“Roham and his team bring formidable energy, expertise and execution to their projects. It's a pleasure working with Roham as he builds a substantial enterprise and helps other businesses grow.”
Vancouver, British Columbia, Canada
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See you there! NFT Paris Dapper Labs Flow Blockchain
See you there! NFT Paris Dapper Labs Flow Blockchain
Shared by Roham Gharegozlou
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👾🌊 Dapper Labs and Flow Blockchain are on the lookout for top talent to fill key Product Design and Growth roles! Please help us spread the word by…
👾🌊 Dapper Labs and Flow Blockchain are on the lookout for top talent to fill key Product Design and Growth roles! Please help us spread the word by…
Shared by Roham Gharegozlou
Experience & Education
Volunteer Experience
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Program Director
TechWadi.org
- 3 years 1 month
Science and Technology
TechWadi is the leading non-profit organization building bridges between Silicon Valley and the Arab world. From its beginnings as the community of top Arab American technology professionals in Silicon Valley, TechWadi has evolved into a powerful platform for collaboration – with members and events spanning across the world. See http://www.techwadi.org
Publications
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Protein Multiple Sequence Alignment: Benchmarks and Comparison
Stanford University
The aim of protein multiple sequence alignment (MSA) is to assemble amino acid sequences in alignments that reflect their biological relationship, whether evolutionary, structural, functional, or a combination of the three. MSA is utilized in the analysis of functionally similar proteins to identify regions of homology or common motifs, or to identify putative motifs in newly characterized sequences, providing a hint towards biological function.
Pairwise alignments – alignments of two amino…The aim of protein multiple sequence alignment (MSA) is to assemble amino acid sequences in alignments that reflect their biological relationship, whether evolutionary, structural, functional, or a combination of the three. MSA is utilized in the analysis of functionally similar proteins to identify regions of homology or common motifs, or to identify putative motifs in newly characterized sequences, providing a hint towards biological function.
Pairwise alignments – alignments of two amino acid sequences – usually use dynamic programming to arrive at a mathematically optimal alignment based on estimates of evolutionary rates of mutation and conservation given in the PAM and BLOSUM matrices, including penalties for insertions and deletions of amino acid residues that cause divergence between the sequences. Extrapolating these methods of dynamic programming to more than a few sequences at a time is computationally expensive and infeasible (Wang and Jiang 1994, Elias 2006, Pei 2008). Given the immense computational demands, a series of Multiple Sequence Alignment (MSA) programs have been created to speed the process as well as derive more accurate estimates employing various techniques of heuristics; programmed algorithms designed to arrive at reasonable but inexact estimates of homology and alignment between sets of sequences. This report aims to give an overview of the important considerations when choosing a program for MSA in order to help the biologist navigate the broad differences between algorithms.
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French
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Persian
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English
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Spanish
Elementary proficiency
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Italian
Elementary proficiency
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