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.
Featured News
New research led by Flatiron Institute researchers reveals the source of the mysterious swirling flows in some of nature’s largest cells.
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.
Research Areas
Collaborative Work
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
The Center for Computational Biologyx (CCBx) is an effort by the Center for Computational Biology (CCB) to (a) create and validate quantitative techniques and (b) develop and test theories of biological systems that are predictive of these systems’ behaviors and responses to genetic, chemical and physical perturbations.
- CCB
Upcoming Events
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16 Thu -
Seminar 1:30 - 3:00 p.m.
CCB Brown Bag Seminar
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Seminar 1:30 - 3:00 p.m.
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21 Tue -
Meeting 2:00 - 3:00 p.m.
Structural and Molecular Biophysics Group Meeting
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Meeting 2:00 - 3:00 p.m.
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22 Wed -
Meeting 1:30 - 3:30 p.m.
Genomics Group Meeting
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Seminar 2:00 - 3:00 p.m.
CCB Seminar: Vitor Leite, Ph.D.
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Meeting 1:30 - 3:30 p.m.
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23 Thu -
Colloquium 11:00 a.m. - 12:00 p.m.
CCB Colloquium: Martin H. Wühr, Ph.D.
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Colloquium 11:00 a.m. - 12:00 p.m.
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27 Mon -
Meeting 10:30 a.m. - 12:00 p.m.
Developmental Dynamics Group Meeting
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Meeting 10:30 a.m. - 12:00 p.m.
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28 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.
Biophysical Modeling Group Meeting
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Meeting 11:30 a.m. - 1:30 p.m.
Genomics Group Meeting
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Meeting 2:00 - 3:00 p.m.
Structural and Molecular Biophysics Group Meeting
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Meeting 10:00 a.m. - 12:00 p.m.
Publication Highlights
Learning locally dominant force balances in active particle systems
We use a combination of unsupervised clustering and sparsity-promoting inference algorithms to learn locally dominant force balances that explain macroscopic…
Proceedings of the Royal Society AMechanics and morphology of proliferating cell collectives with self-inhibiting growth
We study the dynamics of proliferating cell collectives whose microscopic constituents’ growth is inhibited by macroscopic growth-induced stress. Discrete particle…
Physical Review LettersSpatiotemporal dynamics of nucleocytoplasmic transport
Nucleocytoplasmic transport is essential for cellular function, presenting a canonical example of rapid molecular sorting inside cells. It consists of…
Physical Review ResearchDirector
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.