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Dissecting mechanisms of hyperarousal in autism and related disorders using the Simons Sleep Project

Funded Work

Gravity Follows Newton’s and Einstein’s Rules, Even at Cosmic Scales

April 15, 2026

Scientists Capture Superconductivity’s ‘Dancing Pairs’ for First Time, Filling Gap in Decades-Old Theory

April 15, 2026

How SURFiN Fellowships Jump-Started These 3 Neuroscience Students’ STEM Careers

March 18, 2026

Results

  1. Control theory analysis of dynamic metabolic response elucidates mitochondrial-cytoplasmic coupling and nutrient partitioning

    Publication
    Cells adjust their internal circuits in response to changes in their environment. Hence, exposing cells to changing conditions provides a way to probe the intrinsic dynamics of cellular …
  2. A pico-calorimeter for cellular metabolism and antimicrobial susceptibility testing

    Publication
    While methods exist to indirectly quantify the metabolism of biological systems, directly measuring metabolic rates in living samples remains challenging. Here, we describe a calorimetric sensor with a …
  3. Geometric optics organizes organelle interactions and positioning

    Publication
    Microtubule asters are central to positioning organelles and organizing intracellular architectures. We show that the multi-stage choreography of microtubule asters which positions pronuclei during the first cell …
  4. Contributions of error correction and the spindle assembly checkpoint to mitotic timing and fidelity

    Publication
    Chromosome segregation is a tightly-regulated process that normally occurs with high fidelity. Errors in chromosome segregation are associated with aging, cancer, and infertility. Initially erroneously attached chromosomes …
  5. CryoJAX: a cryo-electron microscopy image-simulation library in JAX

    Publication
    While cryo-electron microscopy (cryo-EM) has come to prominence in the last decade due to its ability to resolve biomolecular complexes at atomic resolution, advancements in experimental …
  6. cryoJAX: A Cryo-electron Microscopy Image Simulation Library In JAX

    Publication
    While cryo-electron microscopy (cryo-EM) has come to prominence in the last decade due to its ability to resolve biomolecular complexes at atomic resolution, advancements in experimental …
  7. Human mitotic spindles as active liquid crystals: From collective behaviors to discrete filaments

    Publication
    The human mitotic spindle is an active self-organizing liquid crystal composed of microtubules and motor proteins. We construct a multi-scale biophysical theory bridging continuum active liquid …
  8. Clocks and Dominoes: Timing Mechanisms of Embryogenesis

    Publication
    How developmental timings are regulated is a fundamental open question. Two widely considered mechanisms are the clock, in which an internal timer determines when each stage occurs, and …
  9. Clocks and Dominoes: Timing Mechanisms of Embryogenesis

    Publication
    How developmental timings are regulated is a fundamental open question. Two widely considered mechanisms are the clock, in which an internal timer determines when each stage occurs, and …
  10. EmbryoProfiler: A Visual Clinical Decision Support System for IVF

    Publication
    In-vitro fertilization (IVF) has become standard practice to address infertility, which affects more than one in ten couples in the US. However, current protocols yield relatively low …
  11. cryoJAX: A Cryo-electron Microscopy Image Simulation Library In JAX

    Publication
    While cryo-electron microscopy (cryo-EM) has come to prominence in the last decade due to its ability to resolve biomolecular complexes at atomic resolution, advancements in experimental …
  12. Cell size reduction drives spindle scaling but not chromosome segregation in C. elegans

    Publication
    How embryos adapt their internal cellular machinery to reductions in cell size during development remains a fundamental question in cell biology1–11. Here, we use high-resolution lattice …
  13. Cell size reduction scales spindle elongation but not chromosome segregation in C. elegans

    Publication
    How embryos adapt their internal cellular machinery to reductions in cell size during development remains a fundamental question in cell biology1–11. Here, we use high-resolution lattice …
  14. Nuclear biophysics: Spatial coordination of transcriptional dynamics?

    Publication
    A great deal is known about biochemical aspects of transcription, but we still lack an understanding of how transcription is causally regulated in space and time. A major …
  15. Active Liquid Crystal Theory Explains the Collective Organization of Microtubules in Human Mitotic Spindles

    Publication
    How thousands of microtubules and molecular motors self-organize into spindles remains poorly understood. By combining static, nanometer-resolution, large-scale electron tomography reconstructions and dynamic, optical-resolution …
  16. Spatial-Temporal Pre-Training for Embryo Viability Prediction Using Time-Lapse Videos

    Publication
    Automating embryo viability prediction for in vitro fertilization (IVF) is important but challenging due to the limited availability of labeled pregnancy outcome data, as only a small fraction …
  17. Multimodal Learning for Embryo Viability Prediction in Clinical IVF

    Publication
    In clinical In-Vitro Fertilization (IVF), identifying the most viable embryo for transfer is important to increasing the likelihood of a successful pregnancy. Traditionally, this process involves embryologists …
  18. Long-range repulsion between chromosomes in mammalian oocyte spindles

    Publication
    During eukaryotic cell division, a microtubule-based structure called the spindle exerts forces on chromosomes. The best-studied spindle forces, including those responsible for the separation of sister …
  19. Mechanics of spindle orientation in human mitotic cells is determined by pulling forces on astral microtubules and clustering of cortical dynein

    Publication
    The forces that orient the spindle in human cells remain poorly understood due to a lack of direct mechanical measurements in mammalian systems. We use magnetic tweezers to …
  20. Consider the power of interdisciplinary collaborations to improve embryo selection

    Publication
  21. Measuring and modeling the dynamics of mitotic error correction

    Publication
    Error correction is central to many biological systems and is critical for protein function and cell health. During mitosis, error correction is required for the faithful inheritance of …
  22. Metabolic imaging of human cumulus cells reveals associations with pregnancy and live birth

    Publication
    Can fluorescence lifetime imaging microscopy (FLIM) detect associations between the metabolic state of cumulus cell (CC) samples and the clinical outcome of the corresponding embryos? FLIM can detect …
  23. BlastAssist: a deep learning pipeline to measure interpretable features of human embryos

    Publication
    Can the BlastAssist deep learning pipeline perform comparably to or outperform human experts and embryologists at measuring interpretable, clinically relevant features of human embryos in IVF?
  24. Laser ablation and fluid flows reveal the mechanism behind spindle and centrosome positioning

    Publication
    Few techniques are available for studying the nature of forces that drive subcellular dynamics. Here we develop two complementary ones. The first is femtosecond stereotactic laser ablation, which …
  25. Lack of chromokinesin Klp-19 creates a more rigid midzone and affects force transmission during anaphase in C. elegans

    Publication
    Recent studies have highlighted the significance of the spindle midzone – the region positioned between chromosomes – in ensuring proper chromosome segregation. By combining advanced 3D electron tomography and cutting …
  26. Clustering of cortical dynein regulates the mechanics of spindle orientation in human mitotic cells

    Publication
    The forces which orient the spindle in human cells remain poorly understood due to a lack of direct mechanical measurements in mammalian systems. We use magnetic tweezers to …
  27. Learning Vector Quantized Shape Code for Amodal Blastomere Instance Segmentation

    Publication
    Blastomere instance segmentation is important for analyzing embryos’ abnormality. To measure the accurate shapes and sizes of blastomeres, their amodal segmentation is necessary. Amodal instance segmentation aims to …
  28. Multi-Task Curriculum Learning for Partially Labeled Data

    Publication
    Incomplete labels are common in multi-task learning for biomedical applications due to several practical difficulties, e.g., expensive annotation efforts by experts, limit of data collection, different …
  29. P-175 Human cumulus cell telomere length and its association with assisted reproduction outcome

    Publication
    Study question: Is there any relationship between the relative telomere length (RTL) within cumulus cells (CCs) and the outcome of assisted reproductive treatment using the corresponding oocyte? Summary …
  30. Dual mechanism of kinetochore microtubule detachment

    Publication
    During eukaryotic cell division, microtubules connect to chromosomes by attaching to the kinetochore via the NDC80 complex (NDC80c). The regulation of kinetochore microtubule (KMT) detachment is crucial for …
  31. Dissecting Flux Balances to Measure Energetic Costs in Cell Biology: Techniques and Challenges

    Publication
    Life is a nonequilibrium phenomenon: Metabolism provides a continuous supply of energy that drives nearly all cellular processes. However, very little is known about how much energy different …
  32. Noninvasive metabolic profiling of cumulus cells, oocytes, and embryos via fluorescence lifetime imaging microscopy: a mini-review

    Publication
    A major challenge in ART is to select high-quality oocytes and embryos. The metabolism of oocytes and embryos has long been linked to their viability, suggesting the …
  33. Dissipation and energy propagation across scales in an active cytoskeletal material

    Publication
    Living systems are intrinsically nonequilibrium: They use metabolically derived chemical energy to power their emergent dynamics and self-organization. A crucial driver of these dynamics is the cellular …
  34. Spindle dynamics and orientation depends in forge generators configuration

    Publication
    During cell division, the mitotic spindle forms inside cells and segregates chromosomes. The spindle's position sets the division plane, which is essential for proper growth and development …
  35. The physical basis of self-organization of the mammalian oocyte spindle

    Publication
    To prepare gametes with the appropriate number of chromosomes, mammalian oocytes undergo two sequential cell divisions. During each division, a large, long-lived, microtubule-based organelle called the …
  36. Active Microphase Separation in Mixtures of Microtubules and Tip-Accumulating Molecular Motors

    Publication
    Mixtures of filaments and molecular motors form active materials with diverse dynamical behaviors that vary based on their constituents’ molecular properties. To develop a multiscale of these materials …
  37. Measuring errors over time: towards a quantitative theory of chromosome segregation error correction

    Publication
    The mammalian mitotic spindle segregates an equal number of chromosomes to daughter cells. Over the course of spindle assembly, many initially erroneous attachments between kinetochores and microtubules are …
  38. Fluorescence lifetime imaging microscopy (FLIM) detects differences in metabolic signatures between euploid and aneuploid human blastocysts

    Publication
    Can non-invasive imaging with fluorescence lifetime imaging microscopy (FLIM) detect metabolic differences in euploid versus aneuploid human blastocysts? FLIM has identified significant metabolic differences between euploid and …
  39. Engineering stability, longevity, and miscibility of microtubule-based active fluids

    Publication
    Microtubule-based active matter provides insight into the self-organization of motile interacting constituents. We describe several formulations of microtubule-based 3D active isotropic fluids. Dynamics of these …
  40. Extensive analysis of mitochondrial DNA quantity and sequence variation in human cumulus cells and assisted reproduction outcomes

    Publication
    Are relative mitochondrial DNA (mtDNA) content and mitochondrial genome (mtGenome) variants in human cumulus cells (CCs) associated with oocyte reproductive potential and assisted reproductive technology (ART) outcomes? Neither …
  41. Cell cycle regulation of ER membrane biogenesis protects against chromosome missegregation

    Publication
    Failure to reorganize the endoplasmic reticulum (ER) in mitosis results in chromosome missegregation. Here, we show that accurate chromosome segregation in human cells requires cell cycle-regulated ER …
  42. A coarse-grained NADH redox model enables inference of subcellular metabolic fluxes from fluorescence lifetime imaging

    Publication
    Mitochondrial metabolism is of central importance to diverse aspects of cell and developmental biology. Defects in mitochondria are associated with many diseases, including cancer, neuropathology, and infertility. Our …
  43. Active microphase separation in mixtures of microtubules and tip-accumulating molecular motors

    Publication
    Mixtures of microtubules and molecular motors form active materials with diverse dynamical behaviors that vary based on their constituents' molecular properties. We map the non-equilibrium phase diagram …
  44. Mechanical Mechanisms of Chromosome Segregation

    Publication
    Chromosome segregation—the partitioning of genetic material into two daughter cells—is one of the most crucial processes in cell division. In all Eukaryotes, chromosome segregation is driven …
  45. Mechanical Mechanisms of Chromosome Segregation

    Publication
    Chromosome segregation—the partitioning of genetic material into two daughter cells—is one of the most crucial processes in cell division. In all Eukaryotes, chromosome segregation is driven …
  46. A Micromachined Picocalorimeter Sensor for Liquid Samples with Application to Chemical Reactions and Biochemistry

    Publication
    Calorimetry has long been used to probe the physical state of a system by measuring the heat exchanged with the environment as a result of chemical reactions or …
  47. A design framework for actively crosslinked filament networks

    Publication
    Living matter moves, deforms, and organizes itself. In cells this is made possible by networks of polymer filaments and crosslinking molecules that connect filaments to each other and …
  48. A mechanical model of blastocyst hatching

    Publication
    We develop a continuum mechanics model of blastocyst hatching. The blastocyst and the zona pellucida are modeled as concentric thick-walled initially spherical shells embedded in a viscous …
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