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
By studying the changing geometry of cell nuclei in fruit flies, scientists have gained a better understanding of the dynamics that shape the part of our cells that carries our DNA.
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
News & Announcements
June 21, 2023
Upcoming Events
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18 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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19 Tue -
Meeting 10:00 a.m. - 12:00 p.m.
Biophysical Modeling Group Meeting
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Meeting 2:00 - 3:00 p.m.
Structural & Molecular Biophysics Group Meeting
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Meeting 10:00 a.m. - 12:00 p.m.
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20 Wed -
Meeting 1:30 - 3:30 p.m.
Genomics Group Meeting
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Meeting 1:30 - 3:30 p.m.
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25 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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26 Tue -
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 & Molecular Biophysics Group Meeting
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Meeting 10:00 a.m. - 12:00 p.m.
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01 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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02 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.
Publication Highlights
Nuclear instance segmentation and tracking for preimplantation mouse embryos
For investigations into fate specification and cell rearrangements in live images of preimplantation embryos, automated and accurate 3D instance segmentation…
bioRxivInterpretable neural architecture search and transfer learning for understanding CRISPR–Cas9 off-target enzymatic reactions
Finely-tuned enzymatic pathways control cellular processes, and their dysregulation can lead to disease. Creating predictive and interpretable models for these…
Nature Computational ScienceConfirmations, correlatons and instabilities of a flexible fiber in an active fluid
Fluid-structure interactions between active and passive components are important for many biological systems to function. A particular example is chromatin…
Physical Review FluidsDirector
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.