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 description Gene Hugo Value Type Network Comparison Type Interaction Map Filtered red green network_comparison
Results: HTML CSV LaTeX Showing element 75 to 124 of 6456 in total
Value Type  : Ranked
Interaction Map  : High confidence
Filtered  : 1
Rank
description
Hugo
Network Comparison Type
red
green
network_comparison
38 guanine nucleotide-binding protein beta subunit 4 (transducin beta chain 4). [swissprot;acc:q9hav0] GNB4 Subtracted 266.933 333.281 66.348
microfibril-associated glycoprotein 4 precursor. [swissprot;acc:p55083] MFAP4 Divided 322 253 1.27273
39 guanine nucleotide-binding protein g(i)/g(s)/g(t) beta subunit 3 (transducin beta chain 3). [swissprot;acc:p16520] GNB3 Subtracted 268.565 334.483 65.918
protein phosphatase 1, regulatory subunit 14d; pkc-dependent pp1 inhibitory protein. [refseq;acc:nm_017726] PPP1R14D Divided 322 253 1.27273
40 deltex 2. [refseq;acc:nm_020892] DTX2 Subtracted 333.144 267.393 65.751
ficolin 2 precursor (collagen/fibrinogen domain-containing protein 2) (ficolin-b) (ficolin b) (serum lectin p35) (ebp-37) (hucolin) (l- ficolin). [swissprot;acc:q15485] FCN2 Divided 322 253 1.27273
41 deltex homolog 1; hdx-1. [refseq;acc:nm_004416] DTX1 Subtracted 332.925 267.274 65.651
protein phosphatase 1, regulatory (inhibitor) subunit 14c; serologically defined breast cancer antigen ny-br-81; pkc-potentiated pp1 inhibitory protein. [refseq;acc:nm_030949] no value Divided 322 253 1.27273
42 proto-oncogene protein c-fos (cellular oncogene fos) (g0/g1 switch regulatory protein 7). [swissprot;acc:p01100] FOS 204.641 160.957 1.2714
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] PBK Subtracted 332.874 267.246 65.628
43 jun dimerization protein. [refseq;acc:nm_130469] no value Divided 204.641 160.957 1.2714
kh domain containing, rna binding, signal transduction associated 3; sam68-like phosphotyrosine protein, t-star. [refseq;acc:nm_006558] KHDRBS3 Subtracted 332.874 267.246 65.628
44 fos-related antigen 2. [swissprot;acc:p15408] FOSL2 Divided 204.641 161.046 1.2707
kh domain containing, rna binding, signal transduction associated 1; gap-associated tyrosine phosphoprotein p62 (sam68). [refseq;acc:nm_006559] KHDRBS1 Subtracted 332.874 267.246 65.628
45 kh domain-containing, rna-binding, signal transduction-associated protein 2; sam68-like mammalian protein 1. [refseq;acc:nm_152688] KHDRBS2
protein fosb (g0/g1 switch regulatory protein 3). [swissprot;acc:p53539] FOSB Divided 204.641 161.051 1.27066
46 fos-related antigen 1 (fra-1). [swissprot;acc:p15407] FOSL1 204.642 161.068 1.27053
neuralized-like. [refseq;acc:nm_004210] NEURL Subtracted 332.326 266.948 65.378
47 gbp protein isoform a. [refseq;acc:nm_017870] TMEM132A Divided 325.586 256.492 1.26938
tob2 protein (transducer of erbb-2 2). [swissprot;acc:q14106] TOB2 Subtracted 350 290 60
48 gaba(a) receptor-associated protein; gaba(a)-receptor-associated protein. [refseq;acc:nm_007278] GABARAP Divided 65.4586 83.0461 1.26868
tob1 protein (transducer of erbb-2 1). [swissprot;acc:p50616] TOB1 Subtracted 350 290 60
49 beta-arrestin 2 (arrestin, beta 2). [swissprot;acc:p32121] ARRB2 Divided 133 105 1.26667
dab2 interacting protein; ngap-like protein; doc-2/dab2 interactive protein. [refseq;acc:nm_032552] DAB2IP Subtracted 350 290 60
50 beta-arrestin 1 (arrestin, beta 1). [swissprot;acc:p49407] ARRB1 Divided 133 105 1.26667
cytoplasmic polyadenylation element binding protein 4. [refseq;acc:nm_030627] CPEB4 Subtracted 350 290 60
51 cytoplasmic polyadenylation element binding protein 3. [refseq;acc:nm_014912] CPEB3
spermatogenesis associated 6. [refseq;acc:nm_019073] SPATA6 Divided 133 105 1.26667
52 amp deaminase 2 (ec 3.5.4.6) (amp deaminase isoform l). [swissprot;acc:q01433] AMPD2
ras gtpase-activating protein ngap (ras protein activator like 1). [swissprot;acc:q9ujf2] RASAL2 Subtracted 350 290 60
53 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] NDUFS4 318.982 259.004 59.978
transcription factor jun-b. [swissprot;acc:p17275] JUNB Divided 201.144 158.868 1.26611
54 1,4-alpha-glucan branching enzyme (ec 2.4.1.18) (glycogen branching enzyme) (brancher enzyme). [swissprot;acc:q04446] GBE1 Subtracted 185.678 245.247 59.569
transcription factor jun-d. [swissprot;acc:p17535] JUND Divided 200.941 158.941 1.26425
55 glycogen phosphorylase, brain form (ec 2.4.1.1). [swissprot;acc:p11216] PYGB Subtracted 185.678 245.247 59.569
protein kinase, interferon-inducible double stranded rna dependent activator; protein activator of the interferon-induced protein kinase. [refseq;acc:nm_003690] PRKRAP1 Divided 320.927 254.434 1.26134
56 glycogen phosphorylase, liver form (ec 2.4.1.1). [swissprot;acc:p06737] PYGL Subtracted 185.678 245.247 59.569
guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-7 subunit. [swissprot;acc:o60262] no value Divided 266.856 336.233 1.25998
57 guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-12 subunit. [swissprot;acc:q9ubi6] GNG12
myosin xv (unconventional myosin-15). [swissprot;acc:q9ukn7] MYO15A Subtracted 185.678 245.247 59.569
58 glycogen phosphorylase, muscle form (ec 2.4.1.1) (myophosphorylase). [swissprot;acc:p11217] PYGM
guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-4 subunit. [swissprot;acc:p50150] GNG4 Divided 266.863 336.191 1.25979
59 guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-3 subunit. [swissprot;acc:p29798] GNG3 336.19 1.25978
potassium voltage-gated channel, shal-related subfamily, member 2; voltage-sensitive potassium channel; voltage-gated potassium channel kv4.2. [refseq;acc:nm_012281] KCND2 Subtracted 269.278 327.709 58.431
60 cystathionine gamma-lyase (ec 4.4.1.1) (gamma-cystathionase). [swissprot;acc:p32929] CTH 269.254 327.655 58.401
guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-8 subunit (gamma-9). [swissprot;acc:q9uk08] GNG8 Divided 266.864 336.184 1.25976
61 guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-5 subunit. [swissprot;acc:p30670] GNG5 336.182 1.25975
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] KCND3 Subtracted 269.248 327.642 58.394
62 guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-10 subunit. [swissprot;acc:p50151] GNG10 Divided 266.865 336.181 1.25974
potassium voltage-gated channel, shal-related subfamily, member 1; shal-type potassium channel; voltage-gated potassium channel kv4.1. [refseq;acc:nm_004979] KCND1 Subtracted 269.23 327.601 58.371

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/