bionic-vis

Proteomaps show the quantitative composition of proteomes. Each protein is represented by a polygon: areas reflect protein abundance, and functionally related proteins are arranged in common and similarly colored regions. For further reading please see www.proteomaps.net

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Homo sapiens (Human) t4subset 15857618013047	Homo sapiens (Human) t3all 15857617159990	Homo sapiens (Human) no comment 15856449994905	Homo sapiens (Human) HCC1954 E and FT 15850222493487	Saccharomyces cerevisiae (Baker's yeast) no comment 15848168613862
Saccharomyces cerevisiae (Baker's yeast) no comment 15848168429952	Mus musculus (Mouse) no comment 15836669560915	Escherichia coli no comment 15827328409380	Saccharomyces cerevisiae (Baker's yeast) no comment 15824849144648	Homo sapiens (Human) no comment 15815320176908

organism?	select
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tsv file?	browse
or data? Insert an example? Please consider!
cushioning?

Pseudomonas aeruginosa PAO1 oprM-uu 15859309647345	Pseudomonas aeruginosa PAO1 oprM-du 15859309363705	Pseudomonas aeruginosa PAO1 mexB-uu 15859309006329	Pseudomonas aeruginosa PAO1 mexB-du 15859308698264	Pseudomonas aeruginosa PAO1 mexA-uu 15859308353758
Pseudomonas aeruginosa PAO1 mexA-du 15859307553454	Pseudomonas aeruginosa PAO1 no comment 15859124728303	Mus musculus (Mouse) no comment 15858259204720	Homo sapiens (Human) diff 15858189699206	Homo sapiens (Human) EV-474-SPTM 15857803270873

Before setting up an individual treemap template these issues need to be considered.
treemap name?
upload tmd file?	browse
edit tmd data? Insert an example?	text tree
source?
db link?
comment?
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user template previews

test102 no comment 15859290088064	test101 no comment 15859288901855	human gut microbiota selected 3 no comment 15827453354157	Human gut microbiota selected2 (adapted by EB 26022020) Exported from MetaCyc 15827046509748	Human gut microbiota selected (adapted by EB 26022020) Updated protein codes, pathways from MetaCyc 15827032709262
Human gut microbiota (adapted by E 24022020) Wilcoxon test 15825463746001	gut microbiota MetaCyc pathways - coded 16s rRNA seq -> functional impute via PICRUSt2 -> association with MetaCyc pathways 15824615704067	plastidfuncat2 (adapted by H 12022020) no comment 15815167445972	plastid funcats (adapted by H 12022020) no comment 15815163619486	Ath (130120) no comment 15789235132201

organism?	select
comment?
tsv file?	browse
or data? Insert an example? Please consider!
cushioning?

Proteomaps JOSE-GABY prueba no comment 15857783924511	kegg_mtq no comment 15857632753865	kegg_cl no comment 15857632062998	kegg_km no comment 15857624243276	E_coli_biomass (adapted by WL 28102015) no comment 15857597651108
AA10 no comment 15854954281528	AA10 no comment 15854953738174	AA10 no comment 15854883237308	kegg_km no comment 15852959007605	kegg_km no comment 15852957066934

This website and the underlying treemap algorithm is provided for non profit research or/and academic organisations only.

The space proportional algorithm for the generation of Voronoi Treemaps has been implemented within the DFG Research Initiative SFB Transregio34 Z1.
For commercial applications please contact DECODON GmbH.
For individual access please set up a collaboration within academic research efforts with Jörg Bernhardt.

The idea of comparable treemaps for different biological species was born in Dec 2012 in a collaborative effort of Ron Milo, Weizmann Institute of Science; Wolfram Liebermeister, Charité - Universitätsmedizin Berlin and Jörg Bernhardt, Universität Greifswald.

If you have used Proteomaps for your research please cite:

Liebermeister W., Noor E., Flamholz A., Davidi D., Bernhardt J., and Milo R. (2014), Visual account of protein investment in cellular functions, PNAS 111 (23), 8488-8493.

Otto, A., Bernhardt, J., Meyer, H., Schaffer, M., Herbst, F.-A., Siebourg, J., Mäder, U., Lalk, M., Hecker, M., and Becher, D. (2010). Systems-wide temporal proteomic profiling in glucose-starved Bacillus subtilis.Nature Communications 1, 137.

Bernhardt J, Funke S, Hecker M, Siebourg J (2009) in Sixth International Symposium on Voronoi Diagrams, pp 233-241.

Bionic Visualizations