Search your yeast number

Find quantitative, annotated data for mathematical modelling




Curated yeast data for mathematical modeling

YCMDB collects, annotates and categorizes published data on yeast physiology along with its experimental context to provide a quantitative resource for cellular modelling.













General information on yeast cell pysiology such as cell sizes, densities, composition, cell cycle phases >> Biophysical data

Information on the processes of translation and transcription such as mRNA and protein abundances, synthesis rates, translation initiation probabilities >> Genomic data

Information on metabolites such as concentrations, uptake and secretion rates >> Metabolic data









Publication
Lookup where the data was published and which other data and information are available from the study.

Strain
Find information on the used strain, its genotype and ancestry. Explore which other numbers are available from this strain.

Medium
Analyze all compounds of the used medium and find studies that used a similar recipe.




Each data point is annotated with relevant experimental conditions.

(as far as available)

Static Indexing

allows reprodicible documentation of you data sources. Each data point has a unique YCMDB-ID that can be used to reference calibration data unambiguously




Metabolic data




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Genomic data



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Biophysical data




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Medium information


Information displayed for medium:


YCMDB contains the following data points from this medium


Medium pH:


Composition of the medium:

Similarity to other media in YCMDB:

Dots represent individual media, select a closeby dot to see similar medium to the currently selected. Coloring is according to the concentration of a selected compound and can be changed on the right.


Strain information



Information displayed for strain:



Ploidity


Mating Type


Mutations


Link


YCMDB contains the following data points from this strain


Ancestry

The closest ancestor of the currently selected strain is highlighted in red in the ancestry tree below.



Publication information


Information displayed for publication:


Publication information






YCMDB contains the following data points from this publication:

Publication data overview

Search for publications that have data of the type you are looking for. Other available data points from the same publication will be displayed. they migth also be usefull for unit conversions.

About YCMDB


Contact:

YCMDB is hosted by the group of Theoretical biophysics at Humboldt-Universität zu Berlin. For questions, suggestions, criticism and praise please contact us at our gitlab repository All data contained in YCMDB can be downloaded here
YCMDB references content from the following databases:
Saccharomyces Genome Database | SGD Chemical Entities of Biological Interest (ChEBI) - EMBL-EBI PubChem PubMed




YCMDB @ tbp-hu


Humboldt-Universität zu Berlin
Institute of Biology
Theoretical Biophysics
10099 Berlin
Germany







YCMDB @ gitlab
Theoretical Biophysics
Humboldt-Universität zu Berlin