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
Center for Computational Biology
New Model Predicts How Bacteria Navigate Obstacles to Spread
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A Flatiron Institute scientist has developed the first analytical model for predicting how bacteria spread in environments filled with obstacles. This model will help inform strategies for curbing bacterial infections or for designing better drug delivery devices.
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
Structural and Molecular Biophysics
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
CCBx
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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10 Tue -
Meeting 10:00 - 11:00 a.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 - 11:00 a.m.
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11 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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12 Thu -
Seminar 2:00 - 3:00 p.m.
CCB Seminar: István Kovács, Ph.D.
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Seminar 2:00 - 3:00 p.m.
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16 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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17 Tue -
Meeting 10:00 - 11:00 a.m.
Biophysical Modeling Group Meeting
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Meeting 12:00 - 2:00 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 - 11:00 a.m.
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18 Wed -
Meeting 12:00 - 1:00 p.m.
Biomolecular Design Group Meeting
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Meeting 12:00 - 1:00 p.m.
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23 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.
Publication Highlights
Formation of Drosophila germ cells requires spatial patterning of phospholipids
Marcus Kilwein, P. Miller, S. Shvartsman, et al.
Germline-soma segregation is crucial for fertility. Primordial germ cells (PGCs) arise early in development and are the very first cells…
Cell BiologyInstaMap: instant-NGP for cryo-EM density maps
Despite the parallels between problems in computer vision and cryo-electron microscopy (cryo-EM), many state-of-the-art approaches from computer vision have yet…
Acta Crystallographica DActive Hydrodynamic Theory of Euchromatin and Heterochromatin
Alex Rautu, Alexandra Zidovska, David Saintillan, M. Shelley
The genome contains genetic information essential for cell’s life. The genome’s spatial organization inside the cell nucleus is critical for…
arXivDirector
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.