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| 1 | Motility-based label-free detection of parasites in bodily fluids using holographic speckle analysis and deep learning显示文摘Parasitic infections constitute a major global public health issue.Existing screening methods that are based on manual microscopic examination often struggle to provide sufficient volumetric throughput and sensitivity to facilitate early diagnosis.Here,we demonstrate a motility-based label-free computational imaging platform to rapidly detect motile parasites in optically dense bodily fluids by utilizing the locomotion of the parasites as a specific biomarker and endogenous contrast mechanism.Based on this principle,a cost-effective and mobile instrument,which rapidly screens~3.2 mL of fluid sample in three dimensions,was built to automatically detect and count motile microorganisms using their holographic time-lapse speckle patterns.We demonstrate the capabilities of our platform by detecting trypanosomes,which are motile protozoan parasites,with various species that cause deadly diseases affecting millions of people worldwide.Using a holographic speckle analysis algorithm combined with deep learningbased classification,we demonstrate sensitive and label-free detection of trypanosomes within spiked whole blood and artificial cerebrospinal fluid(CSF)samples,achieving a limit of detection of ten trypanosomes per mL of whole blood(~five-fold better than the current state-of-the-art parasitological method)and three trypanosomes per mL of CSF.We further demonstrate that this platform can be applied to detect other motile parasites by imaging Trichomonas vaginalis,the causative agent of trichomoniasis,which affects 275 million people worldwide.With its costeffective,portable design and rapid screening time,this unique platform has the potential to be applied for sensitive and timely diagnosis of neglected tropical diseases caused by motile parasites and other parasitic infections in resource-limited regions. | Yibo Zhang Hatice Ceylan Koydemir Michelle M.Shimogawa Sener Yalcin Alexander Guziak Tairan Liu Ilker Oguz Yujia Huang Bijie Bai Yilin Luo Yi Luo Zhensong Wei Hongda Wang Vittorio Bianco Bohan Zhang Rohan Nadkarni Kent Hill Aydogan Ozcan | 2018 | Light(Science & Applications)2018，7，1： | 6 |
| 2 | To image,or not to image:class-specific diffractive cameras with all-optical erasure of undesired objects显示文摘Privacy protection is a growing concern in the digital era,with machine vision techniques widely used throughout public and private settings.Existing methods address this growing problem by,e.g.,encrypting camera images or obscuring/blurring the imaged information through digital algorithms.Here,we demonstrate a camera design that performs class-specific imaging of target objects with instantaneous all-optical erasure of other classes of objects.This diffractive camera consists of transmissive surfaces structured using deep learning to perform selective imaging of target classes of objects positioned at its input field-of-view.After their fabrication,the thin diffractive layers collectively perform optical mode filtering to accurately form images of the objects that belong to a target data class or group of classes,while instantaneously erasing objects of the other data classes at the output field-of-view.Using the same framework,we also demonstrate the design of class-specific permutation and class-specific linear transformation cameras,where the objects of a target data class are pixel-wise permuted or linearly transformed following an arbitrarily selected transformation matrix for all-optical class-specific encryption,while the other classes of objects are irreversibly erased from the output image.The success of class-specific diffractive cameras was experimentally demonstrated using terahertz(THz)waves and 3D-printed diffractive layers that selectively imaged only one class of the MNIST handwritten digit dataset,all-optically erasing the other handwritten digits.This diffractive camera design can be scaled to different parts of the electromagnetic spectrum,including,e.g.,the visible and infrared wavelengths,to provide transformative opportunities for privacy-preserving digital cameras and task-specific data-efficient imaging. | Bijie Bai Yi Luo Tianyi Gan Jingtian Hu Yuhang Li Yifan Zhao Deniz Mengu Mona Jarrahi Aydogan Ozcan | 2022 | eLight2022，2，1： | 4 |
| 3 | Petrology of Garnet Amphibolites from the Hualong Group: Implications for Metamorphic Evolution of the Qilian Orogen, NW China显示文摘The Qilian Orogen marks the junction of the North China, South China and Tarim cratons. The mechanism of continental growth during the formation of the orogen remains unclear. Based on detailed fieldwork, we present a systematic study of petrography, mineral chemistry and phase equilibria of garnet amphibolites from the Hualong Group, which represents the Precambrian basement in the southern accretionary belt of the Qilian Orogen. The garnet amphibolites mainly consist of amphibole, plagioclase, garnet and quartz, with minor pyroxene, biotite and ilmenite. A peak stage of upper amphibolite facies to low-temperature granulite facies metamorphism and retrograde metamorphism in the amphibolite facies affected the samples. Garnet has a homogeneous composition of Alm66–71 Grs14–17 Prp9–12 Sps3–5, amphibole is ferro-hornblende, biotite belongs to the ferro-biotite species and pyroxene is dominated by orthopyroxene with few clinopyroxene. Pseudosection modeling of the garnet amphibolite samples indicates clockwise P-T paths. The samples witness peak metamorphism at conditions of ~4.9–6.3 kbar and ~755–820 ℃ in the upper amphibolite facies to lowtemperature granulite facies, and retrograde cooling and decompression at conditions of ~2.5–3.1 kbar and ~525–545 ℃. It is inferred that peak metamorphism with high temperature and low pressure occurred at ca. 450 Ma during northward subduction of the South Qilian oceanic crust beneath the central Qilian Block. When continental collision occurred between the central Qilian and the Qaidam blocks, the Hualong Block was accreted onto the South Qilian accretionary complex and experienced amphibolite facies retrograde metamorphism at ca. 440 Ma. | Yilong Li Limin Zhao Zhuoyang Li Biji Luo Jianping Zheng Fraukje M.Brouwer | 2018 | Journal of Earth Science2018，29，5： | 2 |
| 4 | Identification of epidemic strains of Acinetobacter baumannii by integrase gene PCR 显示文摘 | Koeleman Johannes GM Stoof J Van Der Biji MW | 2001 | Clinical Microbiol2001，39，1： | 1 |
| 5 | International Noso-comial Infection Control Consortium (INICC) report, datasummary of 36 countries,for 2004-2009 显示文摘 | Rosenthal VD Bijie HrMaki DG | 2012 | AmericanJournal of Infection Control2012，40，5： | 1 |
| 6 | Burning mouth syndrome显示文摘 | Maresky LS Biji P vander Gird I | 1993 | Oral Surg Oral Med Oral Pathol1993，75，： | 1 |
| 7 | Biopsy-free in vivo virtual histology of skin using deep learning显示文摘An invasive biopsy followed by histological staining is the benchmark for pathological diagnosis of skin tumors.The process is cumbersome and time-consuming,often leading to unnecessary biopsies and scars.Emerging noninvasive optical technologies such as reflectance confocal microscopy(RCM)can provide label-free,cellular-level resolution,in vivo images of skin without performing a biopsy.Although RCM is a useful diagnostic tool,it requires specialized training because the acquired images are grayscale,lack nuclear features,and are difficult to correlate with tissue pathology.Here,we present a deep learning-based framework that uses a convolutional neural network to rapidly transform in vivo RCM images of unstained skin into virtually-stained hematoxylin and eosin-like images with microscopic resolution,enabling visualization of the epidermis,dermal-epidermal junction,and superficial dermis layers.The network was trained under an adversarial learning scheme,which takes ex vivo RCM images of excised unstained/label-free tissue as inputs and uses the microscopic images of the same tissue labeled with acetic acid nuclear contrast staining as the ground truth.We show that this trained neural network can be used to rapidly perform virtual histology of in vivo,label-free RCM images of normal skin structure,basal cell carcinoma,and melanocytic nevi with pigmented melanocytes,demonstrating similar histological features to traditional histology from the same excised tissue.This application of deep learning-based virtual staining to noninvasive imaging technologies may permit more rapid diagnoses of malignant skin neoplasms and reduce invasive skin biopsies. | Jingxi Li Jason Garfinkel Xiaoran Zhang Di Wu Yijie Zhang Kevin de Haan Hongda Wang Tairan Liu Bijie Bai Yair Rivenson Gennady Rubinstein Philip O.Scumpia Aydogan Ozcan | 2021 | Light(Science & Applications)2021，10，12： | 1 |
| 8 | In vitro activity,pharmacokinetics,clinical efficacy,safety and pharmacoeconomics of ceftriaxone compared with third and fourth generation cephalosporins:review显示文摘 | Bijie H Kulpradist S Manalaysay M | 2005 | J Chemother2005，17，1： | 1 |
| 9 | Device-associated infection rates in 398 intensive care units in Shanghai,China:International Nosocomial Infection Control Consortium(INICC) findings显示文摘 | Lili Tao Bijie Hu Victor D | 2011 | International Jour- nal of Infectious Diseases2011，15，11： | 1 |
| 10 | International Nosocomial Infection Control Consortium(INICC)report,data summary of 36countries,for 2004-2009显示文摘 | Rosenthal VD Bijie H Maki DG | 2012 | Am J Infect Control2012，40，5： | 1 |
| 11 | In vitro ac- tivity, phamocokinetics, clinical efficacy, safety and pha- mocoeconomics of ceftriaxone compared with third and forth Generation cephalosporins: review显示文摘 | Bijie H Kulpradist S Manalaysay M | 2005 | J Chemoth- er2005，17，1： | 1 |
| 12 | Improving the Solubility and Pharm Acological Efficacy of Curcumin by Heat Treatment显示文摘 | Biji T Kurien Anil Singh Hiroyuki Matsumoto | 2007 | Assay Drug Dev Technol2007，5，4： | 1 |
| 13 | International Nosocomial Infection Control Consortium(INICC)report,data summary of 36countries,for 2004-2009显示文摘 | Rosenthal VD Bijie H Maki DG | 2012 | Am J Infect Control2012，40，5： | 1 |
| 14 | Endothelial activation, endothelial dysfunction and premature atheroselerosis in systemic autoimmune diseases显示文摘 | Biji M | 2003 | Neth J Meal2003，61，9： | 1 |
| 15 | International Nosoco-mial Infection Control Consortium(INICC)report,data sum-mary of 36countries,for 2004-2009显示文摘 | Rosenthal VD Bijie H Maki DG | 2012 | Am J Infect Control2012，40，5： | 1 |
| 16 | The use of self - ef-ficacy enhancing methods in diabetes education in the Netherlands显示文摘 | Koopman - van der Berg DJE Van der Biji JJ | 2001 | Scholarly Inquiry for Nursing Practice*2001，15，3： | 1 |
| 17 | International Nosocomial Infection Control Consortium (INICC) report, data summary of 36 countries, for 2004-2009 显示文摘 | Rosenthal VD Bijie H Maki DG | 2012 | Am J Infect Control2012，40，5： | 1 |
| 18 | International Nosocomial Infection Control Consortium (INICC) report, data summary of 36 countries, for 2004 - 2009 显示文摘 | Rosenthal VD Bijie H Maki DG | 2012 | Am J Infect Control2012，，5： | 1 |
| 19 | International Noso-comial Infection Control Consortium (INICC) report, data-summary of 36 countries,for 2004 -2009显示文摘 | Rosenthal VD Bijie H Maki DG | 2012 | Am J InfectionControl2012，40，： | 1 |
| 20 | International Nosococ- mial Infection Control Consortium (INICC) report,data sumrmry of 36 countries,for 2004-2009显示文摘 | Rosenthal VD Bijie H Maki DG et a/ | 2012 | Am J Infect Control2012，40，5： | 1 |
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