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07/2025
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Hongjia presented her correlated light and electron microscopy (CLEM) work in two conferences: 10th Annual Hitchhiker's Guide to the Biomolecular Galaxy and Microscopy & Microanalysis, 2025
Hao-Cheng Gao successfully defended his thesis! Congratulations Dr. Gao! He is starting his new position at MBF Bioscience as a light sheet specialist! The NanoRes team won NSF-SBIR Phase I award! Congratulations Yilun and his team! Congratulations Hao-Cheng for getting: Student Research Achievement Award from Biophysical Society Hao-Cheng, Cheng, and Yue presented their works in Biophysical Society meeting in LA! Cheng Bi successfully defended his thesis! Congratulations Dr. Bi! He will be starting his postdoc position in Huang and Chubykin labs shortly! Cheng presented his end-to-end single particle tracking work in Cold Spring Harbor Single Molecules Conference! Welcome to our new Ph.D. students: Moye, Siyu, Mingdong and Yuxuan! Welcome to Indiana! Welcome to our summer visiting students: Mingjia Yang from Nanyang Technological University and Shengzhi Wu from National University of Singapore! Hao-Cheng's 4PiSMLM reconstruction of the dendrites and spines has won First Place at BRAIN Initiative image/video contest hosted by NIH: "These finalists, along with this year's winners, represent the progress in brain and neuroscience research since the BRAIN Initiative issued its first awards in 2014". Congratulations Hao-Cheng! NIH News. Purdue News. Fang together the team (Profs. Chubykin, Rochet, Gardner and Subramania) has won SPARK award from EVPRP! Li Fang successfully defended her thesis! Congratulations Dr. Fang! Congratulations on your new position at Apple Inc. Hao-Cheng's recent dataset/video on brain ultrastructure from 4PiSMLM is now selected as the finalist at BRAIN initiative image/video contest hosted by NIH. Among other impressive entries, ours is the only one providing molecular specific nanoscale ultrastructure of the spines and dendrites, the defining feature of neural connection and its function at 15 nm resolution! Click on the link to vote for Hao-Cheng! Yilun successfully defended his thesis! What a remarkable journey! Congratulations Dr. Li! Yilun's paper on theoretical resolution limit with finite photons is now published at Nature Communications! Hao-Cheng, Yilun and Li presented their works on theory of diffraction, ultra-high resolution systems and systematic aberration analysis in Biophysical Society Annual Meeting, 2024 Congratulations Yilun for John Martinson Entrepreneurial Center (JMEC) award for his leadership in our commercialization effort. We are selected for NSF's Innovation Corps (I-Corps) award and program! Yilun, as our entrepreneur lead and Fang are actively participating this intense 2-month program. New publication now in Nature Methods! "Deep learning-driven adaptive optics for single-molecule localization microscopy". Autonomous, real-time aberration control through AI! Peiyi successfully defended her thesis! Congratulations, Dr. Zhang! Congratulations Peiyi for winning the Student Research Achievement Awards at the annual Biophysical Society meeting! Here's the news report! Lab members joined Photonic West 2023 and Biophysical Society Meeting 2023. The resolving power of a far-field fluorescence microscope is determined by its diffraction limit only when infinite photons are considered. Yilun's latest work provided theoretical resolution limit in presence of finite photons! PREPRINT: arXiv:2302.03565 Use deep learning to control and optimize super-resolution system for large penetration depths and nanometer resolution through brain tissues! Peiyi's recent work is now in PREPRINT: rs.3.rs-1690151/v1 Fang has been promoted to Reilly Associate Professor (with tenure) of Biomedical Engineering effective in Aug 2022. Fan Xu's won "Head's Choice' award for his Art of Research competition in BME, Purdue! His submission shows stunning nanoscale details of actin filaments, a result from our collaboration with Qing Deng's group in Biological Sciences. Our collaborative work with Prof. Susan Cox group has been published in Nature Communications, providing a reliable tool for assessing the quality of localization microscopy images. The lab received another five years of MIRA Award from NIGMS supporting our research in ultra-high resolution structural and molecular imaging of cells and tissues Fan and Fang gave talks in Hitchhiker’s Guide to the Biomolecular Galaxy Symposium on "Three dimensional super-resolution imaging in whole-cell and tissue specimens" and "Single molecule super-resolution in tissues and multiplexed single molecule imaging using deep learning" Donghan gave a talk in Focus on Microscopy, "Three Dimensional Nanoscopy of Whole Cells and Tissues with in Situ Point Spread Function Retrieval". Fang gave a webinar at OSA Laser Systems Technical Group. The webinar can be found here: OSA Webinar. Fan gave a talk at International Forum on 3D Optical Sensing and Applications (IFOSA). Our lab receives BRAIN initiative award from NIDA and NIMH together with the Chubykin lab and the Yin lab! Together, our labs will develop ultra-high resolution brain imaging technologies to map the molecular distribution, structure in a functionally analyzed brain tissue. Our first Annual Review of Biomedical Engineering article is out! Summarizing what we know and view as important for 3D-SMLM in tissue and whole-cell super-res developments and applications! Our new preprint in bioRxiv, "Variance lower bound on fluorescence microscopy image denoising". https://www.biorxiv.org/content/10.1101/2020.05.13.094748v1. Microscopy denoising algoirthms are increasingly precise. But how precise is precise enough? Is there a precision bound a denoising task can achieve at its best without generating artifacts? Yilun's latest work explores this direction. Sheng's latest 4Pi single molecule localization algorithm is now online at Communications Biology! A novel localization algorithm providing pupil-based analysis on complex 4Pi-PSF to further improve 4PiSMSN resolution and accuracy! The INSPR paper, "Three dimensional nanoscopy of whole cells and tissues with in situ point spread function retrieval" is now online at Nature Methods! Congratulations Fan and Donghan! Sha and Ferdinand's beautiful system and data of axial plane super-resolution microscopy is now published in Biomedical Optics Express! "Axial plane single-molecule super-resolution microscopy of whole cells". The system integrates axial optical microscopy with light-sheet illumination and single molecule localization microscopy to provide nanoscale axial (z direction) profiles of fluorescently labeled protein targets through whole cells! Many thanks to great collaborators from Tongcang Li's lab (physics@Purdue, inventor of the original APOM), Peng Yin's lab (systems biology@Harvard) and Sandro Matosevic's lab (industrial and physical pharmacy@Purdue)! Fan and Donghan's newest preprint "Three dimensional nanoscopy of whole cells and tissues with in situ point spread function retrieval" is now online at bioRxiv. INSPR (in situ PSF retrieval) builds an in situ 3D response of single emitters directly from single-molecule dataset and therefore allows 3D single molecule super-resolution imaging through whole cells and tissues. This is a wonderful collaboration project with the Calve lab (super-resolving ECM in tissues) and the Landreth lab (super-resolving amyloid beta plaque in brains of mouse models of Alzheimer's disease)! Be sure to check out the movies of INSPR reconstructed extra- and intra-cellular targets in whole cell and tissues! Sheng's preprint "Enhanced 4Pi single-molecule localization microscopy with coherent pupil based localization and light sheet illumination" is now online at BioRxiv: https://doi.org/10.1101/586404 4Pi-PSF contains large amount of un-explored information in both axial and lateral directions! Sheng's PR-4Pi algorithm extracts these complex information to the theoretical limit and yes! we are excited about getting light-sheet illumination into the 4Pi system. Peiyi and Sheng's new paper "Analyzing complex single-molecule emission patterns with deep learning" is now published at Nature Methods! Incredible work from Peiyi Zhang and Sheng Liu enabling extracting multiple classes of information from single molecule emission patterns at the information limit using deep learning (named "smNet"). Great collaboration with Abhishek Chaurasia and Eugenio Culurciello from the e-Lab! Sheng joins SPIE: Nanoimaging and Nanospectroscopy conference (San Diego, CA)and gives her poster presentation on NCS, 4PiSMSN and super-resolution imaging on brain tissue. Mike's new paper "Active PSF shaping and adaptive optics enable volumetric localization microscopy through brain sections" is now published at Nature Methods! Nice job Mike! It is a great collaboration project with the Landreth group and the Lamb lab from IU School of Medicine! Many thanks for our wonderful collaborators! Fan joins Intelligent Systems for Molecular Biology conference (ISMB) 2018 in Chicago. Nate finishes his rotation in the lab where he helped rebuilt our AO-SMSN system in our new lab space. Cheng joins the lab after finishing his rotations. Nate Smith joins the lab as a rotation student from MSTP program. Sheng presents her poster on sCMOS noise correction algorithm in Biophysical Society Meeting 2018! Cheng finishes his rotation in our lab where he provided his expertise on super-resolution imaging of live cells. Cheng Bi joined the lab as a PULSe rotation student! Welcome, Cheng! Fan Xu joins the lab as a Postdoctoral Associate! Mike moves on to his new position at The Walter and Eliza Hall Institute of Medical Research. Good work and best of luck, Mike! Ferdinand Ziegler (grad. student) and Donghan Ma (postdoctoral associate) join the lab. Welcome! Sheng's project on sCMOS noise correction for arbitrary microscopy images is now published at Nature Methods! Good work, Sheng, Mike and Zhenhua! Many thanks for our wonderful collaborators in the Suter lab! Paula and Mike join Integrative Neuroscience Summer Retreat at St. Joseph, MI. Fang's previous collaboration work with Caroline Laplante and Thomas Pollard is now published on PNAS! Super-resolution microscopy on live fission yeast! Fang receives Young Faculty Award (2016) from Defense Advanced Research Projects Agency! Thanks a lot for the support from DARPA! Fang's previous research on function of Nuncleoporins at cilia is published in Developmental Cell. It is a great collaboration project with the Khokha group and the Lusk group from Yale! It is featured as cover story with our augmented reality-rendered 3D super-resolution data! Fang gives an invited talk at 252nd ACS National Meeting at Philadelphia in Advances in Biological Imaging Session. Paula and Peiyi both receive the Ross fellowship support for their research! Congratulations! Peiyi Zhang and Paula-Marie Ivey join the lab as Ph.D. students. Welcome Peiyi and Paula! Fang receives MIRA Award from NIGMS! Thanks very much for the support from NIH! Fang's previous research on 4Pi+PALM/STORM imaging is published in Cell! It is also selected as the cover story of Cell. It is also highlighted in Nature Methods and news.This is a highly collaborative work involves investigators from five institutions around the world. Thanks for all the effort from his collaborators and mentor! Fang gives an invited talk at Advanced Structural and Chemical Imaging Meeting at Boise, ID. Thanks a lot for the invitation from Nigel D. Browning and Yaqiao Wu. The group joins the Chicago cytoskeleton meeting. It was a great meeting and a lot fun! Here's the website. Fang gives a presentation at Biophysical Society Meeting 2016 of the most recent work on Ultra-high resolution imaging of whole cells Michael Mlodzianoski joins the lab. Welcome, Mike! Sheng Liu joins the lab. Welcome, Sheng! Zhenhua Hu, a master student from ECE joins the lab. Welcome, Zhenhua! Fang started as Assistant Professor in Weldon School of Biomedical Engineering, Purdue. Welcome to Purdue University! |