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 Value Type description Network Comparison Type Interaction Map Filtered red green network_comparison
Results: HTML CSV LaTeX Showing element 580 to 629 of 12912 in total
Network Comparison Type  : Divided
Interaction Map  : High confidence
Filtered  : 1
Rank
Hugo
Value Type
description
red
green
network_comparison
145 KCNIP4 Ranked potassium channel-interacting protein 4 isoform 4; calsenilin-like protein. [refseq;acc:nm_147183] 265.639 319.546 1.20293
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] 265.632 319.531 1.20291
PRPF40B Rooted huntingtin interacting protein c. [refseq;acc:nm_012272] 55.0737 66.0298 1.19894
RRAGA Squared ras-related gtp binding a; ras-related gtp-binding protein. [refseq;acc:nm_006570] 103496 146848 1.41888
STAMBPL1 Measured associated molecule with the sh3 domain of stam (amsh) like protein. [refseq;acc:nm_020799] 11068 8508.5 1.30082
147 no value Ranked nuclear dna-binding protein; small unique nuclear receptor corepressor; c1d dna-binding protein. [refseq;acc:nm_006333] 50.7983 42.3003 1.2009
CHMP2A Measured putative breast adenocarcinoma marker (32kd). [refseq;acc:nm_014453] 11068 8508.5 1.30082
FOXP4 Rooted forkhead box p4; fork head-related protein like a; winged-helix repressor foxp4. [refseq;acc:nm_138457] 42.0574 50.4237 1.19893
RRAGC Squared ras-related gtp binding c; rag c protein. [refseq;acc:nm_022157] 103496 146848 1.41888
148 FOXP1 Rooted forkhead box protein p1 (hspc215). [swissprot;acc:q9h334] 42.0577 50.424 1.19892
RRAGB Squared ras-related gtp binding b short isoform; gtp-binding protein ragb. [refseq;acc:nm_006064] 103496 146848 1.41888
STAMBP Measured associated molecule with the sh3 domain of stam. [refseq;acc:nm_006463] 11068 8508.5 1.30082
UNC84A Ranked sad1/unc-84 protein-like 1. [swissprot;acc:o94901] 296.677 247.559 1.19841
149 no value atlastin; guanylate-binding protein 3. [refseq;acc:nm_015915] 142 170 1.19718
ANLN Squared anillin, actin binding protein (scraps homolog, drosophila); anillin (drosophila scraps homolog), actin binding protein. [refseq;acc:nm_018685] 103496 146848 1.41888
FOXP3 Rooted forkhead box protein p3 (zinc finger protein jm2) (scurfin). [swissprot;acc:q9bzs1] 42.0684 50.4323 1.19882
VPS24 Measured neuroendocrine differentiation factor; comparative gene identification transcript 149. [refseq;acc:nm_016079] 11068 8508.5 1.30082
150 CHMP4A protein hspc134 (protein cda04). [swissprot;acc:q9by43]
CLP1 Squared pre-mrna cleavage complex ii protein clp1. [swissprot;acc:q92989] 121200 85473.4 1.41799
MYO5B Ranked myosin vb (myosin 5b) (fragment). [swissprot;acc:q9ulv0] 55 46 1.19565
PPP2CA Rooted serine/threonine protein phosphatase 2a, catalytic subunit, alpha isoform (ec 3.1.3.16) (pp2a-alpha) (replication protein c) (rp-c). [swissprot;acc:p05323] 63.5827 53.0856 1.19774
151 CHRAC1 chromatin accessibility complex protein 1 (chrac-1) (chrac-15) (huchrac15) (dna polymerase epsilon subunit p15). [swissprot;acc:q9nrg0] 38.8223 46.4975 1.1977
DNASE2B Squared deoxyribonuclease ii beta isoform 1 precursor; deoxyribonuclease ii beta; endonuclease dlad. [refseq;acc:nm_021233] 250303 354894 1.41786
MYO5C Ranked myosin vc (myosin 5c). [swissprot;acc:q9nqx4] 55 46 1.19565
SH2D3C Measured sh2 domain containing 3c; novel sh2-containing protein 3; sh2 domain-containing 3c; likely ortholog of mouse cas/hef1-associated signal transducer. [refseq;acc:nm_005489] 4578.09 5939.91 1.29746
152 no value Ranked myosin va (myosin 5a) (dilute myosin heavy chain, non-muscle) (myosin heavy chain 12) (myoxin). [swissprot;acc:q9y4i1] 55 46 1.19565
LUC7L2 Rooted luc7-like 2; cgi-74 protein; cgi-59 protein. [refseq;acc:nm_016019] 55.2859 65.9288 1.19251
MAGED4 Measured melanoma antigen, family d, 4 isoform 1; mage1 protein; mage-e1 protein; maged4 protein. [refseq;acc:nm_030801] 23693.7 18263 1.29736
SEPT8 Squared septin-like protein kiaa0202 (fragment). [swissprot;acc:q92599] 90226 126939 1.4069
153 no value ret finger protein 2 (leukemia associated protein 5) (b-cell chronic lymphocytic leukemia tumor suppressor leu5) (putative tumor suppressor rfp2) (tripartite motif protein 13). [swissprot;acc:o60858] 70011 49783 1.40632
LUC7L Rooted luc7-like; sarcoplasmic reticulum protein luc7b1. [refseq;acc:nm_018032] 55.297 65.9236 1.19217
MAGEE2 Measured hepatocellular carcinoma-associated protein hca3. [refseq;acc:nm_138703] 23693.7 18263 1.29736
RBM15B Ranked chromosome 3p21.1 gene sequence. [refseq;acc:nm_013286] 249.663 298.263 1.19466
154 no value Measured melanoma-associated antigen 3 (mage-3 antigen) (antigen mz2-d). [swissprot;acc:p43357] 23693.7 18263 1.29736
CCT3 Squared t-complex protein 1, gamma subunit (tcp-1-gamma) (cct-gamma). [swissprot;acc:p49368] 42788.3 60162.6 1.40605
EIF5 Rooted eukaryotic translation initiation factor 5 (eif-5). [swissprot;acc:p55010] 43.5479 51.5473 1.18369
RGS19 Ranked regulator of g-protein signaling 19 (rgs19) (g-alpha interacting protein) (gaip protein). [swissprot;acc:p49795] 249.663 298.263 1.19466
155 CSTF2 Squared cleavage stimulation factor, 64 kda subunit (cstf 64 kda subunit) (cf-1 64 kda subunit). [swissprot;acc:p33240] 126408 89940.5 1.40546
MAGEA11 Measured melanoma-associated antigen 11 (mage-11 antigen). [swissprot;acc:p43364] 23693.7 18263 1.29736
RBM15 Ranked putative rna-binding protein 15 (rna binding motif protein 15) (one-twenty two protein). [swissprot;acc:q96t37] 249.663 298.263 1.19466
SNRPD2 Rooted small nuclear ribonucleoprotein sm d2 (snrnp core protein d2) (sm-d2). [swissprot;acc:p43330] 55.7423 65.6839 1.17835
156 MAGEA2B Measured melanoma-associated antigen 2 (mage-2 antigen). [swissprot;acc:p43356] 23693.7 18263 1.29736
RGS20 Ranked 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] 249.663 298.263 1.19466
SEPT10 Squared septin 10 isoform 1. [refseq;acc:nm_144710] 89578.7 125883 1.40528
SH2D3C Rooted sh2 domain containing 3c; novel sh2-containing protein 3; sh2 domain-containing 3c; likely ortholog of mouse cas/hef1-associated signal transducer. [refseq;acc:nm_005489] 56.3447 66.124 1.17356
157 no value Measured hepatocellular carcinoma-associated protein hca1. [refseq;acc:nm_020932] 23693.7 18263 1.29736
BRP44 Squared brain protein 44. [swissprot;acc:o95563] 89182.8 125229 1.40418
EIF4G3 Rooted eukaryotic translation initiation factor 4 gamma, 3. [refseq;acc:nm_003760] 52.7582 61.9123 1.17351
LBX1 Ranked transcription factor lbx1. [swissprot;acc:p52954] 249.663 298.263 1.19466
158 BCAR3 Rooted breast cancer antiestrogen resistance 3. [refseq;acc:nm_003567] 56.3507 66.1252 1.17346

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/