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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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 2980 to 3029 of 3228 in total

Value Type  : Ranked
Network Comparison Type  : Divided
Interaction Map  : High confidence
Filtered  : 1
red  : 0.00001
green  : 0.00001
network_comparison  : 1

Rank	description
2980	ste20-like kinase; ste2-like kinase. [refseq;acc:nm_016281]
2981	zinc finger daz interacting protein 1. [refseq;acc:nm_014934]
2982	serine/threonine protein kinase mask; ste20-like kinase mst4. [refseq;acc:nm_016542]
2983	cyclin h (mo15-associated protein) (p37) (p34). [swissprot;acc:p51946]
2984	similar to cg5057 gene product. [sptrembl;acc:q9btt4]
2985	myosin heavy chain, smooth muscle isoform (smmhc). [swissprot;acc:p35749]
2986	casein kinase i, gamma 2 isoform (ec 2.7.1.-) (cki-gamma 2). [swissprot;acc:p78368]
2987	spartin; trans-activated by hepatitis c virus core protein 1. [refseq;acc:nm_015087]
2988	myosin heavy chain, nonmuscle type b (cellular myosin heavy chain, type b) (nonmuscle myosin heavy chain-b) (nmmhc-b). [swissprot;acc:p35580]
2989	high mobility group protein 1 (hmg-1). [swissprot;acc:p09429]
2990	cell division protein kinase 8 (ec 2.7.1.-) (protein kinase k35). [swissprot;acc:p49336]
2991	neuromedin u receptor 2. [refseq;acc:nm_020167]
2992	aldehyde dehydrogenase 8 (ec 1.2.1.5). [swissprot;acc:p48448]
2993	vacuolar protein sorting factor 4a; skd1-homolog; vacuolar sorting protein 4. [refseq;acc:nm_013245]
2994	skeletal muscle and kidney enriched inositol phosphatase isoform 1; 43-kda form skeletal muscle and kidney enriched inositol phosphatase. [refseq;acc:nm_016532]
2995	t-complex protein 1, zeta-2 subunit (tcp-1-zeta-2) (cct-zeta-2) (tcp- 1-zeta-like) (cct-zeta-like) (testis-specific tcp20) (testis-specific protein tsa303). [swissprot;acc:q92526]
2996	rna-binding protein 8a (rna binding motif protein 8a) (ribonucleoprotein rbm8a) (rna-binding protein y14) (binder of ovca1- 1) (bov-1). [swissprot;acc:q9y5s9]
2997	proteasome activator complex subunit 3 (proteasome activator 28-gamma subunit) (pa28gamma) (pa28g) (activator of multicatalytic protease subunit 3) (11s regulator complex gamma subunit) (reg-gamma) (ki nuclear autoantigen). [swissprot;acc:q12920]
2998	fyve-finger-containing rab5 effector protein rabenosyn-5. [refseq;acc:nm_022340]
2999	transcription initiation factor tfiid 135 kda subunit (tafii-135) (tafii135) (tafii-130) (tafii130). [swissprot;acc:o00268]
3000	myeloblast kiaa0230 (fragment). [sptrembl;acc:q92626]
3001	ubiquitin-like protein nedd8. [swissprot;acc:q15843]
3002	cyclin t1 (cyclin t) (cyct1). [swissprot;acc:o60563]
3003	testis specific leucine rich repeat protein. [refseq;acc:nm_012472]
3004	small nuclear ribonucleoprotein associated protein n (snrnp-n) (sm protein n) (sm-n) (smn) (sm-d) (tissue-specific splicing protein). [swissprot;acc:p14648]
3005	nadh-ubiquinone oxidoreductase 13 kda-b subunit (ec 1.6.5.3) (ec 1.6.99.3) (complex i-13kd-b) (ci-13kd-b) (complex i subunit b13). [swissprot;acc:q16718]
3006	dgcr8 protein (digeorge syndrome critical region 8). [swissprot;acc:q8wyq5]
3007	glioma-amplified sequence-41; numa binding protein 1. [refseq;acc:nm_006530]
3008	nuclear pore complex protein nup214 (nucleoporin nup214) (214 kda nucleoporin) (can protein). [swissprot;acc:p35658]
3009	cytochrome c oxidase polypeptide vib (ec 1.9.3.1) (aed). [swissprot;acc:p14854]
3010	uroporphyrinogen decarboxylase (ec 4.1.1.37) (uro-d) (upd). [swissprot;acc:p06132]
3011	dna replication licensing factor mcm8 (minichromosome maintenance 8). [swissprot;acc:q9uja3]
3012	small nuclear ribonucleoprotein associated proteins b and b' (snrnp-b) (sm protein b/b') (sm-b/sm-b') (smb/smb'). [swissprot;acc:p14678]
3013	major centromere autoantigen b (centromere protein b) (cenp-b). [swissprot;acc:p07199]
3014	mitochondrial deoxynucleotide carrier (mitochondrial uncoupling protein 1). [swissprot;acc:q9hc21]
3015	pericentrin 1; frount; nucleoporin nup75. [refseq;acc:nm_024844]
3016	mitochondrial ribosomal protein s7; 30s ribosomal protein s7 homolog. [refseq;acc:nm_015971]
3017	leucine rich repeat (in flii) interacting protein 1. [refseq;acc:nm_004735]
3018	cysteine-rich secretory protein-1 precursor (crisp-1) (acidic epididymal glycoprotein homolog) (aeg-like protein) (arp). [swissprot;acc:p54107]
3019	testis intracellular mediator protein. [refseq;acc:nm_057161]
3020	protein kinase c and casein kinase substrate in neurons protein 1. [swissprot;acc:q9by11]
3021	testis-specific protein tpx-1 precursor (cysteine-rich secretory protein-2) (crisp-2). [swissprot;acc:p16562]
3022	n-acetylglucosamine kinase (ec 2.7.1.59) (glcnac kinase). [swissprot;acc:q9uj70]
3023	vesicle-associated membrane protein-associated protein b/c (vamp- associated protein b/c) (vamp-b/vamp-c) (vap-b/vap-c). [swissprot;acc:o95292]
3024	phosphatidylinositol glycan class t precursor. [refseq;acc:nm_015937]
3025	dj579f20.1 (high-mobility group (nonhistone chromosomal) protein 1-like 1). [sptrembl;acc:q9nqj4]
3026	solute carrier family 36 member 1; proton / amino acid symporter; lysosomal amino acid transporter 1. [refseq;acc:nm_078483]
3027	elongation factor ts, mitochondrial precursor (ef-ts) (ef-tsmt). [swissprot;acc:p43897]
3028	clll6 protein. [refseq;acc:nm_020456]
3029	dynein intermediate chain 1, axonemal (axonemal dynein intermediate chain 1). [swissprot;acc:q9ui46]

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.