Columbia University in the City of New York

Tavazoie Lab

Tools

Published Computational tools

Tavazoie Lab has produced a series of computational tools. Please feel free to offer feedback, report bugs, and request features by contacting us at support@tavazoielab.org.

TEISER
a de-novo motif discovery tool for finding informative structural elements in RNA.
Nature (2012) 485, 264-268
FIRE
a motif discovery and characterization program based on mutual information
Molecular Cell (2007) 28(2):337-50
EVE
a simulation framework for microbial populations in complex dynamic environments
Science (2008) 320 (5881):1313-1317
iPAGE
a functional and categorical enrichment program based on mutual information
Molecular Cell (2009) 36(5):900-911
FIRE-pro
a motif discovery and characterization program for proteins based on mutual information
PLoS One. 2010 December 29;5(12):e14444

Other tools

Integrated Genomics Exploration Tools (IGET)
online access to a suite of tools for exploring biological pathways and DNA/RNA/protein regulatory elements associated with large-scale gene expression and protein behavior dynamics

Published Experimental tools

CALM
A method for comprehensive genome-wide perturbations via CRISPR adaptation.
Cell 180(5):1002 2020
PETRI-seq
A Method for Bacterial Single-Cell RNA Sequencing.
Nature Microbiology, 2020 May 25th
in vivo mRNA Display
A method for large-scale proteomics by next generation sequencing.
PNAS 117(43):26710 2020
CRISPRi library for S cerevisiae
An inducible CRISPR interference library for genetic interrogation of Sacharomyces cerevisiae biology.
Communications Biology 3(1):723 2020

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