:: DESCRIPTION
CytoTRACE is a computational method to predict the differentiation states of cells from single-cell RNA-sequencing data, without prior knowledge of developmental orderings
::DEVELOPER
:: SCREENSHOTS
N/A
:: REQUIREMENTS
:: DOWNLOAD
:: MORE INFORMATION
Citation
Science, 367 (6476), 405-411 2020 Jan 24
Single-cell Transcriptional Diversity Is a Hallmark of Developmental Potential
Gunsagar S Gulati et al.
:: DESCRIPTION
MS2distance is an algorithms to compute the shortest MS2 folding trajectory between any two given RNA secondary structures.
::DEVELOPER
:: SCREENSHOTS
N/A
:: REQUIREMENTS
:: DOWNLOAD
:: MORE INFORMATION
:: DESCRIPTION
FretTrace is the implementation of a maximum likelihood based theory. Single molecule Fluorescence Resonance Energy Transfer (FRET) experiments are a powerful and versatile tool for studying conformational motions of single biomolecules at a millisecond time scale. Typically, the small number of recorded photons limits the achieved time resolution.
::DEVELOPER
Gunnar Schröder and Helmut Grubmüller
:: SCREENSHOTS
N/A
:: REQUIREMENTS
:: DOWNLOAD
:: MORE INFORMATION
Citation
G. F. Schroder and H. Grubmuller,
Maximum likelihood trajectories from single molecule fluorescence resonance energy transfer experiments
J. Chem. Phys. 119: 9920-9924 (2003)
:: DESCRIPTION
The Kinwalker algorithm performs cotranscriptional folding of RNAs, starting at a user a specified structure (default: open chain) and ending at the minimum free energy structure. Folding events are performed between transcription of additional bases and are regulated by barrier heights between the source and target structure.
::DEVELOPER
:: SCREENSHOTS
N/A
:: REQUIREMENTS
:: DOWNLOAD
:: MORE INFORMATION
Citation
J Mol Biol. 2008 May 23;379(1):160-73. Epub 2008 Mar 6.
Folding kinetics of large RNAs.
Geis M, Flamm C, Wolfinger MT, Tanzer A, Hofacker IL, Middendorf M, Mandl C, Stadler PF, Thurner C.
