4.4) (pld 1) (choline phosphatase 1) (phosphatidylcholine-hydrolyzing phospholipase d1) (hpld1). [swissprot;acc:q13393] Measured 6153.79 6589.52 1.07081
1623 membrane protein expressed in epithelial-like lung adenocarcinoma. [refseq;acc:nm_024792] Rooted 64.49 66.699 1.03425
nuclear fragile x mental retardation protein interacting protein 1; nuclear fragile x mental retardation intercating protein 1; nuclear fragile x mental retardation protein-interacting protein 1. [refseq;acc:nm_012345] Ranked 228.611 225.185 1.01521
opsin 4 (melanopsin). [swissprot;acc:q9uhm6] Squared 14652.3 16236.8 1.10814
transitional endoplasmic reticulum atpase (ter atpase) (15s mg(2+)- atpase p97 subunit) (valosin containing protein) (vcp) [contains: valosin]. [swissprot;acc:p55072] Measured 6449.02 6905.56 1.07079
1624 rna-binding protein 9 (rna binding motif protein 9) (hexaribonucleotide binding protein 2) (repressor of tamoxifen transcriptional activity). [swissprot;acc:o43251] Rooted 61.8805 64.0002 1.03425
rrp5 protein homolog (programmed cell death protein 11). [swissprot;acc:q14690] Ranked 230.643 227.194 1.01518
similar to zinc finger protein 277. [sptrembl;acc:q8wwa6] Measured 4102.1 4392.15 1.07071
t-cell leukemia homeobox protein 2 (homeobox protein hox-11l1) (neural crest homeobox protein). [swissprot;acc:o43763] Squared 14652.3 16236.8 1.10814
1625 c18b11 homolog (44.9kd). [refseq;acc:nm_152260] Ranked 217.446 214.2 1.01515
ran binding protein 11. [refseq;acc:nm_016338] Rooted 64.5022 66.7097 1.03422
t-cell leukemia homeobox protein 1 (homeobox protein hox-11) (tcl-3 proto-oncogene). [swissprot;acc:p31314] Squared 14652.3 16236.8 1.10814
zinc finger protein 277. [swissprot;acc:q9nrm2] Measured 4102.1 4392.15 1.07071
1626 hect domain containing protein 1 (fragment). [swissprot;acc:q9ult8] Squared 14652.3 16236.8 1.10814
phospholipase d2 (ec 3.1.4.4) (pld 2) (choline phosphatase 2) (phosphatidylcholine-hydrolyzing phospholipase d2) (pld1c) (hpld2). [swissprot;acc:o14939] Measured 6157.13 6591.53 1.07055
vesicle-fusing atpase (ec 3.6.4.6) (vesicular-fusion protein nsf) (n- ethylmaleimide sensitive fusion protein) (nem-sensitive fusion protein). [swissprot;acc:p46459] Rooted 64.0671 66.2596 1.03422
z-protein (protein cgi-119) (s1r protein). [swissprot;acc:q9hc24] Ranked 217.446 214.2 1.01515
1627 6-phosphogluconolactonase (ec 3.1.1.31) (6pgl). [swissprot;acc:o95336] Measured 6038.46 6463.9 1.07046
dna polymerase gamma subunit 1 (ec 2.7.7.7) (mitochondrial dna polymerase catalytic subunit) (polg-alpha). [swissprot;acc:p54098] Rooted 62.2195 64.3478 1.03421
homeobox protein barh-like 2. [swissprot;acc:q9umq3] Squared 14652.3 16236.8 1.10814
pp1201 protein. [refseq;acc:nm_022152] Ranked 217.446 214.2 1.01515
1628 26s proteasome non-atpase regulatory subunit 9 (26s proteasome regulatory subunit p27). [swissprot;acc:o00233] Squared 27762.4 30763.9 1.10811
glycine cleavage system h protein, mitochondrial precursor. [swissprot;acc:p23434] Measured 5920.55 6337.28 1.07039
lifeguard; kiaa0950 protein. [refseq;acc:nm_012306] Ranked 217.446 214.2 1.01515
ribokinase (ec 2.7.1.15). [swissprot;acc:q9h477] Rooted 65.117 67.3398 1.03414
1629 dimeric dihydrodiol dehydrogenase; 3-deoxyglucosone reductase. [refseq;acc:nm_014475] Measured 6158.32 6590.99 1.07026
mitochondrial ribosomal protein l30 isoform a. [refseq;acc:nm_145212] Squared 27176.8 30113.9 1.10807
sterol regulatory element binding protein-2 (srebp-2) (sterol regulatory element-binding transcription factor 2). [swissprot;acc:q12772] Ranked 217.446 214.2 1.01515
xylulokinase homolog; xylulokinase (h. influenzae) homolog. [refseq;acc:nm_005108] Rooted 64.0114 66.1969 1.03414
1630 26s protease regulatory subunit s10b (proteasome subunit p42) (p44) (conserved atpase domain protein 44) (cadp44). [swissprot;acc:q92524] Squared 27176.8 30113.9 1.10807
ataxin 2-binding protein. [swissprot;acc:q9nwb1] Rooted 61.8846 63.9975 1.03414
c-terminal binding protein 2 (ctbp2). [swissprot;acc:p56545] Measured 9903.22 9253.79 1.07018
sterol regulatory element binding protein-1 (srebp-1) (sterol regulatory element-binding transcription factor 1). [swissprot;acc:p36956] Ranked 217.446 214.2 1.01515
1631 brachyury protein (t protein). [swissprot;acc:o15178] Measured 6179.59 6613.15 1.07016
g1 to s phase transition protein 1 homolog (gtp-binding protein gst1-hs). [swissprot;acc:p15170] Ranked 218.789 215.533 1.01511
microtubule-associated protein, rp/eb family, member 2; t-cell activation protein, eb1 family; apc-binding protein eb1. [refseq;acc:nm_014268] Squared 31026.8 34372.7 1.10784
yme1-like 1 isoform 3; atp-dependent metalloprotease ftsh1 homolog. [refseq;acc:nm_014263] Rooted 58.8871 56.9439 1.03412
1632 microtubule-associated protein rp/eb family member 3 (protein eb3). [swissprot;acc:q9upy8] Squared 31026.8 34372.6 1.10784
mitotic checkpoint protein bub3. [swissprot;acc:o43684] Ranked 221.934 218.658 1.01498
protein-tyrosine phosphatase, non-receptor type 1 (ec 3.1.3.48) (protein-tyrosine phosphatase 1b) (ptp-1b). [swissprot;acc:p18031] Rooted 65.3797 67.6074 1.03407
t-box transcription factor tbx19 (t-box protein 19). [swissprot;acc:o60806] Measured 6179.59 6613.15 1.07016
1633 b-cell cll/lymphoma 6, member b (zinc finger protein); zinc finger protein 62. [refseq;acc:nm_181844] 9899.79 9251.2 1.07011
fatty acid-binding protein, adipocyte (afabp) (adipocyte lipid-binding protein) (albp) (a-fabp). [swissprot;acc:p15090] Rooted 61.2707 63.3571 1.03405
histidine-rich membrane protein ke4. [swissprot;acc:q92504] Squared 31026.9 34372.4 1.10783
zinc finger protein 207. [swissprot;acc:o43670] Ranked 221.934 218.658 1.01498
1634 fatty acid-binding protein, epidermal (e-fabp) (psoriasis-associated fatty acid-binding protein homolog) (pa-fabp). [swissprot;acc:q01469] Rooted 61.2707 63.3571 1.03405
malonyl-coa decarboxylase, mitochondrial precursor (ec 4.1.1.9) (mcd). [swissprot;acc:o95822] Ranked 215.772 212.596 1.01494
microtubule-associated protein rp/eb family member 1 (apc-binding protein eb1). [swissprot;acc:q15691] Squared 31026.9 34372.4 1.10783

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/