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

Results: HTML CSV LaTeX

Showing element 208 to 257 of 16578 in total

Value Type  : Ranked
Filtered  : 1

Rank	Hugo	description	Network Comparison Type	Interaction Map	red	green	network_comparison
52	SMPD2	sphingomyelin phosphodiesterase 2 (ec 3.1.4.12) (neutral sphingomyelinase) (nsmase) (n-smase) (lyso-platelet activating factor- phospholipase c) (lyso-paf-plc). [swissprot;acc:o60906]	Divided	Low confidence	234.802	260.98	1.11149
53	no value	60s ribosomal protein l37a. [swissprot;acc:p12751]	Subtracted		239.692	217.005	22.687
	JUNB	transcription factor jun-b. [swissprot;acc:p17275]	Divided	High confidence	201.144	158.868	1.26611
	NDUFS4	nadh-ubiquinone oxidoreductase 18 kda subunit, mitochondrial precursor (ec 1.6.5.3) (ec 1.6.99.3) (complex i-18 kda) (ci-18 kda) (complex i- aqdq) (ci-aqdq). [swissprot;acc:o43181]	Subtracted		318.982	259.004	59.978
	TMEM33	db83 protein. [swissprot;acc:p57088]	Divided	Low confidence	234.802	260.98	1.11149
54	CPEB3	cytoplasmic polyadenylation element binding protein 3. [refseq;acc:nm_014912]			267.448	240.822	1.11056
	GBE1	1,4-alpha-glucan branching enzyme (ec 2.4.1.18) (glycogen branching enzyme) (brancher enzyme). [swissprot;acc:q04446]	Subtracted	High confidence	185.678	245.247	59.569
	JUND	transcription factor jun-d. [swissprot;acc:p17535]	Divided		200.941	158.941	1.26425
	T	brachyury protein (t protein). [swissprot;acc:o15178]	Subtracted	Low confidence	224.922	202.592	22.33
55	no value	cysteine-rich protein 1 (cysteine-rich intestinal protein) (crip) (cysteine-rich heart protein) (hcrhp). [swissprot;acc:p50238]			230.944	209.149	21.795
	CPEB4	cytoplasmic polyadenylation element binding protein 4. [refseq;acc:nm_030627]	Divided		267.376	240.78	1.11046
	PRKRAP1	protein kinase, interferon-inducible double stranded rna dependent activator; protein activator of the interferon-induced protein kinase. [refseq;acc:nm_003690]		High confidence	320.927	254.434	1.26134
	PYGB	glycogen phosphorylase, brain form (ec 2.4.1.1). [swissprot;acc:p11216]	Subtracted		185.678	245.247	59.569
56	no value	guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-7 subunit. [swissprot;acc:o60262]	Divided		266.856	336.233	1.25998
	PYGL	glycogen phosphorylase, liver form (ec 2.4.1.1). [swissprot;acc:p06737]	Subtracted		185.678	245.247	59.569
	SMYD2	set and mynd domain containing 2; hskm-b protein; zinc finger, mynd domain containing 14. [refseq;acc:nm_020197]		Low confidence	230.944	209.149	21.795
	T	brachyury protein (t protein). [swissprot;acc:o15178]	Divided		224.922	202.592	1.11022
57	FOS	proto-oncogene protein c-fos (cellular oncogene fos) (g0/g1 switch regulatory protein 7). [swissprot;acc:p01100]			202.802	182.73	1.10985
	GNG12	guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-12 subunit. [swissprot;acc:q9ubi6]		High confidence	266.856	336.233	1.25998
	MYO15A	myosin xv (unconventional myosin-15). [swissprot;acc:q9ukn7]	Subtracted		185.678	245.247	59.569
	SMYD1	set and mynd domain containing protein 1. [sptrembl;acc:q8nb12]		Low confidence	230.944	209.149	21.795
58	no value	jun dimerization protein. [refseq;acc:nm_130469]	Divided		202.802	182.73	1.10985
	GNG4	guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-4 subunit. [swissprot;acc:p50150]		High confidence	266.863	336.191	1.25979
	PYGM	glycogen phosphorylase, muscle form (ec 2.4.1.1) (myophosphorylase). [swissprot;acc:p11217]	Subtracted		185.678	245.247	59.569
	UBAC1	putative glialblastoma cell differentiation-related; putative glialblastoma cell differentiation-related protein. [refseq;acc:nm_016172]		Low confidence	155.56	133.876	21.684
59	GNG3	guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-3 subunit. [swissprot;acc:p29798]	Divided	High confidence	266.863	336.19	1.25978
	KCND2	potassium voltage-gated channel, shal-related subfamily, member 2; voltage-sensitive potassium channel; voltage-gated potassium channel kv4.2. [refseq;acc:nm_012281]	Subtracted		269.278	327.709	58.431
	MTUS1	mitochondrial tumor suppressor gene 1; transcription factor mtsg1; at2 receptor-interacting protein 1; erythroid differentiation-related gene. [refseq;acc:nm_020749]		Low confidence	221.902	200.783	21.119
	NDUFA12	nadh-ubiquinone oxidoreductase subunit b17.2 (ec 1.6.5.3) (ec 1.6.99.3) (complex i-b17.2) (ci-b17.2) (cib17.2) (13 kda differentiation-associated protein). [swissprot;acc:q9ui09]	Divided		233.134	210.267	1.10875
60	CTH	cystathionine gamma-lyase (ec 4.4.1.1) (gamma-cystathionase). [swissprot;acc:p32929]	Subtracted	High confidence	269.254	327.655	58.401
	FOSL2	fos-related antigen 2. [swissprot;acc:p15408]	Divided	Low confidence	202.793	182.961	1.10839
	GNG8	guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-8 subunit (gamma-9). [swissprot;acc:q9uk08]		High confidence	266.864	336.184	1.25976
	LENG4	malignant cell expression-enhanced gene/tumor progression-enhanc. [refseq;acc:nm_024298]	Subtracted	Low confidence	211	231.635	20.635
61	APBA1	amyloid beta a4 precursor protein-binding family a member 1 (neuron- specific x11 protein) (neuronal munc18-1-interacting protein 1) (mint-1) (adapter protein x11alpha). [swissprot;acc:q02410]			229.144	208.803	20.341
	FOSB	protein fosb (g0/g1 switch regulatory protein 3). [swissprot;acc:p53539]	Divided		202.792	182.974	1.10831
	GNG5	guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-5 subunit. [swissprot;acc:p30670]		High confidence	266.864	336.182	1.25975
	KCND3	potassium voltage-gated channel, shal-related subfamily, member 3 isoform 1; sha1-related potassium channel kv4.3; voltage-gated k+ channel; potassium ionic channel kv4.3; voltage-gated potassium channel kv4.3. [refseq;acc:nm_004980]	Subtracted		269.248	327.642	58.394
62	FOS	proto-oncogene protein c-fos (cellular oncogene fos) (g0/g1 switch regulatory protein 7). [swissprot;acc:p01100]		Low confidence	202.802	182.73	20.072
	FOSL1	fos-related antigen 1 (fra-1). [swissprot;acc:p15407]	Divided		202.79	183.017	1.10804
	GNG10	guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-10 subunit. [swissprot;acc:p50151]		High confidence	266.865	336.181	1.25974
	KCND1	potassium voltage-gated channel, shal-related subfamily, member 1; shal-type potassium channel; voltage-gated potassium channel kv4.1. [refseq;acc:nm_004979]	Subtracted		269.23	327.601	58.371
63	no value	guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-5 like subunit. [swissprot;acc:q9y3k8]	Divided		266.865	336.178	1.25973
		jun dimerization protein. [refseq;acc:nm_130469]	Subtracted	Low confidence	202.802	182.73	20.072
	NFYC	nuclear transcription factor y subunit gamma (nf-y protein chain c) (nuclear factor yc) (nf-yc) (ccaat-binding transcription factor subunit c) (cbf-c) (transactivator hsm-1/2). [swissprot;acc:q13952]		High confidence	260.532	204.309	56.223
	RBM7	putative rna-binding protein 7 (rna binding motif protein 7). [swissprot;acc:q9y580]	Divided	Low confidence	265.688	239.902	1.10749
64	FOSL2	fos-related antigen 2. [swissprot;acc:p15408]	Subtracted		202.793	182.961	19.832
	GNG11	guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-11 subunit. [swissprot;acc:p50152]	Divided	High confidence	266.868	336.159	1.25965
	JUND	transcription factor jun-d. [swissprot;acc:p17535]		Low confidence	202.709	183.361	1.10552
	NFYA	ccaat-binding transcription factor subunit b (cbf-b) (nf-y protein chain a) (nf-ya) (caat-box dna binding protein subunit a). [swissprot;acc:p23511]	Subtracted	High confidence	260.532	204.309	56.223
65	no value	serine/threonine protein phosphatase 2a, 55 kda regulatory subunit b, alpha isoform (pp2a, subunit b, b-alpha isoform) (pp2a, subunit b, b55-alpha isoform) (pp2a, subunit b, pr55-alpha isoform) (pp2a, subunit b, r2-alpha isoform). [swissprot;acc:q00007]			187.457	243.678	56.221

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.