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

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 25 to 74 of 515 in total

Network Comparison Type  : Subtracted
Value Type  : Ranked
Interaction Map  : High confidence
Filtered  : 1
red  : 0
green  : 0
network_comparison  : 0

Rank	description	Hugo
2780	importin alpha-2 subunit (karyopherin alpha-2 subunit) (srp1-alpha) (rag cohort protein 1). [swissprot;acc:p52292]	KPNA2
2781	exocyst complex component exo70. [swissprot;acc:q9upt5]	EXOC7
2782	vacuolar atp synthase membrane sector associated protein m8-9 (v-atpase m8.9 subunit). [swissprot;acc:o75787]	ATP6AP2
2783	mab-21-like protein 2; mab-21-like 2. [refseq;acc:nm_006439]	MAB21L2
2784	histone h2a.a (h2a/a) (h2a.2). [swissprot;acc:p28001]	HIST3H2A
2785	nucleophosmin (npm) (nucleolar phosphoprotein b23) (numatrin) (nucleolar protein no38). [swissprot;acc:p06748]	NPM1
2786	mab-21-like protein 1; mab-21-like 1. [refseq;acc:nm_005584]	MAB21L1
2787	high mobility group protein 4-like (hmg-4l). [swissprot;acc:q9uj13]	HMG4L
2788	a-kinase anchor protein 5 (a-kinase anchor protein 79 kda) (akap 79) (camp-dependent protein kinase regulatory subunit ii high affinity binding protein) (h21). [swissprot;acc:p24588]	AKAP5
2789	protein-tyrosine phosphatase, non-receptor type 11 (ec 3.1.3.48) (protein-tyrosine phosphatase 2c) (ptp-2c) (ptp-1d) (sh-ptp3) (sh- ptp2) (shp-2). [swissprot;acc:q06124]	PTPN11
2790	transcription factor mafb (v-maf musculoaponeurotic fibrosarcoma oncogene homolog b). [swissprot;acc:q9y5q3]	no value
2791	cytochrome c oxidase polypeptide va, mitochondrial precursor (ec 1.9.3.1). [swissprot;acc:p20674]	COX5A
2792	transcription factor maf (proto-oncogene c-maf). [swissprot;acc:o75444]	MAF
2793	udp-glucuronosyltransferase 2b17 precursor, microsomal (ec 2.4.1.17) (udpgt) (c19-steroid specific udp-glucuronosyltransferase). [swissprot;acc:o75795]	no value
2794	sh2-b homolog; likely ortholog of mouse sh2 domain-containing putative adapter sh2-b; sh2-b gamma signaling protein; sh2-b alpha signaling protein. [refseq;acc:nm_015503]	SH2B1
2795	nadh-ubiquinone oxidoreductase 24 kda subunit, mitochondrial precursor (ec 1.6.5.3) (ec 1.6.99.3). [swissprot;acc:p19404]	NDUFV2
2796	dna methyltransferase 1-associated protein 1 (dnmt1-associated protein 1) (dnmap1). [swissprot;acc:q9npf5]	DMAP1
2797	sperm tail protein shippo1; h-shippo 1. [refseq;acc:nm_053280]	ODF3
2798	ariadne-2 protein homolog (ari-2) (triad1 protein) (ht005). [swissprot;acc:o95376]	ARIH2
2799	hmg2 like. [refseq;acc:nm_145205]	HMGB4
2800	mondoa. [refseq;acc:nm_014938]	MLXIP
2801	dna-repair protein complementing xp-f cell (xeroderma pigmentosum group f complementing protein) (dna excision repair protein ercc-4). [swissprot;acc:q92889]	ERCC4
2802	3 beta-hydroxysteroid dehydrogenase/delta 5-->4-isomerase type i (3beta-hsd i) (trophoblast antigen fdo161g) [includes: 3-beta-hydroxy- delta(5)-steroid dehydrogenase (ec 1.1.1.145) (3-beta-hydroxy-5-ene steroid dehydrogenase) (progesterone reductase); steroid delta- isomerase (ec 5.3.3.1) (delta-5-3-ketosteroid isomerase)]. [swissprot;acc:p14060]	no value
2803	nanos (fragment). [sptrembl;acc:q8wy41]
2804	barrier-to-autointegration factor (breakpoint cluster region protein 1). [swissprot;acc:o75531]	BANF1
2805	phosphofurin acidic cluster sorting protein 1 isoform 1; cytosolic sorting protein pacs-1. [refseq;acc:nm_018026]	PACS1
2806	spry domain-containing socs box protein ssb-4. [refseq;acc:nm_080862]	SPSB4
2807	ras-related protein rab-1b. [swissprot;acc:q9h0u4]	RAB1C
2808	dna ligase iv (ec 6.5.1.1) (polydeoxyribonucleotide synthase [atp]). [swissprot;acc:p49917]	LIG4
2809	polyhomeotic like 3; early development regulator 3; polyhomeotic 3. [refseq;acc:nm_024947]	PHC3
2810	udp glycosyltransferase 2 family, polypeptide a1; udp glucuronosyltransferase 2 family, polypeptide a1. [refseq;acc:nm_006798]	UGT2A1
2811	vascular endothelial growth factor b precursor (vegf-b) (vegf related factor) (vrf). [swissprot;acc:p49765]	VEGFB
2812	mob-lak. [refseq;acc:nm_130807]	MOBKL2A
2813	histone deacetylase 3 (hd3) (rpd3-2). [swissprot;acc:o15379]	HDAC3
2814	spry domain-containing socs box protein ssb-1. [refseq;acc:nm_025106]	SPSB1
2815	g protein-coupled receptor 66. [refseq;acc:nm_006056]	NMUR1
2816	tigger transposable element derived 1; jerky (mouse) homolog-like. [refseq;acc:nm_145702]	TIGD1
2817	tubulin-specific chaperone a (tubulin-folding cofactor a) (cfa) (tcp1-chaperonin cofactor a). [swissprot;acc:o75347]	TBCA
2818	udp-glucuronosyltransferase 2b7 precursor, microsomal (ec 2.4.1.17) (udpgt) (3,4-catechol estrogen specific) (udpgth-2). [swissprot;acc:p16662]	UGT2B7
2819	udp-glucuronosyltransferase 2b11 precursor, microsomal (ec 2.4.1.17) (udpgt). [swissprot;acc:o75310]	no value
2820	peregrin (bromodomain and phd finger-containing protein 1) (br140 protein). [swissprot;acc:p55201]
2821	vacuolar proton-atpase subunit. [sptrembl;acc:q8nhe4]	ATP6V0E2
2822	zinc transporter 1 (znt-1). [swissprot;acc:q9y6m5]	SLC30A1
2823	nuclear factor related to kappa b binding protein. [refseq;acc:nm_006165]	NFRKB
2824	heat-shock protein, beta-2 (hspb2) (dmpk-binding protein) (mkbp). [swissprot;acc:q16082]	HSPB2
2825	mitochondrial 28s ribosomal protein s6 (mrp-s6). [swissprot;acc:p82932]	no value
2826	suppressor of actin 1. [refseq;acc:nm_014016]
2827	cop9 signalosome complex subunit 1 (g protein pathway suppressor 1) (gps1 protein) (mfh protein). [swissprot;acc:q13098]	GPS1
2828	ubiquitin-conjugating enzyme e2-18 kda ubch7 (ec 6.3.2.19) (ubiquitin- protein ligase) (ubiquitin carrier protein) (ubcm4) (e2-f1) (l-ubc). [swissprot;acc:p51966]	no value
2829	alveolar soft part sarcoma chromosome region, candidate 1; aspl protein; renal cell carcinoma gene on chromosome 17; renal cell carcinoma, papillary, 17 gene; aspscr1/tfe3 fusion gene, included. [refseq;acc:nm_024083]	ASPSCR1

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.