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05/13/2020
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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 Outstanding Investigator Award from NIGMS (MIRA award)! 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! |