Stanford University
Showing 1-10 of 30 Results
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Pujuan Deng
Postdoctoral Scholar, Biochemistry
Current Research and Scholarly InterestsMy research aims to explore the vast genetic diversity of the microbiome, seeking to uncover novel biological mechanisms—like the different ways hosts defend against viral infections.
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Sebastian Duno-Miranda
Postdoctoral Scholar, Biochemistry
BioI started my training as a biologist at the Universidad Central de Venezuela (UCV) and the Instituto Venezolano de Investigaciones Cientificas (IVIC). My Licentiate thesis degree advisor was Dr. Raúl Padrón, whom with I studied the structure and function of tarantula muscle, a key non-conventional animal model to understand muscle function in humans. Next, I would move to pursue doctoral studies at the University of Vermont, under Dr. David M. Warshaw supervision, studying the molecular mechanics of human cardiac myosin, the motor responsible for powering up the contractions of the human heart, the effect of multiple cardiomyopathy mutations, and the application of machine learning to enhance myosin single-molecule data analysis. Now, I've joined the lab of Dr. James Spudich at Stanford University, to continue pushing the frontiers of knowledge regarding the molecular physiology of human myosins in the context of heart disease. For more details please see https://duno-miranda.org
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Chaitanya K. Joshi
Postdoctoral Scholar, Biochemistry
BioI'm a Stanford Data Science Fellow and postdoc with Rhiju Das at the Department of Biochemistry. I build lab-in-the-loop AI for RNA biology, pairing deep learning with wet-lab experiments at scale.
I did my PhD in Computer Science at the University of Cambridge with Pietro Liò, on geometric deep learning for molecular design. I built gRNAde, the first 3D generative model for RNA, and validated it in the wet lab as a visiting researcher in Phil Holliger's group at the MRC LMB. I've also interned at Prescient Design (Genentech) and FAIR Chemistry (Meta AI), and my work has been recognized by the Qualcomm Innovation Fellowship and the A*STAR National Science Scholarship. -
Israel Juarez Contreras
Postdoctoral Scholar, Biochemistry
Current Research and Scholarly InterestsSterols are the most abundant lipid in the plasma membrane. Their structure is deeply conserved, built though a long iterative evolutionary process whose end products are the topology of the fused steroid ring system and the structure of the aliphatic tail extending from it. Together these let the molecule pack tightly against the acyl chains of neighboring lipids, which is how sterols reinforce the membrane and set its fluidity. This same interaction produces a second effect. Sterols associate preferentially with saturated lipids, particularly sphingolipids, and that preference sorts the bilayer into ordered domains, often called lipid rafts, which concentrate certain proteins and exclude others.
The Bloch hypothesis holds that the sterol biosynthetic pathway was progressively selected for membrane function, with each step yielding a molecule better suited to the bilayer than the one before it. Fluidity has historically been taken as the property under selection, but it is not the only one. Rebuilding ergosterol biosynthesis stepwise in living yeast showed that domain formation imposes its own demands, and that the two properties are not optimized by the same modifications. The pathway alternates between them, arriving at structures that regulate fluidity and organization together rather than either alone. A further design principle follows from this. The pairing between a sterol and the acyl chain length of its partner sphingolipid is highly specific. Replacing the native pathway in yeast with cholesterol biosynthesis abolished the domains ergosterol supports, since ergosterol pairs with the very long acyl chains of fungal sphingolipids while cholesterol pairs with the shorter chains of mammalian membranes.
These principles, observed in fungi, carry direct consequences for mammals, where cholesterol occupies two distinct pools. One is structural, held in complex with sphingolipids and other lipids. The other is a residual fraction, free or accessible that carries out essential roles in signaling and homeostasis. Accessible cholesterol is defined operationally, by what a probe can bind, but what it corresponds to physiochemically remains open. My central goal is to define accessible cholesterol through a more rigorous biophysical lens and connect that definition to the machinery in cells.
