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 description Value Type Network Comparison Type Interaction Map Filtered red green network_comparison
Results: HTML CSV LaTeX Showing element 368 to 417 of 502 in total
Value Type  : Ranked
Network Comparison Type  : Divided
Interaction Map  : High confidence
Filtered  : 0
Rank
Hugo
description
red
green
network_comparison
368 no value adapter-related protein complex 1 sigma 1b subunit (sigma-adaptin 1b) (adaptor protein complex ap-1 sigma-1b subunit) (golgi adaptor ha1/ap1 adaptin sigma-1b subunit) (clathrin assembly protein complex 1 sigma- 1b small chain) (sigma 1b subunit of ap-1 clathrin) (dc22). [swissprot;acc:p56377] 16679.2 15940.6 1.04633
369 4-aminobutyrate aminotransferase, mitochondrial precursor (ec 2.6.1.19) (gamma-amino-n-butyrate transaminase) (gaba transaminase) (gaba aminotransferase) (gaba-at) (gaba-t). [swissprot;acc:p80404] 18849.7 19704.7 1.04536
370 PDHA2 pyruvate dehydrogenase e1 component alpha subunit, testis-specific form, mitochondrial precursor (ec 1.2.4.1) (pdhe1-a type ii). [swissprot;acc:p29803] 13652.7 13061 1.0453
371 SMARCC2 swi/snf-related matrix-associated actin-dependent regulator of chromatin c2 isoform a; mammalian chromatin remodeling complex brg1-associated factor 170; chromatin remodeling complex baf170 subunit; swi3-like protein; swi/snf complex 170 kda subunit. [refseq;acc:nm_003075] 13247.9 12674.2 1.04527
372 no value dead (asp-glu-ala-asp) box polypeptide 47; hqp0256 protein. [refseq;acc:nm_016355] 11869.9 12402.7 1.04489
373 mitogen-activated protein kinase kinase kinase 5 (ec 2.7.1.-) (mapk/erk kinase kinase 5) (mek kinase 5) (mekk 5) (apoptosis signal- regulating kinase 1) (ask-1). [swissprot;acc:q99683] 10598.2 11061.5 1.04371
374 CAPS calcyphosine. [swissprot;acc:q13938] 9874.54 9478.1 1.04183
375 TAF9B tbp-associated factor 9l; neuronal cell death-related protein; taf9-like rna polymerase ii, tata box binding protein (tbp)-associated factor, 31 kd; neuronal cell death-related gene in neuron-7; transcription associated factor tafii31l; transcription initiation factor iid, 31kd subunit. [refseq;acc:nm_015975] 14247.6 13686.9 1.04097
376 UQCRC1 ubiquinol-cytochrome c reductase complex core protein i, mitochondrial precursor (ec 1.10.2.2). [swissprot;acc:p31930] 10284.9 10695.6 1.03993
377 ITGB3 integrin beta-3 precursor (platelet membrane glycoprotein iiia) (gpiiia) (cd61 antigen). [swissprot;acc:p05106] 14512.3 13958.2 1.0397
378 DCHS1 protocadherin 16 precursor (cadherin 19) (cadherin fibroblast 1). [swissprot;acc:q96jq0] 19713.5 18962.5 1.0396
379 PSMD10 26s proteasome non-atpase regulatory subunit 10 (26s proteasome regulatory subunit p28) (gankyrin). [swissprot;acc:o75832] 11228.4 10806 1.03909
380 no value 40s ribosomal protein s27 (metallopan-stimulin 1) (mps-1). [swissprot;acc:p42677] 9566.15 9936.37 1.0387
381 RPS27L ribosomal protein s27-like protein; 40s ribosomal protein s27 isoform. [refseq;acc:nm_015920] 9565.54 9935.19 1.03864
382 ACTG1 actin, cytoplasmic 2 (gamma-actin). [swissprot;acc:p02571] 10449 10061.8 1.03848
383 CDYL2 chromodomain y-like protein 2. [refseq;acc:nm_152342] 10273.1 10665.1 1.03816
384 BYSL bystin. [swissprot;acc:q13895] 10833.3 11244.5 1.03796
385 CDY2B testis-specific chromodomain protein y protein 2. [swissprot;acc:q9y6f7] 10302.7 10686.7 1.03727
386 CDY1B testis-specific chromodomain y protein 1. [swissprot;acc:q9y6f8] 10303.7 10687.4 1.03724
387 DTYMK thymidylate kinase (ec 2.7.4.9) (dtmp kinase). [swissprot;acc:p23919] 10481.8 10869.5 1.03699
388 no value peroxisomal 3,2-trans-enoyl-coa isomerase (ec 5.3.3.8) (dodecenoyl-coa delta-isomerase) (d3,d2-enoyl-coa isomerase) (dbi-related protein 1) (drs-1) (hepatocellular carcinoma-associated antigen 88). [swissprot;acc:o75521] 9953.39 10320.9 1.03692
389 HOMER1 homer, neuronal immediate early gene, 1b. [refseq;acc:nm_004272] 11794.7 11375.4 1.03686
390 no value alpha-nac protein. [sptrembl;acc:q9h009] 14204.4 14724.5 1.03662
391 nascent-polypeptide-associated complex alpha polypeptide. [refseq;acc:nm_005594] 14223.9 14738.5 1.03618
392 seven in absentia homolog 1. [refseq;acc:nm_003031] 9854.67 10201.4 1.03518
393 transcription elongation factor a protein 1 (transcription elongation factor s-ii protein 1) (transcription elongation factor tfiis.o). [swissprot;acc:p23193] 12576 13010 1.03451
394 60s ribosomal protein l12. [swissprot;acc:p30050] 10196.9 9857.79 1.0344
395 dj999l4.1 (novel protein similar to ribosomal protein l12 (rpl12)). [sptrembl;acc:q9nq02] 10195.5 9856.7 1.03437
396 60s ribosomal protein l12 like protein. [sptrembl;acc:o60886] 10194.8 9856.12 1.03436
397 60s ribosomal protein l10a (csa-19). [swissprot;acc:p53025] 10006.9 9676.53 1.03414
398 glycerol kinase (ec 2.7.1.30) (atp:glycerol 3-phosphotransferase) (glycerokinase) (gk). [swissprot;acc:p32189] 16699.2 17267.9 1.03406
399 glycerol kinase, testis specific 1 (ec 2.7.1.30) (atp:glycerol 3- phosphotransferase) (glycerokinase) (gk). [swissprot;acc:q14409] 16703.1 17271.4 1.03402
400 glycerol kinase, testis specific 2 (ec 2.7.1.30) (atp:glycerol 3- phosphotransferase) (glycerokinase) (gk). [swissprot;acc:q14410] 16711 17278.4 1.03395
401 transcription factor dp-1 (e2f dimerization partner 1) (drtf1- polypeptide-1) (drtf1). [swissprot;acc:q14186] 12305.9 11904.9 1.03368
402 AP1M2 adaptor-related protein complex 1, mu 2 subunit (mu-adaptin 2) (adaptor protein complex ap-1 mu-2 subunit) (golgi adaptor ha1/ap1 adaptin mu-2 subunit) (clathrin assembly protein assembly protein complex 1 medium chain 2) (ap-mu chain family member mu1b). [swissprot;acc:q9y6q5] 10562.4 10918 1.03367
403 no value udp-glucuronosyltransferase 2b17 precursor, microsomal (ec 2.4.1.17) (udpgt) (c19-steroid specific udp-glucuronosyltransferase). [swissprot;acc:o75795] 9783.63 10111.2 1.03348
404 udp-glucuronosyltransferase 2b11 precursor, microsomal (ec 2.4.1.17) (udpgt). [swissprot;acc:o75310]
405 UGT2B4 udp-glucuronosyltransferase 2b4 precursor, microsomal (ec 2.4.1.17) (udpgt) (hyodeoxycholic acid) (hlug25) (udpgth-1). [swissprot;acc:p06133]
406 ENPEP glutamyl aminopeptidase (ec 3.4.11.7) (eap) (aminopeptidase a) (apa) (differentiation antigen gp160). [swissprot;acc:q07075]
407 UGT2B10 udp-glucuronosyltransferase 2b10 precursor, microsomal (ec 2.4.1.17) (udpgt). [swissprot;acc:p36537]
408 no value udp-glucuronosyltransferase 2b15 precursor, microsomal (ec 2.4.1.17) (udpgt) (udpgth-3) (hlug4). [swissprot;acc:p54855]
409 DIP2B similar to cg7020 gene product (fragment). [sptrembl;acc:q96ib4] 10598.5 10945.3 1.03272
410 no value histone h4. [swissprot;acc:p02304] 9611.37 9308.99 1.03248
411 60s ribosomal protein l22 (epstein-barr virus small rna associated protein) (eber associated protein) (eap) (heparin binding protein hbp15). [swissprot;acc:p35268] 12115.7 12508.3 1.0324
412 ALAS1 5-aminolevulinic acid synthase, nonspecific, mitochondrial precursor (ec 2.3.1.37) (delta-aminolevulinate synthase) (delta-ala synthetase) (alas-h). [swissprot;acc:p13196] 8546.06 8279.69 1.03217
413 PTRH2 protein cgi-147. [swissprot;acc:q9y3e5] 5135.25 5298.12 1.03172
414 no value germ cell-less. [refseq;acc:nm_022471] 10978.8 10644.4 1.03142
415 transcription factor mafg (v-maf musculoaponeurotic fibrosarcoma oncogene homolog g) (hmaf). [swissprot;acc:o15525] 13571.2 13166.3 1.03075
416 transcription factor mafk (erythroid transcription factor nf-e2 p18 subunit). [swissprot;acc:o60675] 13607.6 13202 1.03072
417 LSAMP limbic system-associated membrane protein precursor (lsamp). [swissprot;acc:q13449] 10854.8 10537.9 1.03007

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/