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 description Value Type Network Comparison Type Interaction Map Filtered red green network_comparison
Results: HTML CSV LaTeX Showing element 597 to 646 of 12912 in total
Network Comparison Type  : Divided
Interaction Map  : High confidence
Filtered  : 1
Rank
Hugo
description
Value Type
red
green
network_comparison
150 CHMP4A protein hspc134 (protein cda04). [swissprot;acc:q9by43] Measured 11068 8508.5 1.30082
CLP1 pre-mrna cleavage complex ii protein clp1. [swissprot;acc:q92989] Squared 121200 85473.4 1.41799
MYO5B myosin vb (myosin 5b) (fragment). [swissprot;acc:q9ulv0] Ranked 55 46 1.19565
PPP2CA serine/threonine protein phosphatase 2a, catalytic subunit, alpha isoform (ec 3.1.3.16) (pp2a-alpha) (replication protein c) (rp-c). [swissprot;acc:p05323] Rooted 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 deoxyribonuclease ii beta isoform 1 precursor; deoxyribonuclease ii beta; endonuclease dlad. [refseq;acc:nm_021233] Squared 250303 354894 1.41786
MYO5C myosin vc (myosin 5c). [swissprot;acc:q9nqx4] Ranked 55 46 1.19565
SH2D3C 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] Measured 4578.09 5939.91 1.29746
152 no value myosin va (myosin 5a) (dilute myosin heavy chain, non-muscle) (myosin heavy chain 12) (myoxin). [swissprot;acc:q9y4i1] Ranked 55 46 1.19565
LUC7L2 luc7-like 2; cgi-74 protein; cgi-59 protein. [refseq;acc:nm_016019] Rooted 55.2859 65.9288 1.19251
MAGED4 melanoma antigen, family d, 4 isoform 1; mage1 protein; mage-e1 protein; maged4 protein. [refseq;acc:nm_030801] Measured 23693.7 18263 1.29736
SEPT8 septin-like protein kiaa0202 (fragment). [swissprot;acc:q92599] Squared 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 luc7-like; sarcoplasmic reticulum protein luc7b1. [refseq;acc:nm_018032] Rooted 55.297 65.9236 1.19217
MAGEE2 hepatocellular carcinoma-associated protein hca3. [refseq;acc:nm_138703] Measured 23693.7 18263 1.29736
RBM15B chromosome 3p21.1 gene sequence. [refseq;acc:nm_013286] Ranked 249.663 298.263 1.19466
154 no value melanoma-associated antigen 3 (mage-3 antigen) (antigen mz2-d). [swissprot;acc:p43357] Measured 23693.7 18263 1.29736
CCT3 t-complex protein 1, gamma subunit (tcp-1-gamma) (cct-gamma). [swissprot;acc:p49368] Squared 42788.3 60162.6 1.40605
EIF5 eukaryotic translation initiation factor 5 (eif-5). [swissprot;acc:p55010] Rooted 43.5479 51.5473 1.18369
RGS19 regulator of g-protein signaling 19 (rgs19) (g-alpha interacting protein) (gaip protein). [swissprot;acc:p49795] Ranked 249.663 298.263 1.19466
155 CSTF2 cleavage stimulation factor, 64 kda subunit (cstf 64 kda subunit) (cf-1 64 kda subunit). [swissprot;acc:p33240] Squared 126408 89940.5 1.40546
MAGEA11 melanoma-associated antigen 11 (mage-11 antigen). [swissprot;acc:p43364] Measured 23693.7 18263 1.29736
RBM15 putative rna-binding protein 15 (rna binding motif protein 15) (one-twenty two protein). [swissprot;acc:q96t37] Ranked 249.663 298.263 1.19466
SNRPD2 small nuclear ribonucleoprotein sm d2 (snrnp core protein d2) (sm-d2). [swissprot;acc:p43330] Rooted 55.7423 65.6839 1.17835
156 MAGEA2B melanoma-associated antigen 2 (mage-2 antigen). [swissprot;acc:p43356] Measured 23693.7 18263 1.29736
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] Ranked 249.663 298.263 1.19466
SEPT10 septin 10 isoform 1. [refseq;acc:nm_144710] Squared 89578.7 125883 1.40528
SH2D3C 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] Rooted 56.3447 66.124 1.17356
157 no value hepatocellular carcinoma-associated protein hca1. [refseq;acc:nm_020932] Measured 23693.7 18263 1.29736
BRP44 brain protein 44. [swissprot;acc:o95563] Squared 89182.8 125229 1.40418
EIF4G3 eukaryotic translation initiation factor 4 gamma, 3. [refseq;acc:nm_003760] Rooted 52.7582 61.9123 1.17351
LBX1 transcription factor lbx1. [swissprot;acc:p52954] Ranked 249.663 298.263 1.19466
158 BCAR3 breast cancer antiestrogen resistance 3. [refseq;acc:nm_003567] Rooted 56.3507 66.1252 1.17346
GPSM2 mosaic protein lgn. [swissprot;acc:p81274] Ranked 249.663 298.263 1.19466
MAGEA6 melanoma-associated antigen 6 (mage-6 antigen) (mage3b). [swissprot;acc:p43360] Measured 23693.7 18263 1.29736
SEPT7 septin 7 (cdc10 protein homolog). [swissprot;acc:q16181] Squared 89182.8 125229 1.40418
159 no value rna-binding protein. [refseq;acc:nm_019027] Rooted 52.7642 61.9019 1.17318
NDN necdin. [swissprot;acc:q99608] Measured 23693.7 18263 1.29736
RGS17 regulator of g-protein signaling 17 (rgs17). [swissprot;acc:q9ugc6] Ranked 249.663 298.263 1.19466
SEPT6 septin 6. [swissprot;acc:q14141] Squared 88953.6 124854 1.40359
160 no value apobec-1 complementation factor isoform 1; apobec-1 stimulating protein; apo-b rna editing protein. [refseq;acc:nm_014576] Rooted 52.7642 61.9019 1.17318
homeobox protein hox-c4 (hox-3e) (cp19). [swissprot;acc:p09017] Squared 173408 242989 1.40126
GNAO1 guanine nucleotide-binding protein g(o), alpha subunit 1. [swissprot;acc:p09471] Ranked 249.663 298.263 1.19466
MAGED1 melanoma-associated antigen d1 (mage-d1 antigen) (neurotrophin receptor-interacting mage homolog) (pro2292). [swissprot;acc:q9y5v3] Measured 23693.7 18263 1.29736
161 HOXB4 homeobox protein hox-b4 (hox-2f) (hox-2.6). [swissprot;acc:p17483] Squared 173408 242989 1.40126
MAGEF1 melanoma-associated antigen f1 (mage-f1 antigen). [swissprot;acc:q9hay2] Measured 23693.7 18263 1.29736
RAP1GAP rap1 gtpase-activating protein 1 (rap1gap). [swissprot;acc:p47736] Ranked 249.663 298.263 1.19466
SYNCRIP ns1-associated protein 1. [refseq;acc:nm_006372] Rooted 52.7642 61.9019 1.17318
162 HNRNPR heterogeneous nuclear ribonucleoprotein r (hnrnp r). [swissprot;acc:o43390]
HOXC5 homeobox protein hox-c5 (hox-3d) (cp11). [swissprot;acc:q00444] Squared 173408 242989 1.40126

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/