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

Table 3: Type II network, divided ranks. This table presents the output of the simulation of a type-II network in which we relied on the high confidence interactions and micro-array results. The output of the micro-array was then ranked and these ranks used as input into the network simulation. After performing two such simulations (one for the MK5 off and one for the MK5 on microarray output), we divided the ranks and sorted the results accordingly. The output of this technique is a collection of proteins that cluster naturally together.


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Rank description Gene Hugo Network Comparison Type Value Type Interaction Map Filtered red green network_comparison
Results: HTML CSV LaTeX Showing element 325 to 374 of 16578 in total
Value Type  : Ranked
Filtered  : 1
Rank
description
Hugo
Network Comparison Type
Interaction Map
red
green
network_comparison
82 diacylglycerol kinase, eta isoform 1. [refseq;acc:nm_152910] DGKH Divided Low confidence 226.981 208.077 1.09085
guanine nucleotide-binding protein beta subunit 5 (transducin beta chain 5). [swissprot;acc:o14775] GNB5 High confidence 267.636 335.359 1.25304
tbp-associated factor 2; taf2 rna polymerase ii, tata box binding protein (tbp)-associated factor, 150 kd; tata box binding protein (tbp)-associated factor, rna polymerase ii, b, 150kd; cofactor of initiator function, 150kd subunit. [refseq;acc:nm_003184] TAF2 Subtracted Low confidence 237.567 219.229 18.338
ubiquinone biosynthesis protein coq7 homolog (coenzyme q biosynthesis protein 7 homolog) (timing protein clk-1 homolog). [swissprot;acc:q99807] COQ7 High confidence 252.329 202.004 50.325
83 diacylglycerol kinase, delta (ec 2.7.1.107) (diglyceride kinase) (dgk-delta) (dag kinase delta) (130 kda diacylglycerol kinase) (fragment). [swissprot;acc:q16760] DGKD Divided Low confidence 226.981 208.077 1.09085
homer, neuronal immediate early gene, 1b. [refseq;acc:nm_004272] HOMER1 Subtracted High confidence 252.309 201.998 50.311
melanoma antigen, family d, 4 isoform 1; mage1 protein; mage-e1 protein; maged4 protein. [refseq;acc:nm_030801] MAGED4 Divided 88.2482 110.265 1.24949
star-related lipid transfer protein 7 (stard7) (start domain- containing protein 7) (gtt1 protein). [swissprot;acc:q9nqz5] STARD7 Subtracted Low confidence 228.743 210.764 17.979
84 hepatocellular carcinoma-associated protein hca3. [refseq;acc:nm_138703] MAGEE2 Divided High confidence 88.2482 110.265 1.24949
homer, neuronal immediate early gene, 3. [refseq;acc:nm_004838] HOMER3 Subtracted 252.296 201.995 50.301
oligophrenin 1. [swissprot;acc:o60890] OPHN1 Low confidence 233.837 215.973 17.864
transcription factor dp-1 (e2f dimerization partner 1) (drtf1- polypeptide-1) (drtf1). [swissprot;acc:q14186] no value Divided 226.338 207.874 1.08882
85 melanoma-associated antigen 3 (mage-3 antigen) (antigen mz2-d). [swissprot;acc:p43357] High confidence 88.2482 110.265 1.24949
oligophrenin-1 like protein (gtpase regulator associated with focal adhesion kinase). [swissprot;acc:q9una1] ARHGAP26 Subtracted Low confidence 233.592 215.846 17.746
potassium voltage-gated channel, shal-related subfamily, member 2; voltage-sensitive potassium channel; voltage-gated potassium channel kv4.2. [refseq;acc:nm_012281] KCND2 Divided 225.735 245.308 1.08671
sad1/unc-84 protein-like 1. [swissprot;acc:o94901] UNC84A Subtracted High confidence 296.677 247.559 49.118
86 dgcr14 protein (digeorge syndrome critical region 14) (es2 protein). [swissprot;acc:q96df8] DGCR14 335 286 49
dna fragmentation factor 40 kda subunit (ec 3.-.-.-) (dff-40) (caspase-activated deoxyribonuclease) (caspase-activated dnase) (cad) (caspase-activated nuclease) (cpan). [swissprot;acc:o76075] DFFB Divided Low confidence 233.922 215.309 1.08645
leucine zipper domain protein. [refseq;acc:nm_024589] ROGDI Subtracted 221.996 238.82 16.824
melanoma-associated antigen 11 (mage-11 antigen). [swissprot;acc:p43364] MAGEA11 Divided High confidence 88.2482 110.265 1.24949
87 chromosome 3p21.1 gene sequence. [refseq;acc:nm_013286] RBM15B Subtracted 249.663 298.263 48.6
diacylglycerol kinase, theta (ec 2.7.1.107) (diglyceride kinase) (dgk- theta) (dag kinase theta). [swissprot;acc:p52824] DGKQ Low confidence 229.556 213.456 16.1
melanoma-associated antigen 2 (mage-2 antigen). [swissprot;acc:p43356] MAGEA2B Divided High confidence 88.2482 110.265 1.24949
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 Low confidence 225.545 244.933 1.08596
88 carboxypeptidase d precursor (ec 3.4.17.-) (gp180). [swissprot;acc:o75976] CPD Subtracted 16 32 16
hepatocellular carcinoma-associated protein hca1. [refseq;acc:nm_020932] no value Divided High confidence 88.2482 110.265 1.24949
potassium voltage-gated channel, shal-related subfamily, member 1; shal-type potassium channel; voltage-gated potassium channel kv4.1. [refseq;acc:nm_004979] KCND1 Low confidence 225.428 244.701 1.0855
regulator of g-protein signaling 19 (rgs19) (g-alpha interacting protein) (gaip protein). [swissprot;acc:p49795] RGS19 Subtracted High confidence 249.663 298.263 48.6
89 melanoma-associated antigen 6 (mage-6 antigen) (mage3b). [swissprot;acc:p43360] MAGEA6 Divided 88.2482 110.265 1.24949
putative rna-binding protein 15 (rna binding motif protein 15) (one-twenty two protein). [swissprot;acc:q96t37] RBM15 Subtracted 249.663 298.263 48.6
retinoblastoma-associated factor 600. [refseq;acc:nm_020765] UBR4 Low confidence 165.535 149.799 15.736
star-related lipid transfer protein 7 (stard7) (start domain- containing protein 7) (gtt1 protein). [swissprot;acc:q9nqz5] STARD7 Divided 228.743 210.764 1.0853
90 necdin. [swissprot;acc:q99608] NDN High confidence 88.2482 110.265 1.24949
neuralized-like. [refseq;acc:nm_004210] NEURL Subtracted Low confidence 232.704 216.996 15.708
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] RGS20 High confidence 249.663 298.263 48.6
tbp-associated factor 2; taf2 rna polymerase ii, tata box binding protein (tbp)-associated factor, 150 kd; tata box binding protein (tbp)-associated factor, rna polymerase ii, b, 150kd; cofactor of initiator function, 150kd subunit. [refseq;acc:nm_003184] TAF2 Divided Low confidence 237.567 219.229 1.08365
91 melanoma-associated antigen d1 (mage-d1 antigen) (neurotrophin receptor-interacting mage homolog) (pro2292). [swissprot;acc:q9y5v3] MAGED1 High confidence 88.2482 110.265 1.24949
mouse mammary turmor virus receptor homolog 1. [refseq;acc:nm_152832] FAM89B Subtracted Low confidence 227.429 211.97 15.459
oligophrenin 1. [swissprot;acc:o60890] OPHN1 Divided 233.837 215.973 1.08271
transcription factor lbx1. [swissprot;acc:p52954] LBX1 Subtracted High confidence 249.663 298.263 48.6
92 melanoma-associated antigen f1 (mage-f1 antigen). [swissprot;acc:q9hay2] MAGEF1 Divided 88.2482 110.265 1.24949
mosaic protein lgn. [swissprot;acc:p81274] GPSM2 Subtracted 249.663 298.263 48.6
oligophrenin-1 like protein (gtpase regulator associated with focal adhesion kinase). [swissprot;acc:q9una1] ARHGAP26 Divided Low confidence 233.592 215.846 1.08222
transcription factor e2f1 (e2f-1) (retinoblastoma binding protein 3) (rbbp-3) (prb-binding protein e2f-1) (pbr3) (retinoblastoma-associated protein 1) (rbap-1). [swissprot;acc:q01094] E2F1 Subtracted 220.497 205.364 15.133
93 dab2 interacting protein; ngap-like protein; doc-2/dab2 interactive protein. [refseq;acc:nm_032552] DAB2IP Divided 247.334 228.84 1.08082
melanoma antigen, family b, 6. [refseq;acc:nm_173523] MAGEB6B High confidence 88.2482 110.265 1.24949
regulator of g-protein signaling 17 (rgs17). [swissprot;acc:q9ugc6] RGS17 Subtracted 249.663 298.263 48.6
transcription factor e2f2 (e2f-2). [swissprot;acc:q14209] E2F2 Low confidence 220.497 205.364 15.133
94 adiponectin receptor 2. [refseq;acc:nm_024551] ADIPOR2 219.277 204.212 15.065
guanine nucleotide-binding protein g(o), alpha subunit 1. [swissprot;acc:p09471] GNAO1 High confidence 249.663 298.263 48.6

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/