Scientific

MK5 Microarray Data

Affected Genes - Ontology Breakdown - Gene Enrichment - Proteome Analysis

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.

Navigation/Query Panel:
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 118 to 167 of 3228 in total

Value Type	Measured
Network Comparison Type	Divided
Interaction Map	High confidence
Filtered	1

Rank	description	red	green	network_comparison	
118	pantothenate kinase 3 (ec 2.7.1.33) (pantothenic acid kinase 3) (hpank3). [source:swissprot;acc:q9h999]	21185	28492	1.34491	
119	mitochondrial solute carrier protein. [source:refseq;acc:nm_145305]	21185	28492	1.34491	
120	high-mobility group 20b; sox-like transcriptional factor; swi/snf-related matrix-associated actin-dependent regulator of chromatin subfamily e, member 1-related. [source:refseq;acc:nm_006339]	5136.78	6895.98	1.34247	
121	transcription factor jun-b. [source:swissprot;acc:p17275]	5579.18	7488.4	1.3422	
122	high-mobility group 20a. [source:refseq;acc:nm_018200]	5140.14	6893.53	1.34112	
123	cysteine endopeptidase aut-like 2 isoform a; autophagy-related cysteine endopeptidase 2; autophagin 2. [source:refseq;acc:nm_052936]	24260.3	18172.1	1.33503	
124	microtubule-associated proteins 1a/1b light chain 3b (map1a/map1b lc3 b) (map1a/1b light chain 3 b). [source:swissprot;acc:q9gzq8]	24255.7	18168.9	1.33501	
125	microtubule-associated proteins 1a/1b light chain 3a (map1a/map1b lc3 a) (map1a/1b light chain 3 a). [source:swissprot;acc:q9h492]	24255.7	18168.9	1.33501	
126	cysteine endopeptidase aut-like isoform b. [source:refseq;acc:nm_178326]	24250	18164.9	1.33499	
127	transcription factor jun-d. [source:swissprot;acc:p17535]	5638.2	7523.39	1.33436	
128	luc7-like 2; cgi-74 protein; cgi-59 protein. [source:refseq;acc:nm_016019]	4355.61	5810.82	1.3341	
129	luc7-like; sarcoplasmic reticulum protein luc7b1. [source:refseq;acc:nm_018032]	4358.13	5811.49	1.33348	
130	forkhead box p4; fork head-related protein like a; winged-helix repressor foxp4. [source:refseq;acc:nm_138457]	2234.68	2978.53	1.33287	
131	forkhead box protein p1 (hspc215). [source:swissprot;acc:q9h334]	2234.73	2978.57	1.33285	
132	forkhead box protein p3 (zinc finger protein jm2) (scurfin). [source:swissprot;acc:q9bzs1]	2236.61	2980.35	1.33253	
133	gaba(a) receptor-associated protein; gaba(a)-receptor-associated protein. [source:refseq;acc:nm_007278]	23421.5	17580.4	1.33225	
134	gaba-a receptor-associated protein. [source:sptrembl;acc:q9by60]	21785.2	16426.1	1.32626	
135	apg3p; pc3-96 protein. [source:refseq;acc:nm_022488]	21785.2	16426.1	1.32626	
136	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). [source:swissprot;acc:q13952]	3620.77	4763.34	1.31556	
137	ccaat-binding transcription factor subunit b (cbf-b) (nf-y protein chain a) (nf-ya) (caat-box dna binding protein subunit a). [source:swissprot;acc:p23511]	3620.77	4763.34	1.31556	
138	kv channel interacting protein 1; vesicle apc-binding protein; a-type potassium channel modulatory protein 1. [source:refseq;acc:nm_014592]	2755.15	2094.3	1.31555	
139	potassium channel-interacting protein 4 isoform 4; calsenilin-like protein. [source:refseq;acc:nm_147183]	2759.61	2099.49	1.31442	
140	kv channel interacting protein 2 isoform 4; a-type potassium channel modulatory protein 2; cardiac voltage gated potassium channel modulatory subunit. [source:refseq;acc:nm_173193]	2760.28	2100.27	1.31425	
141	small nuclear ribonucleoprotein sm d2 (snrnp core protein d2) (sm-d2). [source:swissprot;acc:p43330]	4405.4	5782.08	1.3125	
142	metalloprotease 1; metalloprotease 1 (pitrilysin family). [source:refseq;acc:nm_014889]	9276.47	7090.37	1.30832	
143	beta-1,4 mannosyltransferase. [source:refseq;acc:nm_019109]	9275.1	7089.65	1.30826	
144	sad1/unc-84 protein-like 1. [source:swissprot;acc:o94901]	3349.9	4362.61	1.30231	
145	ubiquitin activating enzyme e1-like protein. [source:refseq;acc:nm_006395]	16771.5	12889.1	1.30122	
146	associated molecule with the sh3 domain of stam (amsh) like protein. [source:refseq;acc:nm_020799]	11068	8508.5	1.30082	
147	putative breast adenocarcinoma marker (32kd). [source:refseq;acc:nm_014453]	11068	8508.5	1.30082	
148	associated molecule with the sh3 domain of stam. [source:refseq;acc:nm_006463]	11068	8508.5	1.30082	
149	neuroendocrine differentiation factor; comparative gene identification transcript 149. [source:refseq;acc:nm_016079]	11068	8508.5	1.30082	
150	protein hspc134 (protein cda04). [source:swissprot;acc:q9by43]	11068	8508.5	1.30082	
151	sh2 domain containing 3c; novel sh2-containing protein 3; sh2 domain-containing 3c; likely ortholog of mouse cas/hef1-associated signal transducer. [source:refseq;acc:nm_005489]	4578.09	5939.91	1.29746	
152	melanoma antigen, family d, 4 isoform 1; mage1 protein; mage-e1 protein; maged4 protein. [source:refseq;acc:nm_030801]	23693.7	18263	1.29736	
153	hepatocellular carcinoma-associated protein hca3. [source:refseq;acc:nm_138703]	23693.7	18263	1.29736	
154	melanoma-associated antigen 3 (mage-3 antigen) (antigen mz2-d). [source:swissprot;acc:p43357]	23693.7	18263	1.29736	
155	melanoma-associated antigen 11 (mage-11 antigen). [source:swissprot;acc:p43364]	23693.7	18263	1.29736	
156	melanoma-associated antigen 2 (mage-2 antigen). [source:swissprot;acc:p43356]	23693.7	18263	1.29736	
157	hepatocellular carcinoma-associated protein hca1. [source:refseq;acc:nm_020932]	23693.7	18263	1.29736	
158	melanoma-associated antigen 6 (mage-6 antigen) (mage3b). [source:swissprot;acc:p43360]	23693.7	18263	1.29736	
159	necdin. [source:swissprot;acc:q99608]	23693.7	18263	1.29736	
160	melanoma-associated antigen d1 (mage-d1 antigen) (neurotrophin receptor-interacting mage homolog) (pro2292). [source:swissprot;acc:q9y5v3]	23693.7	18263	1.29736	
161	melanoma-associated antigen f1 (mage-f1 antigen). [source:swissprot;acc:q9hay2]	23693.7	18263	1.29736	
162	melanoma antigen, family b, 6. [source:refseq;acc:nm_173523]	23693.7	18263	1.29736	
163	melanoma-associated antigen 4 (mage-4 antigen) (mage-x2) (mage-41). [source:swissprot;acc:p43358]	23693.7	18263	1.29736	
164	melanoma-associated antigen 9 (mage-9 antigen). [source:swissprot;acc:p43362]	23693.7	18263	1.29736	
165	melanoma-associated antigen 8 (mage-8 antigen). [source:swissprot;acc:p43361]	23693.7	18263	1.29736	
166	melanoma-associated antigen c1 (mage-c1 antigen) (cancer-testis antigen ct7). [source:swissprot;acc:o60732]	23693.7	18263	1.29736	
167	melanoma-associated antigen 12 (mage-12 antigen) (mage12f). [source:swissprot;acc:p43365]	23693.7	18263	1.29736	

Legend:
- Rank is the rank after comparing the two networks
- 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.

- http://analysis.yellowcouch.org/