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 Value Type description Network Comparison Type Interaction Map Filtered red green network_comparison
Results: HTML CSV LaTeX Showing element 177 to 226 of 12912 in total
Network Comparison Type  : Divided
Interaction Map  : High confidence
Filtered  : 1
Rank
Hugo
Value Type
description
red
green
network_comparison
45 no value Squared gaba-a receptor-associated protein. [sptrembl;acc:q9by60] 129597 73157.5 1.77148
FOSB Ranked protein fosb (g0/g1 switch regulatory protein 3). [swissprot;acc:p53539] 204.641 161.051 1.27066
GNB3 Rooted guanine nucleotide-binding protein g(i)/g(s)/g(t) beta subunit 3 (transducin beta chain 3). [swissprot;acc:p16520] 40.081 25.1546 1.59339
GNB4 Measured guanine nucleotide-binding protein beta subunit 4 (transducin beta chain 4). [swissprot;acc:q9hav0] 1926.69 1056.02 1.82448
46 ATG3 Squared apg3p; pc3-96 protein. [refseq;acc:nm_022488] 129597 73157.5 1.77148
DTX2 Rooted deltex 2. [refseq;acc:nm_020892] 27.634 43.9629 1.5909
FOSL1 Ranked fos-related antigen 1 (fra-1). [swissprot;acc:p15407] 204.642 161.068 1.27053
NEUROD2 Measured neurogenic differentiation factor 2 (neurod2). [swissprot;acc:q15784] 779.167 1390.33 1.78438
47 no value Squared ubiquitin activating enzyme e1-like protein. [refseq;acc:nm_006395] 98517.9 56927.2 1.73059
CHD3 Measured chromodomain helicase-dna-binding protein 3 (chd-3) (mi-2 autoantigen 240 kda protein) (mi2-alpha). [swissprot;acc:q12873] 779.167 1390.33 1.78438
DTX1 Rooted deltex homolog 1; hdx-1. [refseq;acc:nm_004416] 27.7078 44.017 1.58861
TMEM132A Ranked gbp protein isoform a. [refseq;acc:nm_017870] 325.586 256.492 1.26938
48 CDK2AP2 Measured doc-1 related protein (doc-1r). [swissprot;acc:o75956] 779.167 1390.33 1.78438
GABARAP Ranked gaba(a) receptor-associated protein; gaba(a)-receptor-associated protein. [refseq;acc:nm_007278] 65.4586 83.0461 1.26868
LASS2 Squared lag1 longevity assurance homolog 2 isoform 1; l3 pigment; tumor metastasis-suppressor. [refseq;acc:nm_022075] 6300.2 10703.5 1.69891
PBK Rooted t-lak cell-originated protein kinase; spermatogenesis-related protein kinase; pdz-binding kinase; pbk; mapkk-like protein kinase; serine/threonine protein kinase. [refseq;acc:nm_018492] 27.7254 44.0299 1.58807
49 ARRB2 Ranked beta-arrestin 2 (arrestin, beta 2). [swissprot;acc:p32121] 133 105 1.26667
KHDRBS3 Rooted kh domain containing, rna binding, signal transduction associated 3; sam68-like phosphotyrosine protein, t-star. [refseq;acc:nm_006558] 27.7254 44.0299 1.58807
NEUROD6 Measured neurogenic differentiation factor 6 (neurod6) (my051 protein). [swissprot;acc:q96nk8] 779.167 1390.33 1.78438
STAMBPL1 Squared associated molecule with the sh3 domain of stam (amsh) like protein. [refseq;acc:nm_020799] 28994.2 17134.8 1.69212
50 ARRB1 Ranked beta-arrestin 1 (arrestin, beta 1). [swissprot;acc:p49407] 133 105 1.26667
CHMP2A Squared putative breast adenocarcinoma marker (32kd). [refseq;acc:nm_014453] 28994.2 17134.8 1.69212
KHDRBS1 Rooted kh domain containing, rna binding, signal transduction associated 1; gap-associated tyrosine phosphoprotein p62 (sam68). [refseq;acc:nm_006559] 27.7254 44.0299 1.58807
NEUROD1 Measured neurogenic differentiation factor 1 (neurod1) (neurod). [swissprot;acc:q13562] 779.167 1390.33 1.78438
51 KHDRBS2 Rooted kh domain-containing, rna-binding, signal transduction-associated protein 2; sam68-like mammalian protein 1. [refseq;acc:nm_152688] 27.7254 44.0299 1.58807
NEUROD4 Measured neurogenic differentiation factor 4 (neurod4). [swissprot;acc:q9hd90] 779.167 1390.33 1.78438
SPATA6 Ranked spermatogenesis associated 6. [refseq;acc:nm_019073] 133 105 1.26667
STAMBP Squared associated molecule with the sh3 domain of stam. [refseq;acc:nm_006463] 28994.2 17134.8 1.69212
52 AMPD2 Ranked amp deaminase 2 (ec 3.5.4.6) (amp deaminase isoform l). [swissprot;acc:q01433] 133 105 1.26667
CHD5 Measured chromodomain helicase dna binding protein 5. [refseq;acc:nm_015557] 779.167 1390.33 1.78438
NEURL Rooted neuralized-like. [refseq;acc:nm_004210] 27.9107 44.1656 1.58239
VPS24 Squared neuroendocrine differentiation factor; comparative gene identification transcript 149. [refseq;acc:nm_016079] 28994.2 17134.8 1.69212
53 CDK2AP1 Measured cyclin-dependent kinase 2-associated protein 1 (cdk2-associated protein 1) (putative oral cancer suppressor) (deleted in oral cancer- 1) (doc-1). [swissprot;acc:o14519] 779.167 1390.33 1.78438
CHMP4A Squared protein hspc134 (protein cda04). [swissprot;acc:q9by43] 28994.2 17134.8 1.69212
JUNB Ranked transcription factor jun-b. [swissprot;acc:p17275] 201.144 158.868 1.26611
NDUFS4 Rooted 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] 30.8986 46.4619 1.50369
54 DTX2 Measured deltex 2. [refseq;acc:nm_020892] 1618.84 2651.88 1.63814
JUND Ranked transcription factor jun-d. [swissprot;acc:p17535] 200.941 158.941 1.26425
MAGED4 Squared melanoma antigen, family d, 4 isoform 1; mage1 protein; mage-e1 protein; maged4 protein. [refseq;acc:nm_030801] 219048 129762 1.68808
UFC1 Rooted protein cgi-126 (protein hspc155). [swissprot;acc:q9y3c8] 40.0958 58.7986 1.46645
55 DTX1 Measured deltex homolog 1; hdx-1. [refseq;acc:nm_004416] 1629.21 2662.12 1.63399
KCND2 Rooted potassium voltage-gated channel, shal-related subfamily, member 2; voltage-sensitive potassium channel; voltage-gated potassium channel kv4.2. [refseq;acc:nm_012281] 41.6734 28.9323 1.44038
MAGEE2 Squared hepatocellular carcinoma-associated protein hca3. [refseq;acc:nm_138703] 219048 129762 1.68808
PRKRAP1 Ranked protein kinase, interferon-inducible double stranded rna dependent activator; protein activator of the interferon-induced protein kinase. [refseq;acc:nm_003690] 320.927 254.434 1.26134
56 no value guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-7 subunit. [swissprot;acc:o60262] 266.856 336.233 1.25998
Squared melanoma-associated antigen 3 (mage-3 antigen) (antigen mz2-d). [swissprot;acc:p43357] 219048 129762 1.68808
CTH Rooted cystathionine gamma-lyase (ec 4.4.1.1) (gamma-cystathionase). [swissprot;acc:p32929] 41.6851 28.9509 1.43986
PBK Measured t-lak cell-originated protein kinase; spermatogenesis-related protein kinase; pdz-binding kinase; pbk; mapkk-like protein kinase; serine/threonine protein kinase. [refseq;acc:nm_018492] 1631.67 2664.55 1.63302
57 GNG12 Ranked guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-12 subunit. [swissprot;acc:q9ubi6] 266.856 336.233 1.25998
KCND3 Rooted potassium voltage-gated channel, shal-related subfamily, member 3 isoform 1; sha1-related potassium channel kv4.3; voltage-gated k+ channel; potassium ionic channel kv4.3; voltage-gated potassium channel kv4.3. [refseq;acc:nm_004980] 41.6879 28.9554 1.43973

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/