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.

Proteome Analysis

Below the proteome analysis is presented. The analysis methods are presented in the paper Propagating Differential Gene Expression in Protein Interaction Networks. If you are interested in the most reliable results choose the

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

Results: HTML CSV LaTeX

Showing element 662 to 711 of 3228 in total

Value Type  : Ranked
Network Comparison Type  : Divided
Interaction Map  : High confidence
Filtered  : 1

Rank	description	Hugo	red	green	network_comparison
662	synapsin ii. [swissprot;acc:q92777]	SYN2	229.072	216.576	1.0577
663	mitochondrial ribosome recycling factor. [refseq;acc:nm_138777]	MRRF
664	peroxisomal targeting signal 1 receptor (peroxismore receptor 1) (peroxisomal c-terminal targeting signal import receptor) (pts1-bp) (peroxin-5) (pts1 receptor). [swissprot;acc:p50542]	PEX5
665	hairy/enhancer-of-split related with yrpw motif 2; gridlock; hes-related repressor protein 1. [refseq;acc:nm_012259]	HEY2
666	transcription factor hes-1 (hairy and enhancer of split 1) (hairy- like) (hhl) (hairy homolog). [swissprot;acc:q14469]	HES1
667	delta3,5-delta2,4-dienoyl-coa isomerase, mitochondrial precursor (ec 5.3.3.-). [swissprot;acc:q13011]	ECH1
668	actin-binding lim protein 1 isoform a; lim actin-binding protein 1; limatin; actin-binding lim protein. [refseq;acc:nm_002313]	ABLIM1
669	synapsin i (brain protein 4.1). [swissprot;acc:p17600]	SYN1
670	autoantigen ngp-1. [swissprot;acc:q13823]	GNL2	250.302	236.817	1.05694
671	nucleotide-binding protein 1 (nbp 1). [swissprot;acc:p53384]	NUBP1	210.739	199.398	1.05688
672	nucleotide binding protein 2 (nbp 2). [swissprot;acc:q9y5y2]	NUBP2
673	peripheral plasma membrane protein cask (ec 2.7.1.-) (hcask) (calcium/calmodulin-dependent serine protein kinase) (lin-2 homolog). [swissprot;acc:o14936]	CASK	226.497	214.355	1.05664
674	hypoxia-inducible factor-3 alpha isoform a; inhibitory pas domain protein. [refseq;acc:nm_152794]	HIF3A
675	single-minded homolog 1. [swissprot;acc:p81133]	SIM1
676	dna-directed rna polymerase ii 19 kda polypeptide (ec 2.7.7.6) (rpb7). [swissprot;acc:p52433]	POLR2G	232.469	245.613	1.05654
677	u6 snrna-associated sm-like protein lsm4 (glycine-rich protein) (grp). [swissprot;acc:q9y4z0]	LSM4	228.944	216.745	1.05628
678	sorting nexin 5. [swissprot;acc:q9y5x3]	SNX5	208.482	220.175	1.05609
679	homeobox protein hox-c4 (hox-3e) (cp19). [swissprot;acc:p09017]	no value	132.413	125.389	1.05602
680	homeobox protein hox-b4 (hox-2f) (hox-2.6). [swissprot;acc:p17483]	HOXB4
681	homeobox protein hox-c5 (hox-3d) (cp11). [swissprot;acc:q00444]	HOXC5
682	homeobox protein hox-c6 (hox-3c) (hho.c8) (cp25). [swissprot;acc:p09630]	no value
683	homeobox protein hox-d4 (hox-4b) (hox-5.1) (hho.c13). [swissprot;acc:p09016]	HOXD4
684	homeobox protein hox-b5 (hox-2a) (hho.c10) (hu-1). [swissprot;acc:p09067]	HOXB5
685	homeobox protein hox-a5 (hox-1c). [swissprot;acc:p20719]	HOXA5
686	homeobox protein hox-a4 (hox-1d) (hox-1.4). [swissprot;acc:q00056]	no value
687	retinal short-chain dehydrogenase/reductase 3. [refseq;acc:nm_016246]	HSD17B14
688	dna-directed rna polymerase ii 16 kda polypeptide (ec 2.7.7.6) (rpb4). [swissprot;acc:o15514]	POLR2D	237.554	250.823	1.05586
689	t-complex protein 1, alpha subunit (tcp-1-alpha) (cct-alpha). [swissprot;acc:p17987]	TCP1	135.379	128.225	1.05579
690	nuclear protein skip (ski-interacting protein) (snw1 protein) (nuclear receptor coactivator ncoa-62). [swissprot;acc:q13573]	SNW1	220.593	208.987	1.05553
691	breast carcinoma amplified sequence 2; spliceosome associated protein, amplified in breast cancer. [refseq;acc:nm_005872]	BCAS2	217.602	206.195	1.05532
692	cdc5-like; cdc5 (cell division cycle 5, s. pombe, homolog)-like; cell division cycle 5, s. pombe, homolog-like; cdc5-related protein. [refseq;acc:nm_001253]	CDC5L
693	rna-binding protein nova-1 (neuro-oncological ventral antigen 1) (onconeural ventral antigen-1) (paraneoplastic ri antigen) (ventral neuron-specific protein 1). [swissprot;acc:p51513]	NOVA1	222.554	234.847	1.05524
694	dna polymerase epsilon, catalytic subunit a (ec 2.7.7.7) (dna polymerase ii subunit a). [swissprot;acc:q07864]	POLE	241.907	229.35	1.05475
695	peptidylprolyl isomerase-like 4; cyclophilin-type peptidyl-prolyl cis-trans isomerase; ppiase; serologically defined breast cancer antigen ny-br-18. [refseq;acc:nm_139126]	PPIL4	226.135	214.405	1.05471
696	sr rich protein. [refseq;acc:nm_032870]	SFRS18	225.293	213.64	1.05455
697	ferritin heavy chain (ferritin h subunit). [swissprot;acc:p02794]	FTH1	220.444	209.113	1.05419
698	mitochondrial ferritin; ferritin heavy chain-like; ferritin h subunit. [refseq;acc:nm_177478]	FTMT	220.437	209.118	1.05413
699	cellular repressor of e1a-stimulated genes 2. [refseq;acc:nm_153836]	CREG2	220.438
700	dj681n20.2 (novel protein similar to ferritin, light polypeptide (ftl)). [sptrembl;acc:q9byw6]	no value
701	disks large-associated protein 1 (dap-1) (guanylate kinase-associated protein) (hgkap) (sap90/psd-95-associated protein 1) (sapap1) (psd- 95/sap90 binding protein 1). [swissprot;acc:o14490]	DLGAP1
702	putative adenosylhomocysteinase 2 (ec 3.3.1.1) (s-adenosyl-l- homocysteine hydrolase) (adohcyase). [swissprot;acc:o43865]	AHCYL1
703	limkain b1. [refseq;acc:nm_019081]	KIAA0430
704	putative adenosylhomocysteinase 3 (ec 3.3.1.1) (s-adenosyl-l- homocysteine hydrolase) (adohcyase). [swissprot;acc:q96hn2]	no value
705	cellular repressor of e1a-stimulated genes. [refseq;acc:nm_003851]	CREG1
706	disks large-associated protein 3 (dap-3) (sap90/psd-95-associated protein 3) (sapap3) (psd-95/sap90 binding protein 3) (fragment). [swissprot;acc:o95886]	DLGAP3
707	kininogen precursor (alpha-2-thiol proteinase inhibitor) [contains: bradykinin]. [swissprot;acc:p01042]	KNG1
708	disks large-associated protein 2 (dap-2) (sap90/psd-95-associated protein 2) (sapap2) (psd-95/sap90 binding protein 2) (fragment). [swissprot;acc:q9p1a6]	no value
709	ferritin light chain (ferritin l subunit). [swissprot;acc:p02792]	FTL
710	disks large-associated protein 4 (dap-4) (sap90/psd-95-associated protein 4) (sapap4) (psd-95/sap90 binding protein 4). [swissprot;acc:q9y2h0]	DLGAP4
711	tyrosyl-trna synthetase (ec 6.1.1.1) (tyrosyl--trna ligase) (tyrrs). [swissprot;acc:p54577]	YARS	232.468	245.048	1.05411

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.