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 Hugo Network Comparison Type description Value Type Interaction Map Filtered red network_comparison green
Results: HTML CSV LaTeX Showing element 3308 to 3357 of 25824 in total
Interaction Map  : High confidence
Filtered  : 1
Rank
Hugo
Network Comparison Type
description
Value Type
red
network_comparison
green
414 GSTO1 Divided glutathione transferase omega 1 (ec 2.5.1.18) (gsto 1-1). [swissprot;acc:p78417] Rooted 55.5489 1.09922 50.535
KATNA1 katanin p60 subunit a 1. [refseq;acc:nm_007044] Ranked 232.431 1.08522 252.238
MAX Subtracted max protein. [swissprot;acc:p25912] 227.828 17.267 210.561
MICAL2 flavoprotein oxidoreductase mical2. [refseq;acc:nm_014632] Rooted 62.574 5.8388 68.4128
PLRG1 pleiotropic regulator 1 (prl1homolog, arabidopsis); pleiotropic regulator 1 (prl1, arabidopsis homolog). [refseq;acc:nm_002669] Measured 5051.16 924.35 5975.51
415 AIG1 Divided androgen-induced 1; cgi-103 protein; androgen induced protein. [refseq;acc:nm_016108] Rooted 55.5489 1.09922 50.535
GABRG2 Subtracted gamma-aminobutyric-acid receptor gamma-2 subunit precursor (gaba(a) receptor). [swissprot;acc:p18507] Squared 32192.6 5774.3 37966.9
INPP4B inositol polyphosphate-4-phosphatase, type ii, 105kd; inositol polyphosphate 4-phosphatase ii; 4-phosphatase ii. [refseq;acc:nm_003866] Rooted 62.574 5.8388 68.4128
KATNB1 Divided katanin p80 subunit b 1; katanin (80 kda); katanin p80 (wd40-containing) subunit b 1. [refseq;acc:nm_005886] Ranked 232.382 1.08514 252.166
RBPJ Subtracted j kappa-recombination signal binding protein (rbp-j kappa). [swissprot;acc:q06330] Measured 7725.1 922.64 8647.74
SORBS3 Divided vinexin (sh3-containing adaptor molecule-1) (scam-1). [swissprot;acc:o60504] Squared 29160.4 1.21981 35570.2
TAF7 Subtracted transcription initiation factor tfiid 55 kda subunit (tafii-55) (tafii55). [swissprot;acc:q15545] Ranked 200.586 17.163 183.423
VAV3 Divided vav-3 protein. [swissprot;acc:q9ukw4] Measured 6647.43 1.15927 7706.18
416 no value Subtracted interleukin-1 receptor-associated kinase 4; interleukin-1 receptor associated kinase 4. [refseq;acc:nm_016123] Squared 32192.5 5774.3 37966.8
ARD1A Divided n-terminal acetyltransferase complex ard1 subunit homolog (ec 2.3.1.-). [swissprot;acc:p41227] Measured 4509.54 1.15842 5223.95
ATP5F1 atp synthase b chain, mitochondrial precursor (ec 3.6.3.14). [swissprot;acc:p24539] Rooted 55.5489 1.09922 50.535
HIVEP3 Subtracted human immunodeficiency virus type i enhancer binding protein 3. [refseq;acc:nm_024503] Measured 7725.1 922.64 8647.74
PHB Divided prohibitin. [swissprot;acc:p35232] Squared 22841.8 1.21953 27856.2
POLR1B dna-directed rna polymerase i 135 kda polypeptide (ec 2.7.7.6) (rna polymerase i subunit 2) (rpa135). [swissprot;acc:q9h9y6] Ranked 240.6 1.08496 261.041
SEPHS1 Subtracted selenide,water dikinase 1 (ec 2.7.9.3) (selenophosphate synthetase 1) (selenium donor protein 1). [swissprot;acc:p49903] Rooted 62.574 5.8388 68.4128
TAF7L tata box binding protein-associated factor, rna polymerase ii, q; taf7-like rna polymerase ii, tata box binding protein (tbp)-associated factor, 50 kd; tbp-associated factor, rna polymerase ii, q. [refseq;acc:nm_024885] Ranked 200.791 17.131 183.66
417 no value Divided repressor of estrogen receptor activity; b-cell associated protein. [refseq;acc:nm_007273] Squared 22841.8 1.21953 27856.2
BAG3 bag-family molecular chaperone regulator-3 (bcl-2 binding athanogene- 3) (bag-3) (bcl-2-binding protein bis) (docking protein cair-1). [swissprot;acc:o95817] Measured 4522.71 1.15708 5233.14
DNAJC12 j domain containing protein 1. [swissprot;acc:q9ukb3] Rooted 55.5489 1.09922 50.535
GABRA4 Subtracted gamma-aminobutyric-acid receptor alpha-4 subunit precursor (gaba(a) receptor). [swissprot;acc:p48169] Squared 32192.8 5774.3 37967.1
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] Measured 7725.1 922.64 8647.74
INPP4A inositol polyphosphate-4-phosphatase, type 1 isoform b; inositol polyphosphate-4-phosphatase, type i, 107kd; 4-phosphatase i; inositol polyphosphate-4-phosphatase i. [refseq;acc:nm_001566] Rooted 62.574 5.8388 68.4128
SETMAR Divided set domain and mariner transposase fusion gene. [refseq;acc:nm_006515] Ranked 233.539 1.08417 253.197
SRP9 Subtracted signal recognition particle 9 kda protein (srp9). [swissprot;acc:p49458] 235.94 17.103 218.837
418 ARD1A n-terminal acetyltransferase complex ard1 subunit homolog (ec 2.3.1.-). [swissprot;acc:p41227] 233.723 17.049 216.674
BCAS2 Divided breast carcinoma amplified sequence 2; spliceosome associated protein, amplified in breast cancer. [refseq;acc:nm_005872] Measured 5493.1 1.15603 6350.19
CLEC4M cd209 antigen-like; putative type ii membrane protein. [refseq;acc:nm_014257] Ranked 233.539 1.08417 253.197
ENOPH1 e-1 enzyme. [refseq;acc:nm_021204] Squared 30903.8 1.21791 37638.1
GABRE Subtracted gamma-aminobutyric-acid receptor epsilon subunit precursor (gaba(a) receptor). [swissprot;acc:p78334] 32192.8 5774.3 37967.1
HIVEP2 human immunodeficiency virus type i enhancer-binding protein 2 (hiv-ep2). [swissprot;acc:p31629] Measured 7725.1 922.64 8647.74
SNX13 Divided sorting nexin 13 (rgs domain- and phox domain-containing protein) (rgs-px1). [swissprot;acc:q9y5w8] Rooted 55.5489 1.09922 50.535
WIPF1 Subtracted wiskott-aldrich syndrome protein interacting protein (wasp interacting protein) (prpl-2 protein). [swissprot;acc:o43516] 66.941 5.8136 72.7546
419 APOA1BP Divided apolipoprotein a-i binding protein; apoa-i binding protein. [refseq;acc:nm_144772] Squared 24832.1 1.21789 30242.8
CDC5L cdc5-like; cdc5 (cell division cycle 5, s. pombe, homolog)-like; cell division cycle 5, s. pombe, homolog-like; cdc5-related protein. [refseq;acc:nm_001253] Measured 5493.1 1.15603 6350.19
DDX54 Subtracted atp-dependent rna helicase mgc2835; atp-dependent rna helicase; apoptosis related protein apr-5; dead box helicase 97 kda. [refseq;acc:nm_024072] Rooted 48.4278 5.7984 54.2262
FCER2 Divided low affinity immunoglobulin epsilon fc receptor (lymphocyte ige receptor) (fc-epsilon-rii) (cd23) (blast-2) (immunoglobulin e-binding factor). [swissprot;acc:p06734] Ranked 233.539 1.08417 253.197
GSTO2 ba127l20.1 (novel glutathione-s-transferase). [sptrembl;acc:q9h4y5] Rooted 55.5489 1.09922 50.535
JMJD6 Subtracted phosphatidylserine receptor; phosphatidylserine receptor beta. [refseq;acc:nm_015167] Squared 32192.5 5774.3 37966.8
PRPF19 nuclear matrix protein nmp200 related to splicing factor prp19. [refseq;acc:nm_014502] Measured 5039.63 922.2 5961.83
SRP9 signal recognition particle 9 kda protein (srp9). [swissprot;acc:p49458] Ranked 235.922 16.997 218.925
420 CD209 Divided cd209 antigen; dendritic cell-specific icam3-grabbing nonintegrin. [refseq;acc:nm_021155] 233.539 1.08417 253.197
COMP Subtracted cartilage oligomeric matrix protein precursor (comp). [swissprot;acc:p49747] Rooted 51.6125 5.7716 45.8409
CYC1 cytochrome c1, heme protein, mitochondrial precursor (cytochrome c-1). [swissprot;acc:p08574] Ranked 238.704 16.976 255.68
GABRA3 gamma-aminobutyric-acid receptor alpha-3 subunit precursor (gaba(a) receptor). [swissprot;acc:p34903] Squared 32192.8 5774.3 37967.1
HPRT1 Divided hypoxanthine-guanine phosphoribosyltransferase (ec 2.4.2.8) (hgprt) (hgprtase). [swissprot;acc:p00492] Measured 10235.2 1.15589 11830.8

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/