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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Rank Gene Hugo description Value Type Network Comparison Type Interaction Map Filtered red green network_comparison
Results: HTML CSV LaTeX Showing element 277 to 326 of 8289 in total
Value Type  : Ranked
Network Comparison Type  : Divided
Filtered  : 1
Rank
Hugo
description
Interaction Map
red
green
network_comparison
139 APBA1 amyloid beta a4 precursor protein-binding family a member 1 (neuron- specific x11 protein) (neuronal munc18-1-interacting protein 1) (mint-1) (adapter protein x11alpha). [swissprot;acc:q02410] High confidence 271.752 225.68 1.20415
SPOCK1 testican-1 precursor (spock protein). [swissprot;acc:q08629] Low confidence 220.254 234.111 1.06291
140 RRAGA ras-related gtp binding a; ras-related gtp-binding protein. [refseq;acc:nm_006570] High confidence 59 49 1.20408
SPOCK2 testican-2 precursor. [swissprot;acc:q92563] Low confidence 220.222 234.047 1.06278
141 ARHGEF7 rho guanine nucleotide exchange factor 7 (pak-interacting exchange factor beta) (beta-pix) (cool-1) (p85). [swissprot;acc:q14155] 219.344 206.52 1.0621
RRAGC ras-related gtp binding c; rag c protein. [refseq;acc:nm_022157] High confidence 59 49 1.20408
142 MAN1B1 endoplasmic reticulum mannosyl-oligosaccharide 1,2-alpha-mannosidase (ec 3.2.1.113) (er alpha-1,2-mannosidase) (mannosidase alpha class 1b member 1) (man9glcnac2-specific processing alpha-mannosidase). [swissprot;acc:q9ukm7] Low confidence 211.056 198.732 1.06201
RRAGB ras-related gtp binding b short isoform; gtp-binding protein ragb. [refseq;acc:nm_006064] High confidence 59 49 1.20408
143 ANLN anillin, actin binding protein (scraps homolog, drosophila); anillin (drosophila scraps homolog), actin binding protein. [refseq;acc:nm_018685]
PSEN2 presenilin 2 (ps-2) (stm-2) (e5-1) (ad3lp) (ad5). [swissprot;acc:p49810] Low confidence 211.056 198.732 1.06201
144 FBXW7 f-box protein fbw7 isoform 2; archipelago, drosophila, homolog of; f-box protein fbw7; f-box protein sel-10; homolog of c elegans sel-10. [refseq;acc:nm_018315]
KCNIP1 kv channel interacting protein 1; vesicle apc-binding protein; a-type potassium channel modulatory protein 1. [refseq;acc:nm_014592] High confidence 265.686 319.651 1.20312
145 KCNIP4 potassium channel-interacting protein 4 isoform 4; calsenilin-like protein. [refseq;acc:nm_147183] 265.639 319.546 1.20293
PSEN1 presenilin 1 (ps-1) (s182 protein). [swissprot;acc:p49768] Low confidence 211.056 198.732 1.06201
146 KCNIP2 kv channel interacting protein 2 isoform 4; a-type potassium channel modulatory protein 2; cardiac voltage gated potassium channel modulatory subunit. [refseq;acc:nm_173193] High confidence 265.632 319.531 1.20291
NDUFS4 nadh-ubiquinone oxidoreductase 18 kda subunit, mitochondrial precursor (ec 1.6.5.3) (ec 1.6.99.3) (complex i-18 kda) (ci-18 kda) (complex i- aqdq) (ci-aqdq). [swissprot;acc:o43181] Low confidence 226.892 213.661 1.06193
147 no value nuclear dna-binding protein; small unique nuclear receptor corepressor; c1d dna-binding protein. [refseq;acc:nm_006333] High confidence 50.7983 42.3003 1.2009
ARHGEF6 rho guanine nucleotide exchange factor 6 (pak-interacting exchange factor alpha) (alpha-pix) (cool-2). [swissprot;acc:q15052] Low confidence 219.273 206.507 1.06182
148 SENP8 sentrin-specific protease 8 (ec 3.4.22.-) (sentrin/sumo-specific protease senp8) (cysteine protease fksg8). [swissprot;acc:q96ld8] 210.579 198.33 1.06176
UNC84A sad1/unc-84 protein-like 1. [swissprot;acc:o94901] High confidence 296.677 247.559 1.19841
149 no value atlastin; guanylate-binding protein 3. [refseq;acc:nm_015915] 142 170 1.19718
NEDD8 ubiquitin-like protein nedd8. [swissprot;acc:q15843] Low confidence 210.579 198.33 1.06176
150 MYO5B myosin vb (myosin 5b) (fragment). [swissprot;acc:q9ulv0] High confidence 55 46 1.19565
PLK1 serine/threonine-protein kinase plk (ec 2.7.1.-) (plk-1) (serine- threonine protein kinase 13) (stpk13). [swissprot;acc:p53350] Low confidence 206.516 194.554 1.06148
151 CTSZ cathepsin z precursor (ec 3.4.22.-) (cathepsin x) (cathepsin p). [swissprot;acc:q9ubr2]
MYO5C myosin vc (myosin 5c). [swissprot;acc:q9nqx4] High confidence 55 46 1.19565
152 no value myosin va (myosin 5a) (dilute myosin heavy chain, non-muscle) (myosin heavy chain 12) (myoxin). [swissprot;acc:q9y4i1]
HMG20A high-mobility group 20a. [refseq;acc:nm_018200] Low confidence 202.934 191.187 1.06144
153 RAB11FIP4 rab11-family interacting protein 4. [refseq;acc:nm_032932] 183.27 172.702 1.06119
RBM15B chromosome 3p21.1 gene sequence. [refseq;acc:nm_013286] High confidence 249.663 298.263 1.19466
154 RAB11FIP3 eferin. [swissprot;acc:o75154] Low confidence 183.27 172.702 1.06119
RGS19 regulator of g-protein signaling 19 (rgs19) (g-alpha interacting protein) (gaip protein). [swissprot;acc:p49795] High confidence 249.663 298.263 1.19466
155 CTSL2 cathepsin l2 precursor (ec 3.4.22.43) (cathepsin v) (cathepsin u). [swissprot;acc:o60911] Low confidence 211.818 199.734 1.0605
RBM15 putative rna-binding protein 15 (rna binding motif protein 15) (one-twenty two protein). [swissprot;acc:q96t37] High confidence 249.663 298.263 1.19466
156 CTSL1 cathepsin l precursor (ec 3.4.22.15) (major excreted protein) (mep). [swissprot;acc:p07711] Low confidence 211.808 199.761 1.06031
RGS20 regulator of g-protein signaling 20 (rgs20) (regulator of gz- selective protein signaling 1) (gz-selective gtpase-activating protein) (g(z)gap). [swissprot;acc:o76081] High confidence 249.663 298.263 1.19466
157 LBX1 transcription factor lbx1. [swissprot;acc:p52954]
XKR7 dj310o13.4 (novel protein similar to predicted c. elegans and c. intestinalis proteins) (fragment). [sptrembl;acc:q9nug5] Low confidence 178.507 168.371 1.0602
158 DNAJC8 dnaj homolog subfamily c member 8 (splicing protein spf31) (hspc315). [swissprot;acc:o75937] 219.838 207.417 1.05988
GPSM2 mosaic protein lgn. [swissprot;acc:p81274] High confidence 249.663 298.263 1.19466
159 GGNBP2 c3hc4-type zinc finger protein; likely ortholog of mouse dioxin inducible factor 3. [refseq;acc:nm_024835] Low confidence 219.838 207.417 1.05988
RGS17 regulator of g-protein signaling 17 (rgs17). [swissprot;acc:q9ugc6] High confidence 249.663 298.263 1.19466
160 APC adenomatous polyposis coli protein (apc protein). [swissprot;acc:p25054] Low confidence 222.31 235.538 1.0595
GNAO1 guanine nucleotide-binding protein g(o), alpha subunit 1. [swissprot;acc:p09471] High confidence 249.663 298.263 1.19466
161 APC2 adenomatous polyposis coli like. [refseq;acc:nm_005883] Low confidence 222.34 235.547 1.0594
RAP1GAP rap1 gtpase-activating protein 1 (rap1gap). [swissprot;acc:p47736] High confidence 249.663 298.263 1.19466
162 DAD1 defender against cell death 1 (dad-1). [swissprot;acc:p46966] Low confidence 197.99 186.913 1.05926
NOSTRIN nostrin. [refseq;acc:nm_052946] High confidence 209.299 249.187 1.19058
163 SNF8 eap30 subunit of ell complex. [refseq;acc:nm_007241]
VPS41 vacuolar assembly protein vps41 homolog (s53). [swissprot;acc:p49754] Low confidence 202.698 191.393 1.05907

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/