The Center for Computational Biology develops new and innovative methods of examining data in the biological sciences whose scale and complexity have historically resisted analysis.
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Center for Computational Biology
The Fruit Fly Photographer
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Developmental biologist Jasmin Imran Alsous knows that it takes a village to raise an egg cell. At the Flatiron Institute, she and her collaborators are working together to uncover the mysteries of how gametes move and develop.
CCB’s mission is to develop modeling tools and theory for understanding biological processes and to create computational frameworks that will enable the analysis of the large, complex data sets being generated by new experimental technologies.
Groups
Collaborative Work
Structural and Molecular Biophysics Collaboration
Underlying all biological processes are molecules and their interactions with each other. However, our ability to understand how these molecules function over biologically relevant scales remains very limited.
- CCB
- CCM
Upcoming Events
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10 Mon -
Meeting 10:00 - 11:00 a.m.
Developmental Dynamics Group Meeting
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Meeting 10:00 - 11:00 a.m.
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11 Tue -
Meeting 10:00 a.m. - 12:00 p.m.
Biophysical Modeling Group Meeting
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Meeting 10:00 a.m. - 12:00 p.m.
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12 Wed -
Meeting 4:00 - 5:00 p.m.
Systems Biology Group Meeting
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Meeting 4:00 - 5:00 p.m.
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13 Thu
Publication Highlights
Quantitative models for building and growing fated small cell networks
Small cell clusters exhibit numerous phenomena typically associated with complex systems, such as division of labour and programmed cell death.…
Interface FocusCanary in the cardiac-valve coal mine: Flow velocity and inferred shear during prosthetic valve closure –predictors of blood damage and clotting
Lawrence N. Scotten, E. Kolahdouz
To demonstrate a clear link between predicted blood shear forces during valve closure and thrombogenicity that explains the thrombogenic difference…
bioRxiv:2022.06.23.497372Independently paced Ca2+ oscillations in progenitor and differentiated cells in an ex vivo epithelial organ
Ann A. Kim, Amanda Nguyen, X. Du, et al.
Cytosolic Ca2+ is a highly dynamic, tightly regulated and broadly conserved cellular signal. Ca2+ dynamics have been studied widely in…
Journal of Cell ScienceDirector
Software
aLENS
This is the simulation tool for tracking assemblies of microtubules driven by motor proteins.
STKFMM
This is a numerical computation package for various single- and double-layer kernels for Laplace and Stokes operators in boundary integral methods, implemented on top of the highly-optimized kernel independent fast-multipole method package PVFMM.
humanbase
Data-driven predictions of gene expression, function, regulation, and interactions in human.
DeepSEA
Deep learning-based algorithmic framework for predicting chromatin effects
FNTM
Functional Networks of Tissues in Mouse
GIANT
Genome-wide Scale functional interaction networks for 144 human tissues and cell types
IMP 2.0
Integrative Multi-species Prediction
KNNimpute
K-Nearest Neighbors Imputation
Nano-Dissection
This server performs in silico nano-dissection, an approach we developed to identify genes with novel cell-lineage specific expression.
SEEK
Search-Based Exploration of Expression Compendium [Human]
SkellySim
SkellySim is a simulation package for simulating cellular components such as flexible filaments, motor proteins, and arbitrary rigid bodies.
Sleipnir
Sleipnir Library for Computational Functional Genomics
URSA(HD)
A data-driven perspective to your gene expression profile for human tissues and diseases.