º£½ÇÉçÇø

The following data software and data collections are primarily produced and distributed by CIBR Center faculty members. The sites and site content are continuously being updated and all questions related to the software and data collections should be directed to the listed faculty member.

• Evolutionary Trace Server - Ranks amino acid residues in a protein sequence by their relative evolutionary importance. Pre-computed ET analyses for select PDB IDs.
• Universal Evolutionary Trace Server - Alternate option to original Evolutionary Trace Server.
• Evolutionary Trace Code - Ranks amino acid residues in a protein sequence by their relative evolutionary importance.
• Universal Evolutionary Action Server- Predicts the severity of the impact of amino acid change will have on a protein's function, given a UniProt ID or fasta sequence.
• Evolutionary Trace Annotation - The server suggests molecular functions for protein structures based on local structural similarities to proteins of known function identified using 3D templates.
• Evolutionary Trace Viewer - Performs ET analyses starting from PDB file names or PDB formatted files.
• PyETV - An application for mapping evolutionary traces onto protein structures in PyMOL.
• Report Maker - Ranks amino acid residues in a protein sequence with a UniProt accession number.
• Contact Metric Server - Detection of similarity in protein structure and function through contact metric distances.
• Class A GPCRS - Difference Evolutionary Trace Server for G Protein-Coupled Class A Receptors.

• EMAN2 - Scientific image processing suite, aimed at improving the resolution and quality of single particle reconstructions.
• EMEN2 - An extensible, object-oriented electronic lab notebook.

Epigenomics

• BSMAP/RRBSMAP - Whole genome (RRBS) Bisulfite Sequence MAPping program (BMC Bioinformatics 2009; Bioinformatics 2012)

Transcriptomics

• RSeQC - Quality Control of RNA-seq experiments (Bioinformatics 2012)