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I am a Research Scientist at CSAIL. My interests broadly lie in the area of computational biology. I am especially excited about leveraging machine learning to develop precision diagnostics and therapeutics. Towards this, I'm working to develop methods for diagnosing disease mechanisms, identifying potential drug targets, and designing therapeutic interventions. Among the projects I am currently working on are algorithms for analyzing multimodal single-cell data and inferring regulatory mechanisms. I have also been enamored with the power of protein language models and am using them for predicting protein interactions, drug interactions and designing antibodies. I served on the program committee for RECOMB 2023 and am serving on the proceedings committee for ISMB/ECCB 2023.

My PhD research was on algorithms for analyzing protein interaction networks, and my dissertation is available here. One of the key problems addressed there was the global alignment of protein interaction networks-- this allows us to combine PPI information across species and establish functional orthology relationships. My collaborators and I were honored to receive the Test of Time Award at RECOMB 2019 for the IsoRank algorithm for global network alignment.

If you are an MIT undergraduate or graduate student and interested in problems that relate to the topics above, please reach out! I would love to discuss research ideas and explore if there is something we can collaborate on.

Between my two stints at MIT, first as a PhD candidate and now as a Research Scientist, I've spent about a decade working in quantitative trading (LinkedIn profile). Most recently, I was the CEO of Tech Square Trading, a Boston-based quantitative hedge fund that I co-founded. Before that, I worked at Merrill Lynch and Cubist Systematic. The fields of quant investing and computational biology turn out to require surprisingly similar skills: an expertise in working with large amounts of very messy data and an ability to design robust models that can integrate the data into a coherent picture.

I received my PhD at MIT under the guidance of Prof. Bonnie Berger. Between my Masters and my PhD, I worked for a year at Accelrys, a bioinformatics & cheminformatics company. They are now part of Dassault Systemes. I received a Masters degree from Stanford University, where I was part of Prof. Jean-Claude Latombe's group. I received my undergraduate degree from Indian Institute of Technology, Kanpur and went to high school in Bhilai, a smallish town in central India. In a previous life, I used to blog fairly actively, though I haven't gotten back to it in a long while.

Rohit Singh