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The Smith Lab | Computational Genomics Research

Andrew D Smith, Principal Investigator. We are a research group in the Molecular and Computational Biology section, Division of Biological Sciences at University of Southern California. We’ve brought hundreds of methylomes from different cell types and species together into MethBase. The first comprehensive, curated database for visualization and analysis of DNA methylation data and features. Get started now! RNA-binding proteins function to regulate all aspects of RNA processing, from splicing and trans...

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The Smith Lab | Computational Genomics Research | smithlabresearch.org Reviews

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Andrew D Smith, Principal Investigator. We are a research group in the Molecular and Computational Biology section, Division of Biological Sciences at University of Southern California. We’ve brought hundreds of methylomes from different cell types and species together into MethBase. The first comprehensive, curated database for visualization and analysis of DNA methylation data and features. Get started now! RNA-binding proteins function to regulate all aspects of RNA processing, from splicing and trans...

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The Smith Lab | Computational Genomics Research | smithlabresearch.org Reviews

https://smithlabresearch.org

Andrew D Smith, Principal Investigator. We are a research group in the Molecular and Computational Biology section, Division of Biological Sciences at University of Southern California. We’ve brought hundreds of methylomes from different cell types and species together into MethBase. The first comprehensive, curated database for visualization and analysis of DNA methylation data and features. Get started now! RNA-binding proteins function to regulate all aspects of RNA processing, from splicing and trans...

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smithlabresearch.org

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MethBase | The Smith Lab

http://smithlabresearch.org/software/methbase

MethBase: a reference methylome database. MethBase is a central reference methylome database created from public BS-seq datasets. It contains hundreds of methylomes from well studied organisms. For each methylome, Methbase provides methylation level at individual sites, regions of allele specific methylation, hypo- or hyper-methylated regions, partially methylated regions, and detailed meta data and summary statistics. These results are generated with the MethPipe. MethBase is publicly available to the s...

2

Preseq | The Smith Lab

http://smithlabresearch.org/software/preseq

The preseq package is aimed at predicting and estimating the complexity of a genomic sequencing library, equivalent to predicting and estimating the number of redundant reads from a given sequencing depth and how many will be expected from additional sequencing using an initial sequencing experiment. The estimates can then be used to examine the utility of further sequencing, optimize the sequencing depth, or to screen multiple libraries to avoid low complexity samples. The paper can be found here. Cd pr...

3

Software | The Smith Lab

http://smithlabresearch.org/software

Zagros is a motif discovery software for CLIP-Seq high-throughput protein-RNA interaction data. Given the regions of significant enrichment for reads Zagros can characterize the binding site for the given RBP. Zagros contains two additional programs to calculate the base pairing probabilities of the input sequences and extracting experiment specific events to incorporate such information for an extremely accurate motif discovery. Go to the Zagros Homepage. The MethPipe software package is a computational...

4

Join our research group | The Smith Lab

http://smithlabresearch.org/join

Join our research group. Students not already enrolled at USC may join through our Ph.D. program in Computational Biology and Bioinformatics. Details can be found in the website. Of the Molecular and Computational Biology Section. Interested graduate students already enrolled at USC in a different department or school may join us for specific research projects and co-advising may also be possible. Strong programming skills in both compiled and scripting languages. Proudly powered by WordPress.

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Who we are | The Smith Lab

http://smithlabresearch.org/people

Andrew D Smith, Ph.D. Associate Professor of Biological Sciences. PhD Student: Computational Biology and Bioinformatics. PhD Student: Computational Biology and Bioinformatics. Office : RRI 408D. PhD Student: Computational Biology and Bioinformatics. BS: Computer Science (Bioinformatics). Office : RRI 408A. PhD Student: Computational Biology and Bioinformatics. Office : RRI 408A. PhD Student: Computational Biology and Bioinformatics. PhD Student: Computational Biology and Bioinformatics. Office : RRI 408D.

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The Smith Lab | Computational Genomics Research

Andrew D Smith, Principal Investigator. We are a research group in the Molecular and Computational Biology section, Division of Biological Sciences at University of Southern California. We’ve brought hundreds of methylomes from different cell types and species together into MethBase. The first comprehensive, curated database for visualization and analysis of DNA methylation data and features. Get started now! RNA-binding proteins function to regulate all aspects of RNA processing, from splicing and trans...

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