Bionic Visualizations

Proteomaps
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
organism?
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tsv file?
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or data?
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Please consider!
cushioning?
z
Homo sapiens (Human)
z
17579459255109
1
Homo sapiens (Human)
1
17579455174177
no comment
Homo sapiens (Human)
no comment
17562190519841
no comment
Homo sapiens (Human)
no comment
17535138810880
no comment
Homo sapiens (Human)
no comment
17527504296730
no comment
Homo sapiens (Human)
no comment
17527504162568
no comment
Escherichia coli
no comment
17519541246728
no comment
Escherichia coli
no comment
17519537767989
no comment
Escherichia coli
no comment
17519523281187
no comment
Escherichia coli
no comment
17519518081573
organism?
comment?
tsv file?
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cushioning?
https://pax-db.org/downloads/5.0/datasets/208964/208964-WHOLE_ORGANISM-integrated.txt adjusted by total mass (Da)
Pseudomonas aeruginosa PAO1
https://pax-db.org/downloads/5.0/datasets/208964/208964-WHOLE_ORGANISM-integrated.txt adjusted by total mass (Da)
17581368141991
dataset https://pax-db.org/downloads/5.0/datasets/208964/208964-Pseudomonas-aeruginosa_PA_2021-1.txt in terms of total mass (Da)
Pseudomonas aeruginosa PAO1
dataset https://pax-db.org/downloads/5.0/datasets/208964/208964-Pseudomonas-aeruginosa_PA_2021-1.txt in terms of total mass (Da)
17581366373281
https://pax-db.org/downloads/5.0/datasets/208964/208964-WHOLE_ORGANISM-integrated.txt
Pseudomonas aeruginosa PAO1
https://pax-db.org/downloads/5.0/datasets/208964/208964-WHOLE_ORGANISM-integrated.txt
17581327731571
no comment
Pseudomonas aeruginosa PAO1
no comment
17581321731974
no comment
Homo sapiens (Human)
no comment
17581115528734
100_2
Homo sapiens (Human)
100_2
17580914463725
100_1
Homo sapiens (Human)
100_1
17580912413807
no comment
Homo sapiens (Human)
no comment
17580743126783
no comment
Homo sapiens (Human)
no comment
17580740917686
no comment
Homo sapiens (Human)
no comment
17580719805872
Before setting up an individual treemap template these issues need to be considered.
treemap name?
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user name?
user template previews
no comment
KEGG-9-2025 (adapted by M 16092025)
no comment
17580327196944
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17578001009133
sym
PBU_08072025_template_v3
sym
17545973436291
sym
PBU_08072025_template_v3
sym
17545973436290
host
PBU_08072025_template_v1
host
17545930718157
no comment
Meso_A6S_UP_RED_TPM_V5
no comment
17543304861047
no comment
Meso_C6S_UP_RED_TPM_V5
no comment
17543304066599
no comment
1
no comment
17540762210712
UOH template
faecalis_KO
UOH template
17540346712779
no comment
LupinusAlbusMito7
no comment
17535462974400
organism?
comment?
tsv file?
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or data?
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Please consider!
cushioning?
no comment
KEGG-9-2025 (adapted by M 16092025)
no comment
17580339931188
no comment
faecalis_KO
no comment
17563162072513
target van
faecalis_KO
target van
17563161641031
no comment
L.A_BH9 (new colors1)
no comment
17558567767589
no comment
L.A_BH9 (new colors1)
no comment
17558546891217
no comment
Caulobacter crescentus NA1000 (V5 file KEGG and non-KEGG (Not Mapped)) (adapted by J 09112018) (adapted by J 13112018) (adapted by J 14112018) (adapted by J 19112018)
no comment
17557134594034
no comment
Caulobacter crescentus NA1000 (V5 file KEGG and non-KEGG (Not Mapped)) (adapted by J 09112018) (adapted by J 13112018) (adapted by J 14112018) (adapted by J 19112018)
no comment
17557103117831
no comment
Escherichia coli MG1655
no comment
17556590032339
no comment
Ecoli_MG1655_KEGG_complete_color
no comment
17556581138248
C6S up SF
Meso_C6S_UP_RED_TPM_V5
C6S up SF
17556282284150
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.
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.
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