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A cellular and proteomic approach to assess proteins extracted from cryopreserved human amnion in the cultivation of corneal stromal keratocytes for stromal cell therapy

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Eye and Vision 2019年第1期6卷 247-260页

作者： Beau J.Fenner Nur Zahirah B.M.Yusoff Matthias Fuest Lei Zhou Francisco Bandeira Howard ***-Uy H.K.Tan Jodhbir S.Mehta Gary H.F.Yam Tissue Engineering and Stem Cell Group Singapore Eye Research Institute20 College RoadThe AcademiaDiscovery Tower Level 6Singapore 169856Singapore Singapore National Eye Centre SingaporeSingapore Department of Ophthalmology RWTH Aachen UniversityAachenGermany Eye-Academic Clinical Programme Duke-NUS Graduate Medical SchoolSingaporeSingapore Proteomics Platform Singapore Eye Research InstituteSingaporeSingapore Federal University of São Paulo Sao PauloBrazil Singapore Eye Bank SingaporeSingapore Department of Obstetrics and Gynaecology Singapore General HospitalSingaporeSingapore

Background:Human corneal stromal keratocytes propagated in culture media supplemented with human amnion extract(AME)can correct early corneal haze in an animal *** application of cultivated keratocytes is limited by infectious disease screening before amnion products can be used in *** remains unclear if AME from cryopreserved versus fresh human amnion can support human keratocyte propagation,and which components of the extract promote keratocyte ***:Three placentas were collected for the preparation of fresh and cryopreserved amnion tissues followed by homogenization and protein *** protein profiles were studied using isobaric tagging for relative and absolute quantitation(iTRAQ)*** gene ontology(GO)terms and functional classes were *** human keratocytes from 4 donor corneas were cultured in media supplemented with fresh AME(F-AME)or cryopreserved AME(C-AME).Cell viability,proliferation and keratocyte marker expression were examined by confocal immunofluorescence and flow ***:AME proteomics revealed 1385 proteins with similar expression levels(between 0.5-and 2-fold)between Fand C-AME,while 286 proteins were reduced(less than 0.5-fold)in *** GO term and biological pathway analysis showed that those proteins with comparable expression between F-AME and C-AME were involved in cell metabolism,epithelial-mesenchymal transition,focal adhesion,cell-extracellular matrix interaction,cell stress regulation and complement *** corneal stromal keratocytes cultured with F-AME or C-AME showed similar morphology and viability,while cell proliferation was mildly suppressed with C-AME(P>0.05).Expression of aldehyde dehydrogenase 3A1(ALDH3A1)and CD34 was similar in both ***:AME from cryopreserved amnion had limited influence on keratocyte *** is feasible to use protein extract from cryopreserved amnion to propagate human keratocytes for potential translati

关键词： Amnion extract Proteomics Corneal stromal keratocytes Marker expression

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Towards a consensus atlas of human and mouse adipose tissue at single-cell resolution

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Nature metabolism 2025年 2025 May 13页

作者： Anne Loft Margo P Emont Ada Weinstock Adeline Divoux Adhideb Ghosh Allon Wagner Ann V Hertzel Babukrishna Maniyadath Bart Deplancke Boxiang Liu Camilla Scheele Carey Lumeng Changhai Ding Chenkai Ma Christian Wolfrum Clarissa Strieder-Barboza Congru Li Danh D Truong David A Bernlohr Elisabet Stener-Victorin Erin E Kershaw Esti Yeger-Lotem Farnaz Shamsi Hannah X Hui Henrique Camara Jiawei Zhong Joanna Kalucka Joseph A Ludwig Julie A Semon Jutta Jalkanen Katie L Whytock Kyle D Dumont Lauren M Sparks Lindsey A Muir Lingzhao Fang Lucas Massier Luis R Saraiva Marc D Beyer Marc G Jeschke Marcelo A Mori Mariana Boroni Martin J Walsh Mary-Elizabeth Patti Matthew D Lynes Matthias Blüher Mikael Rydén Natnael Hamda Nicole L Solimini Niklas Mejhert Peng Gao Rana K Gupta Rinki Murphy Saeed Pirouzpanah Silvia Corvera Su'an Tang Swapan K Das Søren F Schmidt Tao Zhang Theodore M Nelson Timothy E O'Sullivan Vissarion Efthymiou Wenjing Wang Yihan Tong Yu-Hua Tseng Susanne Mandrup Evan D Rosen Center for Functional Genomics and Tissue Plasticity (ATLAS) Department of Biochemistry and Molecular Biology University of Southern Denmark (SDU) Odense Denmark. anlo@bmb.sdu.dk. Section of Endocrinology Diabetes and Metabolism University of Chicago Chicago IL USA. margo@uchicago.edu. Department of Medicine Section of Genetic Medicine University of Chicago Chicago IL USA. Translational Research Institute AdventHealth Orlando FL USA. Department of Health Sciences and Technology Institute of Food Nutrition and Health ETH Zurich Schwerzenbach Switzerland. Department of Electrical Engineering and Computer Sciences University of California Berkeley Berkeley CA USA. Department of Molecular and Cell Biology University of California Berkeley Berkeley CA USA. Center for Computational Biology University of California Berkeley Berkeley CA USA. Department of Biochemistry Molecular Biology and Biophysics Institute on the Biology of Aging and Metabolism The University of Minnesota-Twin Cities Minneapolis MN USA. Center for Functional Genomics and Tissue Plasticity (ATLAS) Department of Biochemistry and Molecular Biology University of Southern Denmark (SDU) Odense Denmark. Laboratory of Systems Biology and Genetics Institute of Bioengineering School of Life Sciences École Polytechnique Fédérale de Lausanne (EPFL) Lausanne Switzerland. Department of Pharmacy and Pharmaceutical Sciences Faculty of Science National University of Singapore Singapore Singapore. Department of Biomedical Informatics Yong Loo Lin School of Medicine National University of Singapore Singapore Singapore. Genome Institute of Singapore (GIS) Agency for Science Technology and Research (A*STAR) Singapore Singapore. Precision Medicine Translational Research Programme Yong Loo Lin School of Medicine National University of Singapore Singapore Singapore. Cardiovascular-Metabolic Disease Translational Research Programme Yong Loo Lin School of Medicine National University of Singapore Singapor

Adipose tissue (AT) is a complex connective tissue with a high relative proportion of adipocytes, which are specialized cells with the ability to store lipids in large droplets. AT is found in multiple discrete depots throughout the body, where it serves as the primary repository for excess calories. In addition, AT has an important role in functions as diverse as insulation, immunity and regulation of metabolic homeostasis. The Human Cell Atlas Adipose Bionetwork was established to support the generation of single-cell atlases of human AT as well as the development of unified approaches and consensus for cell annotation. Here, we provide a first roadmap from this bionetwork, including our suggested cell annotations for humans and mice, with the aim of describing the state of the field and providing guidelines for the production, analysis, interpretation and presentation of AT single-cell data.

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The repertoire of mutational signatures in human cancer (vol 578, pg 94, 2020)

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NATURE 2023年第7948期614卷 E41-E41页

作者： Alexandrov, Ludmil B. Kim, Jaegil Haradhvala, Nicholas J. Huang, Mi Ni Ng, Alvin Wei Tian Wu, Yang Boot, Arnoud Covington, Kyle R. Gordenin, Dmitry A. Bergstrom, Erik N. Islam, S. M. Ashiqul Lopez-Bigas, Nuria Klimczak, Leszek J. McPherson, John R. Morganella, Sandro Sabarinathan, Radhakrishnan Wheeler, David A. Mustonen, Ville Getz, Gad Rozen, Steven G. Stratton, Michael R. Department of Cellular and Molecular Medicine Department of Bioengineering Moores Cancer Center University of California San Diego CA USA Wellcome Sanger Institute Wellcome Genome Campus Hinxton UK Department of Cellular and Molecular Medicine and Department of Bioengineering University of California San Diego La Jolla CA USA UC San Diego Moores Cancer Center San Diego CA USA University of California San Diego San Diego CA USA Broad Institute of MIT and Harvard Cambridge MA USA Center for Cancer Research Massachusetts General Hospital Boston MA USA Massachusetts General Hospital Boston MA USA Department of Pathology Massachusetts General Hospital Boston MA USA Harvard Medical School Boston MA USA Laboratory for Medical Science Mathematics RIKEN Center for Integrative Medical Sciences Yokohama Japan Computational Biology Program Ontario Institute for Cancer Research Toronto ON Canada Programme in Cancer & Stem Cell Biology Duke-NUS Medical School Singapore Singapore Centre for Computational Biology Duke-NUS Medical School Singapore Singapore Programme in Cancer and Stem Cell Biology Duke-NUS Medical School Singapore Singapore Programme in Cancer and Stem Cell Biology Centre for Computational Biology Duke-NUS Medical School Singapore Singapore SingHealth Duke-NUS Institute of Precision Medicine National Heart Centre Singapore Singapore Singapore Cancer Science Institute of Singapore National University of Singapore Singapore Singapore Institute of Molecular and Cell Biology Singapore Singapore Laboratory of Cancer Epigenome Division of Medical Science National Cancer Centre Singapore Singapore Singapore Duke-NUS Medical School Singapore Singapore Human Genome Sequencing Center Baylor College of Medicine Houston TX USA Dan L. Duncan Cancer Center Baylor College of Medicine Houston TX USA Department of Molecular and Human Genetics Baylor College of Medicine Houston TX USA Genome Integrity and Structural Biology Laboratory National Ins

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The evolutionary history of 2,658 cancers (vol 578, pg 122, 2020)

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NATURE 2023年第7948期614卷 E42-E42页

作者： Gerstung, Moritz Jolly, Clemency Leshchiner, Ignaty Dentro, Stefan C. Gonzalez, Santiago Rosebrock, Daniel Mitchell, Thomas J. Rubanova, Yulia Anur, Pavana Yu, Kaixian Tarabichi, Maxime Deshwar, Amit Wintersinger, Jeff Kleinheinz, Kortine Vazquez-Garcia, Ignacio Haase, Kerstin Jerman, Lara Sengupta, Subhajit Macintyre, Geoff Malikic, Salem Donmez, Nilgun Livitz, Dimitri G. Cmero, Marek Demeulemeester, Jonas Schumacher, Steven Fan, Yu Yao, Xiaotong Lee, Juhee Schlesner, Matthias Boutros, Paul C. Bowtell, David D. Zhu, Hongtu Getz, Gad Imielinski, Marcin Beroukhim, Rameen Sahinalp, S. Cenk Ji, Yuan Peifer, Martin Markowetz, Florian Mustonen, Ville Yuan, Ke Wang, Wenyi Morris, Quaid D. Spellman, Paul T. Wedge, David C. Van Loo, Peter European Molecular Biology Laboratory European Bioinformatics Institute (EMBL-EBI) Cambridge UK European Molecular Biology Laboratory Genome Biology Unit Heidelberg Germany Wellcome Sanger Institute Cambridge UK Genome Biology Unit European Molecular Biology Laboratory (EMBL) Heidelberg Germany University of Ljubljana Ljubljana Slovenia The Francis Crick Institute London UK Big Data Institute University of Oxford Oxford UK Wellcome Sanger Institute Wellcome Genome Campus Hinxton UK Big Data Institute Li Ka Shing Centre University of Oxford Oxford UK University of Cambridge Cambridge UK Cambridge University Hospitals NHS Foundation Trust Cambridge UK Department of Applied Mathematics and Theoretical Physics Centre for Mathematical Sciences University of Cambridge Cambridge UK Department of Epidemiology and Biostatistics Memorial Sloan Kettering Cancer Center New York NY USA Department of Statistics Columbia University New York NY USA Department of Haematology University of Cambridge Cambridge UK University of Leuven Leuven Belgium Broad Institute of MIT and Harvard Cambridge MA USA Center for Cancer Research Massachusetts General Hospital Charlestown MA USA Department of Pathology Massachusetts General Hospital Boston MA USA Harvard Medical School Boston MA USA Center for Cancer Research Massachusetts General Hospital Boston MA USA Dana-Farber Cancer Institute Boston MA USA Department of Medical Oncology Dana-Farber Cancer Institute Boston MA USA Department of Cancer Biology Dana-Farber Cancer Institute Boston MA USA Oxford NIHR Biomedical Research Centre Oxford UK Oxford NIHR Biomedical Research Centre University of Oxford Oxford UK University of Toronto Toronto Ontario Canada Vector Institute Toronto Ontario Canada Vector Institute Toronto ON Canada Department of Computer Science University of Toronto Toronto ON Canada Ontario Institute for Cancer Research Toronto Ontario Canada University of California Los Angeles

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Genomic basis for RNA alterations in cancer (vol 578, pg 129, 2020)

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NATURE 2023年第7948期614卷 E37-E37页

作者： Calabrese, Claudia Davidson, Natalie R. Demircioglu, Deniz Fonseca, Nuno A. He, Yao Lehmann, Kjong-Van Liu, Fenglin Shiraishi, Yuichi Soulette, Cameron M. Urban, Lara Greger, Liliana Li, Siliang Liu, Dongbing Perry, Marc D. Xiang, Qian Zhang, Fan Zhang, Junjun Bailey, Peter Erkek, Serap Hoadley, Katherine A. Hou, Yong Huska, Matthew R. Kilpinen, Helena Korbel, Jan O. Marin, Maximillian G. Markowski, Julia Nandi, Tannistha Pan-Hammarstrom, Qiang Pedamallu, Chandra Sekhar Siebert, Reiner Stark, Stefan G. Su, Hong Tan, Patrick Waszak, Sebastian M. Yung, Christina Zhu, Shida Awadalla, Philip Creighton, Chad J. Meyerson, Matthew Ouellette, B. F. Francis Wu, Kui Yang, Huanming Brazma, Alvis Brooks, Angela N. Goke, Jonathan Ratsch, Gunnar Schwarz, Roland F. Stegle, Oliver Zhang, Zemin European Molecular Biology Laboratory European Bioinformatics Institute Hinxton UK European Molecular Biology Laboratory European Bioinformatics Institute (EMBL-EBI) Cambridge UK Genome Biology Unit European Molecular Biology Laboratory (EMBL) Heidelberg Germany CIBIO/InBIO - Research Center in Biodiversity and Genetic Resources Universidade do Porto Vairão Portugal Berlin Institute for Medical Systems Biology Max Delbruck Center for Molecular Medicine Berlin Germany German Cancer Consortium (DKTK) partner site Berlin Germany German Cancer Research Center (DKFZ) Heidelberg Germany Berlin Institute for Medical Systems Biology Max Delbrück Center for Molecular Medicine Berlin Germany German Cancer Consortium (DKTK) Partner site Berlin Berlin Germany European Molecular Biology Laboratory Genome Biology Unit Heidelberg Germany Division of Computational Genomics and Systems Genetics German Cancer Research Center (DKFZ) Heidelberg Germany ETH Zurich Zurich Switzerland Memorial Sloan Kettering Cancer Center New York NY USA Weill Cornell Medical College New York NY USA SIB Swiss Institute of Bioinformatics Lausanne Switzerland University Hospital Zurich Zurich Switzerland Computational Biology Center Memorial Sloan Kettering Cancer Center New York NY USA Department of Biology ETH Zurich Zürich Switzerland Department of Computer Science ETH Zurich Zurich Switzerland Korea University Seoul South Korea Computational and Systems Biology Program Memorial Sloan Kettering Cancer Center New York NY USA Department of Physiology and Biophysics Weill Cornell Medicine New York NY USA Institute for Computational Biomedicine Weill Cornell Medicine New York NY USA Controlled Department and Institution New York NY USA Englander Institute for Precision Medicine Weill Cornell Medicine New York NY USA National University of Singapore Singapore Singapore Genome Institute of Singapore Singapore Singapore Computational and Systems Biology Genome Institute of Singap

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Patterns of somatic structural variation in human cancer genomes (vol 578, pg 112, 2020)

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NATURE 2023年第7948期614卷 E38-E38页

作者： Li, Yilong Roberts, Nicola D. Wala, Jeremiah A. Shapira, Ofer Schumacher, Steven E. Kumar, Kiran Khurana, Ekta Waszak, Sebastian Korbel, Jan O. Haber, James E. Imielinski, Marcin Weischenfeldt, Joachim Beroukhim, Rameen Campbell, Peter J. Cancer Genome Project Wellcome Trust Sanger Institute Hinxton UK Totient Inc Cambridge MA USA Wellcome Sanger Institute Wellcome Genome Campus Hinxton UK Department of Haematology University of Cambridge Cambridge UK Cambridge University Hospitals NHS Foundation Trust Cambridge UK Korea Advanced Institute of Science and Technology Daejeon South Korea Department of Zoology Genetics and Physical Anthropology University of Santiago de Compostela Santiago de Compostela Spain Centre for Research in Molecular Medicine and Chronic Diseases (CIMUS) University of Santiago de Compostela Santiago de Compostela Spain The Biomedical Research Centre (CINBIO) University of Vigo Vigo Spain Centre for Research in Molecular Medicine and Chronic Diseases (CiMUS) Universidade de Santiago de Compostela Santiago de Compostela Spain Department of Zoology Genetics and Physical Anthropology (CiMUS) Universidade de Santiago de Compostela Santiago de Compostela Spain The Biomedical Research Centre (CINBIO) Universidade de Vigo Vigo Spain The Broad Institute of Harvard and MIT Cambridge MA USA Bioinformatics and Integrative Genomics Harvard University Cambridge MA USA Department of Cancer Biology Dana-Farber Cancer Institute Boston MA USA Broad Institute of MIT and Harvard Cambridge MA USA Department of Medical Oncology Dana-Farber Cancer Institute Boston MA USA Harvard Medical School Boston MA USA Massachusetts General Hospital Center for Cancer Research Charlestown MA USA Dana-Farber Cancer Institute Boston MA USA Department of Biostatistics and Computational Biology Dana-Farber Cancer Institute and Harvard Medical School Boston MA USA Weill Cornell Medical College New York NY USA Department of Physiology and Biophysics Weill Cornell Medicine New York NY USA Institute for Computational Biomedicine Weill Cornell Medicine New York NY USA Controlled Department and Institution New York NY USA Englander Institute for Precision Medicine Weill Cornell Medicine Ne

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Cryopreservation strategies for stem cells derived from a variety of sources involving tissue engineering

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Cryobiology 2015年第3期71卷 559-559页

作者： Lilia L. Kuleshova Feng Wen Yingnan Wu Sok Siam Gouk Gavin Stewart Dawe Eng Hin Lee Low Temperature Preservation Unit National University Medical Institutes YLL School of Medicine National University of Singapore (NUS) Singapore Institute for Multiphase Processes Center for Biomedical Engineering Faculty of Mechanical Engineering Leibniz Universität Hannover Germany NUS Tissue Engineering Program Singapore Life Sciences Institute Neurobiology and Ageing Programme and Department of Pharmacology YLL School of Medicine NUS Singapore Department of Orthopaedic Surgery YLL School of Medicine NUS Singapore

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Preparation of three-dimensional interconnected macroporous cellulosic hydrogels for soft tissue engineering

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BIOMATERIALS 2010年第32期31卷 8141-8152页

作者： Yue, Zhilian Wen, Feng Gao, Shujun Ang, Ming Yi Pallathadka, Pramoda K. Liu, Lihong Yu, Hanry ASTAR Inst Biotechnol & Nanotechnol Singapore 138669 Singapore ASTAR Inst Mat Res & Engn Singapore 117602 Singapore Yong Loo Lin Sch Med Dept Physiol Res Ctr Singapore 117597 Singapore Singapore MIT Alliance Singapore 117576 Singapore Natl Univ Singapore DSO Labs NUS Tissue Engineering Programme Singapore 117597 Singapore Res Ctr Excellence Mechanobiol Singapore 117411 Singapore SMART Singapore 117543 Singapore

This work exploits the thermal responsive phase behavior of hydroxypropylcellulose to produce 3D interconnected macroporous hydrogels in aqueous environment. Hydroxypropylcellulose was modified with allyl isocyanate, and their temperature mediated phase behavior was studied as a function of degree of modification (DS). A derivative with a DS of 1.5 was selected for scaffold preparation. Its aqueous solutions were warmed up to trigger the formation of biphasic systems. Such state was then immobilized efficiently by gamma-ray irradiated crosslinking. Lyophilization of the crosslinked hydrogels yielded 3D macroporous sponges. The re-hydrated gels demonstrate a combination of interconnected macroporosity, high water content and mechanical integrity to soft tissues. Cytocompatibility was demonstrated among various cell types, and in vivo biocompatibility test showed minimal inflammatory response within 12 weeks' subcutaneous implantation in mice. The potential applications of these macroporous hydrogels in tissue engineering are discussed. (C) 2010 Elsevier Ltd. All rights reserved.

关键词： Hydrogels Porous materials Cellulose Thermally responsive materials tissue engineering

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Pathomechanics of post-traumatic knee injuries

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作者： Yeow, C.H. Lee, P.V.S. Goh, James Cho Hong Division of Bioengineering National University of Singapore Singapore Singapore Department of Orthopaedic Surgery NUS Tissue Engineering Programme National University of Singapore 27 Medical Drive Singapore 117510 Singapore Biomechanics Lab. Defence Medical and Environmental Research Institute Singapore Singapore

ISBN: (纸本)9783540691389

High and rapid impact activities are widely known to subject the knee joint to abnormal kinetics and kinematics that will increase injury risk. We hypothesize that impact loads applied to the knee joint to simulate an injurious landing task are able to induce anterior cruciate ligament injury;at the same time, these loads can also inflict significant cartilage damage which may accelerate the risk of developing early-onset osteoarthritis. Five cadaveric knees were mounted to a material testing system at 70-deg flexion. Rotational and translational joint motion during compression was registered using motion-capture system. Compression was successively repeated with higher actuator displacement until a significant decrease in load response was noted;ligament failure was determined by magnetic-resonance imaging and dissection. Pre- and post-test cartilage thickness at anterior, exterior, posterior and interior tibiofemoral regions were measured using magnetic-resonance scans. Osteochondral explants were subsequently extracted from these regions and histologically-assessed using modified Mankin scoring system. All specimens sustained anterior cruciate ligament failure;significant compressive force drop (80-91%) and substantial posterior femoral displacement (7.6-18.0mm) were observed. Significant reduction in cartilage thickness was found post-failure, especially for posterior-exterior tibiofemoral regions. Mankin scoring further confirmed considerable lesions at posterior regions. The cartilage damage profiles implied a ligament failure mechanism dominated by anterior tibial translation;this level of damage was analogous to mild-moderate osteoarthritic stages. Large impact loads can cause both anterior cruciate ligament injury and cartilage lesions, which may synergistically lead to early-onset osteoarthritis. © 2008 Springer-Verlag.

关键词： Cartilage

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Standardized quantification for liver fibrosis assessment using second harmonic generation microscopy

Standardized quantification for liver fibrosis assessment us...

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Frontiers in Optics, FiO 2008

作者： Tai, D.C.S. Xu, S.Y. Kang, C.H. Tan, N. Chia, S.M. Cheng, C.L. Yu, H. Institute of Bioengineering and Nanotechnology A-STAR The Nanos #04-01 31 Biopolis Way Singapore 138669 Singapore Singapore-MIT Alliance E4-04-10 4 Engineering Drive 3 Singapore 117576 Singapore Department of Pediatrics KK Women's and Children's Hospital 100 Bukit Timah Road Singapore 229899 Singapore Department of Physiology Yong Loo Lin School of Medicine #03-03 2 Medical Drive Singapore 117597 Singapore NUS Graduate Programme in Bioengineering NUS Graduate School for Integrative Science and Engineering National University of Singapore Singapore 117597 Singapore NUS Tissue-Engineering Programme DSO Labs National University of Singapore Singapore 117597 Singapore Department of Haematology-Oncology National University Hospital Singapore 119074 Singapore

We have developed a standardized quantification technique for assessing the progression of liver fibrosis by combining second harmonic generation microscopy and automated quantification algorithms. We have also valida... 详细信息

ISBN: (纸本)9781557528612

关键词： Harmonic generation

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