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 description Value Type Network Comparison Type Interaction Map Filtered red green network_comparison
Results: HTML CSV LaTeX Showing element 1851 to 1900 of 6456 in total 
Value Type	Ranked
Interaction Map	High confidence
Filtered	1

Rank	description	Network Comparison Type	red	green	network_comparison	
926	imp2 inner mitochondrial membrane protease-like; inner mitochondrial membrane peptidase 2 like. [source:refseq;acc:nm_032549]	Divided	217.942	210.139	1.03713	
926	ponsin; sh3-domain protein 5 (ponsin). [source:refseq;acc:nm_015385]	Subtracted	212.952	205.292	7.66	
927	microsomal signal peptidase 18 kda subunit (ec 3.4.-.-) (spase 18 kda subunit) (spc18) (endopeptidase sp18). [source:swissprot;acc:p21378]	Divided	217.942	210.139	1.03713	
927	splicing factor 3a subunit 3 (spliceosome associated protein 61) (sap 61) (sf3a60). [source:swissprot;acc:q12874]	Subtracted	220.246	212.618	7.628	
928	peptide chain release factor 1, mitochondrial precursor (mrf-1). [source:swissprot;acc:o75570]	Divided	225.976	218.017	1.03651	
928	splicing factor 3 subunit 1 (spliceosome associated protein 114) (sap 114) (sf3a120). [source:swissprot;acc:q15459]	Subtracted	220.246	212.618	7.628	
929	apoptosis antagonizing transcription factor. [source:refseq;acc:nm_012138]	Subtracted	243.045	235.422	7.623	
929	mannose-p-dolichol utilization defect 1 protein (suppressor of lec15 and lec35 glycosylation mutation homolog) (sl15). [source:swissprot;acc:o75352]	Divided	225.955	218.015	1.03642	
930	programmed cell death protein 5 (tfar19 protein) (tf-1 cell apoptosis related gene-19 protein). [source:swissprot;acc:o14737]	Subtracted	233.402	225.782	7.62	
930	pyruvate kinase, m1 isozyme (ec 2.7.1.40) (pyruvate kinase muscle isozyme) (cytosolic thyroid hormone-binding protein) (cthbp) (thbp1). [source:swissprot;acc:p14618]	Divided	231.357	239.778	1.0364	
931	ba305p22.3 (breast carcinoma amplified sequence 4). [source:sptrembl;acc:q8ndy6]	Divided	159.13	164.917	1.03637	
931	prefoldin subunit 5 (c-myc binding protein mm-1) (myc modulator 1). [source:swissprot;acc:q99471]	Subtracted	228.953	221.421	7.532	
932	mitochondrial translational release factor 1-like. [source:refseq;acc:nm_019041]	Divided	225.939	218.013	1.03636	
932	prefoldin subunit 6 (protein ke2). [source:swissprot;acc:o15212]	Subtracted	228.953	221.421	7.532	
933	basic helix-loop-helix domain containing, class b, 5; trinucleotide repeat containing 20. [source:refseq;acc:nm_152414]	Divided	159.165	164.951	1.03635	
933	probable ribosome biogenesis protein nep1 (c2f protein). [source:swissprot;acc:q92979]	Subtracted	242.978	235.518	7.46	
934	nucleolar rna-associated protein alpha isoform. [source:refseq;acc:nm_022917]	Divided	242.024	233.544	1.03631	
934	target of myb protein 1. [source:swissprot;acc:o60784]	Subtracted	217.254	209.824	7.43	
935	huntingtin-associated protein-interacting protein (duo protein). [source:swissprot;acc:o60229]	Subtracted	217.253	209.826	7.427	
935	sirtuin 7; sir2-related protein type 7; sirtuin type 7; sirtuin (silent mating type information regulation 2, s.cerevisiae, homolog) 7; silent mating type information regulation 2, s.cerevisiae, homolog 7; sirtuin silent mating type information regulation 2 homolog 7 (s. cerevisiae). [source:refseq;acc:nm_016538]	Divided	232.473	224.372	1.03611	
936	casein kinase ii beta chain (ck ii) (phosvitin) (g5a). [source:swissprot;acc:p13862]	Divided	232.473	224.372	1.03611	
936	triple functional domain protein (ptprf interacting protein). [source:swissprot;acc:o75962]	Subtracted	217.253	209.827	7.426	
937	splicing factor 3a subunit 3 (spliceosome associated protein 61) (sap 61) (sf3a60). [source:swissprot;acc:q12874]	Divided	220.246	212.618	1.03588	
937	target of myb1-like 2; target of myb1 (chicken) homolog-like 2. [source:refseq;acc:nm_144678]	Subtracted	217.252	209.83	7.422	
938	sorcin (22 kda protein) (cp-22) (v19). [source:swissprot;acc:p30626]	Subtracted	212.442	205.087	7.355	
938	splicing factor 3 subunit 1 (spliceosome associated protein 114) (sap 114) (sf3a120). [source:swissprot;acc:q15459]	Divided	220.246	212.618	1.03588	
939	breast cancer type 1 susceptibility protein. [source:swissprot;acc:p38398]	Divided	216.501	224.27	1.03588	
939	brg1-binding protein eld/osa1; eld (eyelid)/osa protein. [source:refseq;acc:nm_020732]	Subtracted	212.44	205.085	7.355	
940	calcium-dependent protease, small subunit (calpain regulatory subunit) (calcium-activated neutral proteinase) (canp). [source:swissprot;acc:p04632]	Divided	212.442	205.088	1.03586	
940	calcium-dependent protease, small subunit (calpain regulatory subunit) (calcium-activated neutral proteinase) (canp). [source:swissprot;acc:p04632]	Subtracted	212.442	205.088	7.354	
941	swi/snf-related, matrix-associated, actin-dependent regulator of chromatin subfamily f member 1 (swi-snf complex protein p270) (b120). [source:swissprot;acc:o14497]	Divided	212.437	205.083	1.03586	
941	swi/snf-related, matrix-associated, actin-dependent regulator of chromatin subfamily f member 1 (swi-snf complex protein p270) (b120). [source:swissprot;acc:o14497]	Subtracted	212.437	205.083	7.354	
942	grancalcin. [source:swissprot;acc:p28676]	Divided	212.442	205.088	1.03586	
942	grancalcin. [source:swissprot;acc:p28676]	Subtracted	212.442	205.088	7.354	
943	programmed cell death protein 6 (probable calcium-binding protein alg- 2). [source:swissprot;acc:o75340]	Subtracted	212.437	205.083	7.354	
943	sorcin (22 kda protein) (cp-22) (v19). [source:swissprot;acc:p30626]	Divided	212.442	205.087	1.03586	
944	arg/abl-interacting protein 2 isoform 2; arg binding protein 2. [source:refseq;acc:nm_021069]	Subtracted	212.51	205.191	7.319	
944	programmed cell death protein 6 (probable calcium-binding protein alg- 2). [source:swissprot;acc:o75340]	Divided	212.437	205.083	1.03586	
945	brg1-binding protein eld/osa1; eld (eyelid)/osa protein. [source:refseq;acc:nm_020732]	Divided	212.44	205.085	1.03586	
945	dihydropyrimidine dehydrogenase [nadp+] precursor (ec 1.3.1.2) (dpd) (dhpdhase) (dihydrouracil dehydrogenase) (dihydrothymine dehydrogenase). [source:swissprot;acc:q12882]	Subtracted	229.116	221.823	7.293	
946	dynein intermediate chain 2, cytosolic (dh ic-2) (cytoplasmic dynein intermediate chain 2). [source:swissprot;acc:q13409]	Subtracted	225.557	218.271	7.286	
946	histone h4. [source:swissprot;acc:p02304]	Divided	227.765	219.902	1.03576	
947	arg/abl-interacting protein 2 isoform 2; arg binding protein 2. [source:refseq;acc:nm_021069]	Divided	212.51	205.191	1.03567	
947	stem cell growth factor; lymphocyte secreted c-type lectin; lymphocyte secreted c-type lectin. [source:refseq;acc:nm_002975]	Subtracted	177.776	170.499	7.277	
948	sprouty homolog 4 (spry-4). [source:swissprot;acc:q9c004]	Subtracted	225.167	217.922	7.245	
948	target of myb protein 1. [source:swissprot;acc:o60784]	Divided	217.254	209.824	1.03541	
949	huntingtin-associated protein-interacting protein (duo protein). [source:swissprot;acc:o60229]	Divided	217.253	209.826	1.0354	
949	sprouty homolog 3 (spry-3). [source:swissprot;acc:o43610]	Subtracted	225.167	217.922	7.245	
950	dna-repair protein complementing xp-g cells (xeroderma pigmentosum group g complementing protein) (dna excision repair protein ercc-5). [source:swissprot;acc:p28715]	Divided	252.873	261.821	1.03539	
950	sprouty homolog 1 (spry-1) (fragment). [source:swissprot;acc:o43609]	Subtracted	225.167	217.922	7.245	

Legend:
- Rank is the rank after comparing the two networks
- 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/