MK5 Microarray Data

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	Gene	Network Comparison Type	description	Value Type	Interaction Map	green	Filtered	red	network_comparison

Results: HTML CSV LaTeX

Showing element 3230 to 3279 of 25824 in total

Interaction Map  : High confidence
Filtered  : 1

Rank	Network Comparison Type	description	Value Type	green	red	network_comparison
404	Subtracted	bullous pemphigoid antigen 1 isoforms 1/2/3/4/5/8 (230 kda bullous pemphigoid antigen) (bpa) (hemidesmosomal plaque protein) (dystonia musculorum protein) (fragment). [swissprot;acc:q03001]	Ranked	246.33	228.463	17.867
		crooked neck-like protein 1 (crooked neck homolog) (hcrn) (cgi-201) (mstp021). [swissprot;acc:q9bzj0]	Rooted	65.604	59.5128	6.0912
		importin-alpha re-exporter (chromosome segregation 1-like protein) (cellular apoptosis susceptibility protein). [swissprot;acc:p55060]	Measured	8731.82	7802.31	929.51
405	Divided	adenylosuccinate synthase-like 1. [refseq;acc:nm_152328]	Squared	32858.1	26822.2	1.22503
		b-raf proto-oncogene serine/threonine-protein kinase (ec 2.7.1.-) (p94) (v-raf murine sarcoma viral oncogene homolog b1). [swissprot;acc:p15056]	Rooted	105.948	116.576	1.10031
		clathrin heavy chain 2 (clh-22). [swissprot;acc:p53675]	Ranked	226.209	207.931	1.0879
		laminin gamma-1 chain precursor (laminin b2 chain). [swissprot;acc:p11047]	Measured	4479.76	5201.41	1.16109
	Subtracted	ccaat-box-binding transcription factor (ccaat-binding factor) (cbf). [swissprot;acc:q03701]	Rooted	54.0843	48.0045	6.0798
		gaba(a) receptor-associated protein; gaba(a)-receptor-associated protein. [refseq;acc:nm_007278]	Ranked	83.0461	65.4586	17.5875
		guanine nucleotide-binding protein g(y), alpha subunit (alpha-11). [swissprot;acc:p29992]	Measured	907.546	1836.71	929.164
		phosphoglycerate kinase 1 (ec 2.7.2.3) (primer recognition protein 2) (prp 2). [swissprot;acc:p00558]	Squared	33985.3	28192	5793.3
406	Divided	60s ribosomal protein l12. [swissprot;acc:p30050]	Rooted	45.4433	49.9858	1.09996
		serine protease htra2, mitochondrial precursor (ec 3.4.21.-) (high temperature requirement protein a2) (htra2) (omi stress-regulated endoprotease) (serine proteinase omi). [swissprot;acc:o43464]	Squared	23245.6	18995.7	1.22373
		thymic stromal co-transporter. [refseq;acc:nm_033051]	Measured	4479.76	5201.41	1.16109
		transcription factor dp-1 (e2f dimerization partner 1) (drtf1- polypeptide-1) (drtf1). [swissprot;acc:q14186]	Ranked	244.304	265.634	1.08731
	Subtracted	guanine nucleotide-binding protein g(q), alpha subunit. [swissprot;acc:p50148]	Measured	907.564	1836.71	929.146
		homeobox protein hox-d9 (hox-4c) (hox-5.2). [swissprot;acc:p28356]	Squared	37986.6	32208.8	5777.8
		neuropilin- and tolloid-like protein 2 precursor. [refseq;acc:nm_018092]	Ranked	254.667	237.109	17.558
		putative pre-mrna splicing factor rna helicase (deah box protein 15) (atp-dependent rna helicase #46). [swissprot;acc:o43143]	Rooted	62.2958	56.2615	6.0343
407	Divided	28s ribosomal protein s9, mitochondrial precursor (mrp-s9). [swissprot;acc:p82933]	Ranked	260.544	239.75	1.08673
		60s ribosomal protein l12 like protein. [sptrembl;acc:o60886]	Rooted	45.4431	49.9856	1.09996
		probable serine protease htra4 precursor (ec 3.4.21.-). [swissprot;acc:p83105]	Squared	23244.9	18995.7	1.22369
		wiskott-aldrich syndrome protein interacting protein (wasp interacting protein) (prpl-2 protein). [swissprot;acc:o43516]	Measured	7664.65	6603.41	1.16071
	Subtracted	guanine nucleotide-binding protein g(z), alpha subunit (g(x) alpha chain) (gz-alpha). [swissprot;acc:p19086]		907.741	1836.76	929.019
		nadh-ubiquinone oxidoreductase b14 subunit (ec 1.6.5.3) (ec 1.6.99.3) (complex i-b14) (ci-b14). [swissprot;acc:p56556]	Squared	37967.7	32193.3	5774.4
		neuropilin- and tolloid-like protein 1 isoform 3 precursor. [refseq;acc:nm_138966]	Ranked	254.667	237.109	17.558
		oligopeptide transporter, kidney isoform (peptide transporter 2) (kidney h+/peptide cotransporter) (solute carrier family 15, member 2). [swissprot;acc:q16348]	Rooted	86.277	80.2562	6.0208
408	Divided	ccaat-box-binding transcription factor (ccaat-binding factor) (cbf). [swissprot;acc:q03701]	Ranked	234.804	255.112	1.08649
		dj999l4.1 (novel protein similar to ribosomal protein l12 (rpl12)). [sptrembl;acc:q9nq02]	Rooted	45.4432	49.9856	1.09996
		dok-like protein. [refseq;acc:nm_024872]	Measured	7081.46	6102.59	1.1604
		probable serine protease htra3 precursor (ec 3.4.21.-). [swissprot;acc:p83110]	Squared	23244.7	18995.7	1.22368
	Subtracted	guanine nucleotide-binding protein g(t), alpha-1 subunit (transducin alpha-1 chain). [swissprot;acc:p11488]	Measured	907.763	1836.76	928.997
		heterogenous nuclear ribonucleoprotein u (hnrnp u) (scaffold attachment factor a) (saf-a). [swissprot;acc:q00839]	Ranked	254.667	237.109	17.558
		nucleotide-binding protein 1 (nbp 1). [swissprot;acc:p53384]	Rooted	65.6741	59.6834	5.9907
		similar to expressed sequence aa415817. [sptrembl;acc:q8n4q9]	Squared	37967.7	32193.3	5774.4
409	Divided	docking protein 2 (p56(dok-2)) (downstream of tyrosine kinase 2). [swissprot;acc:o60496]	Measured	7081.46	6102.59	1.1604
		mitochondrial 60s ribosomal protein l3 (l3mt). [swissprot;acc:p09001]	Rooted	45.8795	50.4409	1.09942
		rna polymerase i associated factor 53. [refseq;acc:nm_022490]	Ranked	261.874	241.045	1.08641
		serine protease htra1 precursor (ec 3.4.21.-) (l56). [swissprot;acc:q92743]	Squared	23242.8	18995.6	1.22359
	Subtracted	gamma-aminobutyric-acid receptor alpha-1 subunit precursor (gaba(a) receptor). [swissprot;acc:p14867]		37967.2	32192.8	5774.4
		guanine nucleotide-binding protein g(t), alpha-2 subunit (transducin alpha-2 chain). [swissprot;acc:p19087]	Measured	907.774	1836.76	928.986
		nucleotide binding protein 2 (nbp 2). [swissprot;acc:q9y5y2]	Rooted	65.6741	59.6834	5.9907
		runt-related transcription factor 2 (core-binding factor, alpha 1 subunit) (cbf-alpha 1) (acute myeloid leukemia 3 protein) (oncogene aml-3) (polyomavirus enhancer binding protein 2 alpha a subunit) (pebp2-alpha a) (pea2-alpha a) (sl3-3 enhancer factor 1 alpha a subunit) (sl3/akv core-binding factor alpha a subunit) (osteoblast- specific transcription factor 2) (osf-2). [swissprot;acc:q13950]	Ranked	254.667	237.109	17.558
410	Divided	crk-associated substrate (p130cas) (breast cancer anti-estrogen resistance 1 protein). [swissprot;acc:p56945]	Squared	23881.6	19546.1	1.22181
		docking protein 1 (p62(dok)) (downstream of tyrosine kinase 1) (pp62). [swissprot;acc:q99704]	Measured	7081.46	6102.59	1.1604
		phenylalanine-4-hydroxylase (ec 1.14.16.1) (pah) (phe-4- monooxygenase). [swissprot;acc:p00439]	Rooted	50.535	55.5489	1.09922
		tfiih basal transcription factor complex p44 subunit (basic transcription factor 2 44 kda subunit) (btf2-p44) (general transcription factor iih polypeptide 2). [swissprot;acc:q13888]	Ranked	253.539	233.376	1.0864
	Subtracted	autophagy protein 5-like (apg5-like) (apoptosis-specific protein). [swissprot;acc:q9h1y0]	Measured	5815.13	6744.05	928.92
		e1b-55kda-associated protein 5 isoform a. [refseq;acc:nm_007040]	Ranked	254.667	237.109	17.558
		gamma-aminobutyric-acid receptor gamma-3 subunit precursor (gaba(a) receptor). [swissprot;acc:q99928]	Squared	37966.8	32192.5	5774.3

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
- 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.