Author: "Pang S" - Searchworks@Jio Institute Digital Library Search Results

4,211 results on '"Pang S"'

101. Tumor attention networks: Better feature selection, better tumor segmentation

Author: Pang, S, Du, A, Orgun, MA, Wang, Y, and Yu, Z
Subjects: ComputingMethodologies_PATTERNRECOGNITION, Liver Neoplasms, ComputingMethodologies_IMAGEPROCESSINGANDCOMPUTERVISION, Image Processing, Computer-Assisted, Humans, Artificial Intelligence & Image Processing, Neural Networks, Computer, Tomography, X-Ray Computed
Abstract: Compared with the traditional analysis of computed tomography scans, automatic liver tumor segmentation can supply precise tumor volumes and reduce the inter-observer variability in estimating the tumor size and the tumor burden, which could further assist physicians to make better therapeutic choices for hepatic diseases and monitoring treatment. Among current mainstream segmentation approaches, multi-layer and multi-kernel convolutional neural networks (CNNs) have attracted much attention in diverse biomedical/medical image segmentation tasks with remarkable performance. However, an arbitrary stacking of feature maps makes CNNs quite inconsistent in imitating the cognition and the visual attention of human beings for a specific visual task. To mitigate the lack of a reasonable feature selection mechanism in CNNs, we exploit a novel and effective network architecture, called Tumor Attention Networks (TA-Net), for mining adaptive features by embedding Tumor Attention layers with multi-functional modules to assist the liver tumor segmentation task. In particular, each tumor attention layer can adaptively highlight valuable tumor features and suppress unrelated ones among feature maps from 3D and 2D perspectives. Moreover, an analysis of visualization results illustrates the effectiveness of our tumor attention modules and the interpretability of CNNs for liver tumor segmentation. Furthermore, we explore different arrangements of skip connections in information fusion. A deep ablation study is also conducted to illustrate the effects of different attention strategies for hepatic tumors. The results of extensive experiments demonstrate that the proposed TA-Net increases the liver tumor segmentation performance with a lower computation cost and a small parameter overhead over the state-of-the-art methods, under various evaluation metrics on clinical benchmark data. In addition, two additional medical image datasets are used to evaluate generalization capability of TA-Net, including the comparison with general semantic segmentation methods and a non-tumor segmentation task. All the program codes have been released at https://github.com/shuchao1212/TA-Net.
Published: 2021

102. The Effect of Moving Point of Contact Stimulation on Chondrocyte Gene Expression and Localization in Tissue Engineered Constructs

Author: Kaupp, J. A., Tse, M. Y., Pang, S. C., Kenworthy, G., Hetzler, M., and Waldman, S. D.
Published: 2013
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103. Fundamental solutions to Hertzian contact problems at nanoscale

Author: Ou, Z. Y. and Pang, S. D.
Published: 2013
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104. Effect of H2S and NH3 in biomass gasification producer gas on CO2 capture performance of an innovative CaO and Fe2O3 based sorbent

Author: Dashtestani, F., primary, Nusheh, M., additional, Siriwongrungson, V., additional, Hongrapipat, J., additional, Materic, V., additional, and Pang, S., additional
Published: 2021
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105. Replacement of Palm Methyl Ester to Rapeseed Methyl Ester for Tar Removal in the Nong Bua Dual Fluidized Bed Gasification Power Plant

Author: Tonpakdee, P, primary, Hongrapipat, J, additional, Siriwongrungson, V, additional, Pang, S, additional, Rauch, R, additional, Messner, M, additional, Henrich, C, additional, Pessl, P, additional, and Dichand, M, additional
Published: 2021
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106. Meteorological and Chemical Characteristics of the Photochemical Ozone Episodes Observed at Cape D’Aguilar in Hong Kong

Author: Wang, Tao, Lam, K. S., Lee, Agatha S. Y., Pang, S. W., and Tsui, W. S.
Published: 1998

107. 3D FIB-SEM reconstruction of microtubule-organelle interaction in whole primary mouse β cells

Author: Müller, A., Schmidt, D., Xu, C.S., Pang, S., D'Costa, J.V., Kretschmar, S., Münster, C., Kurth, T., Jug, F., Weigert, M., Hess, H.F., and Solimena, M.
Subjects: Technology Platforms
Abstract: Microtubules play a major role in intracellular trafficking of vesicles in endocrine cells. Detailed knowledge of microtubule organization and their relation to other cell constituents is crucial for understanding cell function. However, their role in insulin transport and secretion is under debate. Here, we use FIB-SEM to image islet β cells in their entirety with unprecedented resolution. We reconstruct mitochondria, Golgi apparati, centrioles, insulin secretory granules, and microtubules of seven β cells, and generate a comprehensive spatial map of microtubule-organelle interactions. We find that microtubules form nonradial networks that are predominantly not connected to either centrioles or endomembranes. Microtubule number and length, but not microtubule polymer density, vary with glucose stimulation. Furthermore, insulin secretory granules are enriched near the plasma membrane, where they associate with microtubules. In summary, we provide the first 3D reconstructions of complete microtubule networks in primary mammalian cells together with evidence regarding their importance for insulin secretory granule positioning and thus their supportive role in insulin secretion.
Published: 2021

108. Guidelines for the use and interpretation of assays for monitoring autophagy (4th edition)

Author: Klionsky D, Abdel-Aziz A, Abdelfatah S, Abdellatif M, Abdoli A, Abel S, Abeliovich H, Abildgaard M, Abudu Y, Acevedo-Arozena A, Adamopoulos I, Adeli K, Adolph T, Adornetto A, Aflaki E, Agam G, Agarwal A, Aggarwal B, Agnello M, Agostinis P, Agrewala J, Agrotis A, Aguilar P, Ahmad S, Ahmed Z, Ahumada-Castro U, Aits S, Aizawa S, Akkoc Y, Akoumianaki T, Akpinar H, Al-Abd A, Al-Akra L, Al-Gharaibeh A, Alaoui-Jamali M, Alberti S, Alcocer-Gomez E, Alessandri C, Ali M, Al-Bari M, Aliwaini S, Alizadeh J, Almacellas E, Almasan A, Alonso A, Alonso G, Altan-Bonnet N, Altieri D, Alves S, da Costa C, Alzaharna M, Amadio M, Amantini C, Amaral C, Ambrosio S, Amer A, Ammanathan V, An Z, Andersen S, Andrabi S, Andrade-Silva M, Andres A, Angelini S, Ann D, Anozie U, Ansari M, Antas P, Antebi A, Anton Z, Anwar T, Apetoh L, Apostolova N, Araki T, Araki Y, Arasaki K, Araujo W, Araya J, Arden C, Arevalo M, Arguelles S, Arias E, Arikkath J, Arimoto H, Ariosa A, Armstrong-James D, Arnaune-Pelloquin L, Aroca A, Arroyo D, Arsov I, Artero R, Asaro D, Aschner M, Ashrafizadeh M, Ashur-Fabian O, Atanasov A, Au A, Auberger P, Auner H, Aurelian L, Autelli R, Avagliano L, Avalos Y, Aveic S, Aveleira C, AvinWittenberg T, Aydin Y, Ayton S, Ayyadevara S, Azzopardi M, Baba M, Backer J, Backues S, Bae D, Bae O, Bae S, Baehrecke E, Baek A, Baek S, Bagetta G, Bagniewska-Zadworna A, Bai H, Bai J, Bai X, Bai Y, Bairagi N, Baksi S, Balbi T, Baldari C, Balduini W, Ballabio A, Ballester M, Balazadeh S, Balzan R, Bandopadhyay R, Banerjee S, Bao Y, Baptista M, Baracca A, Barbati C, Bargiela A, Barila D, Barlow P, Barmada S, Barreiro E, Barreto G, Bartek J, Bartel B, Bartolome A, Barve G, Basagoudanavar S, Bassham D, Jr R, Basu A, Batoko H, Batten I, Baulieu E, Baumgarner B, Bayry J, Beale R, Beau I, Beaumatin F, Bechara L, Beck G, Beers M, Begun J, Behrends C, Behrens G, Bei R, Bejarano E, Bel S, Behl C, Belaid A, Belgareh-Touze N, Bellarosa C, Belleudi F, Perez M, Bello-Morales R, Beltran J, Beltran S, Benbrook D, Bendorius M, Benitez B, Benito-Cuesta I, Bensalem J, Berchtold M, Berezowska S, Bergamaschi D, Bergami M, Bergmann A, Berliocchi L, Berlioz-Torrent C, Bernard A, Berthoux L, Besirli C, Besteiro S, Betin V, Beyaert R, Bezbradica J, Bhaskar K, Bhatia-Kissova I, Bhattacharya R, Bhattacharya S, Bhattacharyya S, Bhuiyan M, Bhutia S, Bi L, Bi X, Biden T, Bijian K, Billes V, Binart N, Bincoletto C, Birgisdottir A, Bjorkoy G, Blanco G, Blas-Garcia A, Blasiak J, Blomgran R, Blomgren K, Blum J, Boada-Romero E, Boban M, BoeszeBattaglia K, Boeuf P, Boland B, Bomont P, Bonaldo P, Bonam S, Bonfili L, Bonifacino J, Boone B, Bootman M, Bordi M, Borner C, Bornhauser B, Borthakur G, Bosch J, Bose S, Botana L, Botas J, Boulanger C, Boulton M, Bourdenx M, Bourgeois B, Bourke N, Bousquet G, Boya P, Bozhkov P, Bozi L, Bozkurt T, Brackney D, Brandts C, Braun R, Braus G, Bravo-Sagua R, Bravo-San Pedro J, Brest P, Bringer M, Briones-Herrera A, Broaddus V, Brodersen P, Alvarez E, Brodsky J, Brody S, Bronson P, Bronstein J, Brown C, Brown R, Brum P, Brumell J, Brunetti-Pierri N, Bruno D, Bryson-Richardson R, Bucci C, Buchrieser C, Bueno M, Buitrago-Molina L, Buraschi S, Buch S, Buchan J, Buckingham E, Budak H, Budini M, Bultynck G, Burada F, Burgoyne J, Buron M, Bustos V, Buttner S, Butturini E, Byrd A, Cabas I, Cabrera-Benitez S, Cadwell K, Cai J, Cai L, Cai Q, Cairo M, Calbet J, Caldwell G, Caldwell K, Call J, Calvani R, Calvo A, Barrera M, Camara N, Camonis J, Camougrand N, Campanella M, Campbell E, Campbell-Valois F, Campello S, Campesi I, Campos J, Camuzard O, Cancino J, de Almeida D, Canesi L, Caniggia I, Canonico B, Canti C, Cao B, Caraglia M, Carames B, Carchman E, Cardenal-Munoz E, Cardenas C, Cardenas L, Cardoso S, Carew J, Carle G, Carleton G, Carloni S, Carmona-Gutierrez D, Carneiro L, Carnevali O, Carosi J, Carra S, Carrier A, Carrier L, Carroll B, Carter A, Carvalho A, Casanova M, Casas C, Casas J, Cassioli C, Castillo E, Castillo K, Castillo-Lluva S, Castoldi F, Castori M, Castro A, Castro-Caldas M, Castro-Hernandez J, Castro-Obregon S, Catz S, Cavadas C, Cavaliere F, Cavallini G, Cavinato M, Cayuela M, Rica P, Cecarini V, Cecconi F, Cechowska-Pasko M, Cenci S, Ceperuelo-Mallafre V, Cerqueira J, Cerutti J, Cervia D, Cetintas V, Cetrullo S, Chae H, Chagin A, Chai C, Chakrabarti G, Chakrabarti O, Chakraborty T, Chami M, Chamilos G, Chan D, Chan E, Chan H, Chan M, Chan Y, Chandra P, Chang C, Chang H, Chang K, Chao J, Chapman T, Charlet-Berguerand N, Chatterjee S, Chaube S, Chaudhary A, Chauhan S, Chaum E, Checler F, Cheetham M, Chen C, Chen G, Chen J, Chen L, Chen M, Chen N, Chen Q, Chen R, Chen S, Chen W, Chen X, Chen Y, Chen Z, Cheng H, Cheng J, Cheng S, Cheng W, Cheng X, Cheng Y, Cheng Z, Cheong H, Cheong J, Chernyak B, Cherry S, Cheung C, Cheung K, Chevet E, Chi R, Chiang A, Chiaradonna F, Chiarelli R, Chiariello M, Chica N, Chiocca S, Chiong M, Chiou S, Chiramel A, Chiurchiu V, Cho D, Choe S, Choi A, Choi M, Choudhury K, Chow N, Chu C, Chua J, Chung H, Chung K, Chung S, Chung Y, Cianfanelli V, Ciechomska I, Cifuentes M, Cinque L, Cirak S, Cirone M, Clague M, Clarke R, Clementi E, Coccia E, Codogno P, Cohen E, Cohen M, Colasanti T, Colasuonno F, Colbert R, Colell A, Coll N, Collins M, Colombo M, Colon-Ramos D, Combaret L, Comincini S, Cominetti M, Consiglio A, Conte A, Conti F, Contu V, Cookson M, Coombs K, Coppens I, Corasaniti M, Corkery D, Cordes N, Cortese K, Costa M, Costantino S, Costelli P, Coto-Montes A, Crack P, Crespo J, Criollo A, Crippa V, Cristofani R, Csizmadia T, Cuadrado A, Cui B, Cui J, Cui Y, Culetto E, Cumino A, Cybulsky A, Czaja M, Czuczwar S, D'Adamo S, D'Amelio M, D'Arcangelo D, D'Lugos A, D'Orazi G, da Silva J, Dafsari H, Dagda R, Dagdas Y, Daglia M, Dai X, Dai Y, Dal Col J, Dalhaimer P, Dalla Valle L, Dallenga T, Dalmasso G, Damme M, Dando I, Dantuma N, Darling A, Das H, Dasarathy S, Dasari S, Dash S, Daumke O, Dauphinee A, Davies J, Davila V, Davis R, Davis T, Naidu S, De Amicis F, De Bosscher K, De Felice F, De Franceschi L, De Leonibus C, Barbosa M, De Meyer G, De Milito A, De Nunzio C, De Palma C, De Santi M, De Virgilio C, De Zio D, Debnath J, DeBosch B, Decuypere J, Deehan M, Deflorian G, DeGregori J, Dehay B, Del Rio G, Delaney J, Delbridge L, Delorme-Axford E, Delpino M, Demarchi F, Dembitz V, Demers N, Deng H, Deng Z, Dengjel J, Dent P, Denton D, DePamphilis M, Der C, Deretic V, Descoteaux A, Devis L, Devkota S, Devuyst O, Dewson G, Dharmasivam M, Dhiman R, di Bernardo D, Di Cristina M, Di Domenico F, Di Fazio P, Di Fonzo A, Di Guardo G, Di Guglielmo G, Di Leo L, Di Malta C, Di Nardo A, Di Rienzo M, Di Sano F, Diallinas G, Diao J, Diaz-Araya G, Diaz-Laviada I, Dickinson J, Diederich M, Dieude M, Dikic I, Ding S, Ding W, Dini L, Dinic M, Dinkova-Kostova A, Dionne M, Distler J, Diwan A, Dixon I, Djavaheri-Mergny M, Dobrinski I, Dobrovinskaya O, Dobrowolski R, Dobson R, Emre S, Donadelli M, Dong B, Dong X, Dong Z, Ii G, Dotsch V, Dou H, Dou J, Dowaidar M, Dridi S, Drucker L, Du A, Du C, Du G, Du H, Du L, du Toit A, Duan S, Duan X, Duarte S, Dubrovska A, Dunlop E, Dupont N, Duran R, Dwarakanath B, Dyshlovoy S, Ebrahimi-Fakhari D, Eckhart L, Edelstein C, Efferth T, Eftekharpour E, Eichinger L, Eid N, Eisenberg T, Eissa N, Eissa S, Ejarque M, El Andaloussi A, El-Hage N, El-Naggar S, Eleuteri A, El-Shafey E, Elgendy M, Eliopoulos A, Elizalde M, Elks P, Elsasser H, Elsherbiny E, Emerling B, Emre N, Eng C, Engedal N, Engelbrecht A, Engelsen A, Enserink J, Escalante R, Esclatine A, Escobar-Henriques M, Eskelinen E, Espert L, Eusebio M, Fabrias G, Fabrizi C, Facchiano A, Facchiano F, Fadeel B, Fader C, Faesen A, Fairlie W, Falco A, Falkenburger B, Fan D, Fan J, Fan Y, Fang E, Fang Y, Fanto M, Farfel-Becker T, Faure M, Fazeli G, Fedele A, Feldman A, Feng D, Feng J, Feng L, Feng Y, Feng W, Araujo T, Ferguson T, Fernandez-Checa J, FernandezVeledo S, Fernie A, Ferrante A, Ferraresi A, Ferrari M, Ferreira J, Ferro-Novick S, Figueras A, Filadi R, Filigheddu N, FilippiChiela E, Filomeni G, Fimia G, Fineschi V, Finetti F, Finkbeiner S, Fisher E, Fisher P, Flamigni F, Fliesler S, Flo T, Florance I, Florey O, Florio T, Fodor E, Follo C, Fon E, Forlino A, Fornai F, Fortini P, Fracassi A, Fraldi A, Franco B, Franco R, Franconi F, Frankel L, Friedman S, Frohlich L, Fruhbeck G, Fuentes J, Fujiki Y, Fujita N, Fujiwara Y, Fukuda M, Fulda S, Furic L, Furuya N, Fusco C, Gack M, Gaffke L, Galadari S, Galasso A, Galindo M, Kankanamalage S, Galluzzi L, Galy V, Gammoh N, Gan B, Ganley I, Gao F, Gao H, Gao M, Gao P, Gao S, Gao W, Gao X, Garcera A, Garcia M, Garcia V, Garcia-Del Portillo F, Garcia-Escudero V, GarciaGarcia A, Garcia-Macia M, Garcia-Moreno D, Garcia-Ruiz C, Garcia-Sanz P, Garg A, Gargini R, Garofalo T, Garry R, Gassen N, Gatica D, Ge L, Ge W, Geiss-Friedlander R, Gelfi C, Genschik P, Gentle I, Gerbino V, Gerhardt C, Germain K, Germain M, Gewirtz D, Afshar E, Ghavami S, Ghigo A, Ghosh M, Giamas G, Giampietri C, Giatromanolaki A, Gibson G, Gibson S, Ginet V, Giniger E, Giorgi C, Girao H, Girardin S, Giridharan M, Giuliano S, Giulivi C, Giuriato S, Giustiniani J, Gluschko A, Goder V, Goginashvili A, Golab J, Goldstone D, Golebiewska A, Gomes L, Gomez R, Gomez-Sanchez R, Gomez-Puerto M, Gomez-Sintes R, Gong Q, Goni F, Gonzalez-Gallego J, Gonzalez-Hernandez T, Gonzalez-Polo R, Gonzalez-Reyes J, Gonzalez-Rodriguez P, Goping I, Gorbatyuk M, Gorbunov N, Gorojod R, Gorski S, Goruppi S, Gotor C, Gottlieb R, Gozes I, Gozuacik D, Graef M, Graler M, Granatiero V, Grasso D, Gray J, Green D, Greenhough A, Gregory S, Griffin E, Grinstaff M, Gros F, Grose C, Gross A, Gruber F, Grumati P, Grune T, Gu X, Guan J, Guardia C, Guda K, Guerra F, Guerri C, Guha P, Guillen C, Gujar S, Gukovskaya A, Gukovsky I, Gunst J, Gunther A, Guntur A, Guo C, Guo H, Guo L, Guo M, Gupta P, Fernandez A, Gupta S, Gupta V, Gustafsson A, Gutterman D, Ranjitha H, Haapasalo A, Haber J, Hadano S, Hafren A, Haidar M, Hall B, Hallden G, Hamacher-Brady A, Hamann A, Hamasaki M, Han W, Hansen M, Hanson P, Hao Z, Harada M, Harhaji-Trajkovic L, Hariharan N, Haroon N, Harris J, Hasegawa T, Nagoor N, Haspel J, Haucke V, Hawkins W, Hay B, Haynes C, Hayrabedyan S, Hays T, He C, He Q, He R, He Y, Heakal Y, Heberle A, Hejtmancik J, Helgason G, Henkel V, Herb M, Hergovich A, Herman-Antosiewicz A, Hernandez A, Hernandez C, Hernandez-Diaz S, Hernandez-Gea V, Herpin A, Herreros J, Hervas J, Hesselson D, Hetz C, Heussler V, Higuchi Y, Hilfiker S, Hill J, Hlavacek W, Ho E, Ho I, Ho P, Ho S, Ho W, Hobbs G, Hochstrasser M, Hoet P, Hofius D, Hofman P, Hohn A, Holmberg C, Hombrebueno J, Hong C, Hong Y, Hooper L, Hoppe T, Horos R, Hoshida Y, Hsin I, Hsu H, Hu B, Hu D, Hu L, Hu M, Hu R, Hu W, Hu Y, Hu Z, Hua F, Hua J, Hua Y, Huan C, Huang C, Huang H, Huang K, Huang M, Huang R, Huang S, Huang T, Huang X, Huang Y, Huber T, Hubert V, Hubner C, Hughes S, Hughes W, Humbert M, Hummer G, Hurley J, Hussain S, Hussey P, Hutabarat M, Hwang H, Hwang S, Ieni A, Ikeda F, Imagawa Y, Imai Y, Imbriano C, Imoto M, Inman D, Inoki K, Iovanna J, Iozzo R, Ippolito G, Irazoqui J, Iribarren P, Ishaq M, Ishikawa M, Ishimwe N, Isidoro C, Ismail N, Issazadeh-Navikas S, Itakura E, Ito D, Ivankovic D, Ivanova S, Iyer A, Izquierdo J, Izumi M, Jaattela M, Jabir M, Jackson W, Jacobo-Herrera N, Jacomin A, Jacquin E, Jadiya P, Jaeschke H, Jagannath C, Jakobi A, Jakobsson J, Janji B, JansenDurr P, Jansson P, Jantsch J, Jassey A, Jean S, JeltschDavid H, Jendelova P, Jenny A, Jensen T, Jessen N, Jewell J, Ji J, Jia L, Jia R, Jiang L, Jiang Q, Jiang R, Jiang T, Jiang X, Jiang Y, Jimenez-Sanchez M, Jin E, Jin F, Jin H, Jin L, Jin M, Jin S, Jo E, Joffre C, Johansen T, Johnson G, Johnston S, Jokitalo E, Jolly M, Joosten L, Jordan J, Joseph B, Ju D, Ju J, Juarez E, Judith D, Juhasz G, Jun Y, Jung C, Jung S, Jung Y, Jungbluth H, Jungverdorben J, Just S, Kaarniranta K, Kaasik A, Kabuta T, Kaganovich D, Kahana A, Kain R, Kajimura S, Kalamvoki M, Kalia M, Kalinowski D, Kaludercic N, Kalvari I, Kaminska J, Kaminskyy V, Kanamori H, Kanasaki K, Kang C, Kang R, Kang S, Kaniyappan S, Kanki T, Kanneganti T, Kanthasamy A, Kantorow M, Kapuy O, Karamouzis M, Karim M, Karmakar P, Katare R, Kato M, Kaufmann S, Kauppinen A, Kaushal G, Kaushik S, Kawasaki K, Kazan K, Ke P, Keating D, Keber U, Kehrl J, Keller K, Keller C, Kemper J, Kenific C, Kepp O, Kermorgant S, Kern A, Ketteler R, Keulers T, Khalfin B, Khalil H, Khambu B, Khan S, Khandelwal V, Khandia R, Kho W, Khobrekar N, Khuansuwan S, Khundadze M, Killackey S, Kim D, Kim E, Kim H, Kim J, Kim K, Kim P, Kim S, Kimball S, Kimchi A, Kimmelman A, Kimura T, King M, Kinghorn K, Kinsey C, Kirkin V, Kirshenbaum L, Kiselev S, Kishi S, Kitamoto K, Kitaoka Y, Kitazato K, Kitsis R, Kittler J, Kjaerulff O, Klein P, Klopstock T, Klucken J, Knovelsrud H, Knorr R, Ko B, Ko F, Ko J, Kobayashi H, Kobayashi S, Koch I, Koch J, Koenig U, Kogel D, Koh Y, Koike M, Kohlwein S, Kocaturk N, Komatsu M, Konig J, Kono T, Kopp B, Korcsmaros T, Korkmaz G, Korolchuk V, Korsnes M, Koskela A, Kota J, Kotake Y, Kotler M, Kou Y, Koukourakis M, Koustas E, Kovacs A, Kovacs T, Koya D, Kozako T, Kraft C, Krainc D, Kramer H, Krasnodembskaya A, Kretz-Remy C, Kroemer G, Ktistakis N, Kuchitsu K, Kuenen S, Kuerschner L, Kukar T, Kumar A, Kumar D, Kumar S, Kume S, Kumsta C, Kundu C, Kundu M, Kunnumakkara A, Kurgan L, Kutateladze T, Kutlu O, Kwak S, Kwon H, Kwon T, Kwon Y, Kyrmizi I, La Spada A, Labonte P, Ladoire S, Laface I, Lafont F, Lagace D, Lahiri V, Lai Z, Laird A, Lakkaraju A, Lamark T, Lan S, Landajuela A, Lane D, Lane J, Lang C, Lange C, Langer R, Lapaquette P, Laporte J, LaRusso N, Lastres-Becker I, Lau W, Laurie G, Lavandero S, Law B, Law H, Layfield R, Le W, Le Stunff H, Leary A, Lebrun J, Leck L, Leduc-Gaudet J, Lee C, Lee D, Lee E, Lee G, Lee H, Lee J, Lee M, Lee S, Lee W, Lee Y, Lefebvre C, Legouis R, Lei Y, Leikin S, Leitinger G, Lemus L, Leng S, Lenoir O, Lenz G, Lenz H, Lenzi P, Leon Y, Leopoldino A, Leschczyk C, Leskela S, Letellier E, Leung C, 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Luningschror P, Luo H, Luo R, Luo S, Luo Z, Luparello C, Luscher B, Luu L, Lyakhovich A, Lyamzaev K, Lystad A, Lytvynchuk L, Ma A, Ma C, Ma M, Ma N, Ma Q, Ma X, Ma Y, Ma Z, MacDougald O, Macian F, MacIntosh G, MacKeigan J, Macleod K, Maday S, Madeo F, Madesh M, Madl T, Madrigal-Matute J, Maeda A, Maejima Y, Magarinos M, Mahavadi P, Maiani E, Maiese K, Maiti P, Maiuri M, Majello B, Major M, Makareeva E, Malik F, Mallilankaraman K, Malorni W, Maloyan A, Mammadova N, Man G, Manai F, Mancias J, Mandelkow E, Mandell M, Manfredi A, Manjili M, Manjithaya R, Manque P, Manshian B, Manzano R, Manzoni C, Mao K, Marchese C, Marchetti S, Marconi A, Marcucci F, Mardente S, Mareninova O, Margeta M, Mari M, Marinelli S, Marinelli O, Marino G, Mariotto S, Marshall R, Marten M, Martens S, Martin A, Martin K, Martin S, Martin-Segura A, Martin-Acebes M, Martin-Burriel I, Martin-Rincon M, Martin-Sanz P, Martina J, Martinet W, Martinez A, Martinez J, Velazquez M, Martinez-Lopez N, Martinez-Vicente M, 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Sakamaki J, Saksela K, Salazar G, Salazar-Degracia A, Salekdeh G, Saluja A, Sampaio-Marques B, Sanchez M, Sanchez-Alcazar J, Sanchez-Vera V, Sancho-Shimizu V, Sanderson J, Sandri M, Santaguida S, Santambrogio L, Santana M, Santoni G, Sanz A, Sanz P, Saran S, Sardiello M, Sargeant T, Sarin A, Sarkar C, Sarkar S, Sarrias M, Sarmah D, Sarparanta J, Sathyanarayan A, Sathyanarayanan R, Scaglione K, Scatozza F, Schaefer L, Schafer Z, Schaible U, Schapira A, Scharl M, Schatzl H, Schein C, Scheper W, Scheuring D, Schiaffino M, Schiappacassi M, Schindl R, Schlattner U, Schmidt O, Schmitt R, Schmidt S, Schmitz I, Schmukler E, Schneider A, Schneider B, Schober R, Schoijet A, Schott M, Schramm M, Schroder B, Schuh K, Schuller C, Schulze R, Schurmanns L, Schwamborn J, Schwarten M, Scialo F, Sciarretta S, Scott M, Scotto K, Scovassi A, Scrima A, Scrivo A, Sebastian D, Sebti S, Sedej S, Segatori L, Segev N, Seglen P, Seiliez I, Seki E, Selleck S, Sellke F, Perez-Lara A, Selsby J, Sendtner M, Senturk S, Seranova E, Sergi C, Serra-Moreno R, Sesaki H, Settembre C, Setty S, Sgarbi G, Sha O, Shacka J, Shah J, Shang D, Shao C, Shao F, Sharbati S, Sharkey L, Sharma D, Sharma G, Sharma K, Sharma P, Sharma S, Shen H, Shen J, Shen M, Shen W, Shen Z, Sheng R, Sheng Z, Shi J, Shi X, Shi Y, Shiba-Fukushima K, Shieh J, Shimada Y, Shimizu S, Shimozawa M, Shintani T, Shoemaker C, Shojaei S, Shoji I, Shravage B, Shridhar V, Shu C, Shu H, Shui K, Shukla A, Shutt T, Sica V, Siddiqui A, Sierra A, Sierra-Torre V, Signorelli S, Sil P, Silva B, Silva J, Silva-Pavez E, Silvente-Poirot S, Simmonds R, Simon A, Simon H, Simons M, Singh A, Singh L, Singh R, Singh S, Sinha D, Sinha R, Sinha S, Sirko A, Sirohi K, Sivridis E, Skendros P, Skirycz A, Slaninova I, Smaili S, Smertenko A, Smith M, Soenen S, Sohn E, Sok S, Solaini G, Soldati T, Soleimanpour S, Soler R, Solovchenko A, Somarelli J, Sonawane A, Song F, Song H, Song J, Song K, Song Z, Soria L, Sorice M, Soukas A, Soukup S, Sousa D, Sousa N, Spagnuolo P, Spector S, Bharath M, St Clair D, Stagni V, Staiano L, Stalnecker C, Stankov M, Stathopulos P, Stefan K, Stefan S, Stefanis L, Steffan J, Steinkasserer A, Stenmark H, Sterneckert J, Stevens C, Stoka V, Storch S, Stork B, Strappazzon F, Strohecker A, Stupack D, Su H, Su L, SuarezFontes A, Subauste C, Subbian S, Subirada P, Sudhandiran G, Sue C, Sui X, Summers C, Sun G, Sun J, Sun K, Sun M, Sun Q, Sun Y, Sun Z, Sunahara K, Sundberg E, Susztak K, Sutovsky P, Suzuki H, Sweeney G, Symons J, Sze S, Szewczyk N, Tabolacci C, Tacke F, Taegtmeyer H, Tafani M, Tagaya M, Tai H, Tait S, Takahashi Y, Takats S, Talwar P, Tam C, Tam S, Tampellini D, Tamura A, Tan C, Tan E, Tan Y, Tanaka M, Tang D, Tang J, Tang T, Tanida I, Tao Z, Taouis M, Tatenhorst L, Tavernarakis N, Taylor A, Taylor G, Taylor J, Tchetina E, Tee A, Tegeder I, Teis D, Teixeira N, Teixeira-Clerc F, Tekirdag K, Tencomnao T, Tenreiro S, Tepikin A, Testillano P, Tettamanti G, Tharaux P, Thedieck K, Thekkinghat A, Thellung S, Thinwa J, Thirumalaikumar V, Thomas S, Thomes P, Thorburn A, Thukral L, Thum T, Thumm M, Tian L, Tichy A, Till A, Timmerman V, Titorenko V, Todi S, Todorova K, Toivonen J, Tomaipitinca L, Tomar D, Tomas-Zapico C, Tong B, Tong C, Tong X, Tooze S, Torgersen M, Torii S, Torres-Lopez L, Torriglia A, Towers C, Towns R, Toyokuni S, Trajkovic V, Tramontano D, Tran Q, Travassos L, Trelford C, Tremel S, Trougakos I, Tsao B, Tschan M, Tse H, Tse T, Tsugawa H, Tsvetkov A, Tumbarello D, Tumtas Y, Tunon M, Turcotte S, Turk B, Turk V, Turner B, Tuxworth R, Tyler J, Tyutereva E, Uchiyama Y, UgunKlusek A, Uhlig H, Ulasov I, Umekawa M, Ungermann C, Unno R, Urbe S, Uribe-Carretero E, Ustun S, Uversky V, Vaccari T, Vaccaro M, Vahsen B, Vakifahmetoglu-Norberg H, Valdor R, Valente M, Valko A, Vallee R, Valverde A, Van den Berghe G, van Der Veen S, Van Kaer L, van Loosdregt J, van Wijk S, Vandenberghe W, Vanhorebeek I, Vannier-Santos M, Vannini N, Vanrell M, Vantaggiato C, Varano G, Varela-Nieto I, Varga M, Vasconcelos M, Vats S, Vavvas D, VegaNaredo I, Vega-Rubin-de-Celis S, Velasco G, Velazquez A, Vellai T, Vellenga E, Velotti F, Verdier M, Verginis P, Vergne I, Verkade P, Verma M, Verstreken P, Vervliet T, Vervoorts J, Vessoni A, Victor V, Vidal M, Vidoni C, Vieira O, Vierstra R, Vigano S, Vihinen H, Vijayan V, Vila M, Vilar M, Villalba J, Villalobo A, Villarejo-Zori B, Villarroya F, Villarroya J, Vincent O, Vindis C, Viret C, Viscomi M, Visnjic D, Vitale I, Vocadlo D, Voitsekhovskaja O, Volonte C, Volta M, Vomero M, Von Haefen C, Vooijs M, Voos W, Vucicevic L, Wade-Martins R, Waguri S, Waite K, Wakatsuki S, Walker D, Walker M, Walker S, Walter J, Wandosell F, Wang B, Wang C, Wang D, Wang F, Wang G, Wang H, Wang J, Wang K, Wang L, Wang M, Wang N, Wang P, Wang Q, Wang W, Wang X, Wang Y, Wang Z, Warnes G, Warnsmann V, Watada H, Watanabe E, Watchon M, Weaver T, Wegrzyn G, Wehman A, Wei H, Wei L, Wei T, Wei Y, Weiergraber O, Weihl C, Weindl G, Weiskirchen R, Wells A, Wen R, Wen X, Werner A, Weykopf B, Wheatley S, Whitton J, Whitworth A, Wiktorska K, Wildenberg M, Wileman T, Wilkinson S, Willbold D, Williams B, Williams R, Williamson P, Wilson R, Winner B, Winsor N, Witkin S, Wodrich H, Woehlbier U, Wollert T, Wong E, Wong J, Wong R, Wong V, Wong W, Wu A, Wu C, Wu J, Wu K, Wu M, Wu S, Wu W, Wu X, Wu Y, Xavier R, Xia H, Xia L, Xia Z, Xiang G, Xiang J, Xiang M, Xiang W, Xiao B, Xiao G, Xiao H, Xiao J, Xiao L, Xiao S, Xiao Y, Xie B, Xie C, Xie M, Xie Y, Xie Z, Xilouri M, Xu C, Xu E, Xu H, Xu J, Xu L, Xu W, Xu X, Xue Y, Yakhine-Diop S, Yamaguchi M, Yamaguchi O, Yamamoto A, Yamashina S, Yan S, Yan Z, Yanagi Y, Yang C, Yang D, Yang H, Yang J, Yang L, Yang M, Yang P, Yang Q, Yang S, Yang W, Yang X, Yang Y, Yao H, Yao S, Yao X, Yao Y, Yasui T, Yazdankhah M, Yen P, Yi C, Yin X, Yin Y, Yin Z, Ying M, Ying Z, Yip C, Yiu S, Yoo Y, Yoshida K, Yoshii S, Yoshimori T, Yousefi B, Yu B, Yu H, Yu J, Yu L, Yu M, Yu S, Yu V, Yu W, Yu Z, Yuan J, Yuan L, Yuan S, Yuan Y, Yuan Z, Yue J, Yue Z, Yun J, Yung R, Zacks D, Zaffagnini G, Zambelli V, Zanella I, Zang Q, Zanivan S, Zappavigna S, Zaragoza P, Zarbalis K, Zarebkohan A, Zarrouk A, Zeitlin S, Zeng J, Zerovnik E, Zhan L, Zhang B, Zhang D, Zhang H, Zhang J, Zhang K, Zhang L, Zhang M, Zhang P, Zhang S, Zhang W, Zhang X, Zhang Y, Zhang Z, Zhao H, Zhao L, Zhao S, Zhao T, Zhao X, Zhao Y, Zheng G, Zheng K, Zheng L, Zheng S, Zheng X, Zheng Y, Zheng Z, Zhivotovsky B, Zhong Q, Zhou A, Zhou B, Zhou C, Zhou G, Zhou H, Zhou J, Zhou K, Zhou R, Zhou X, Zhou Y, Zhou Z, Zhu B, Zhu C, Zhu G, Zhu H, Zhu W, Zhu Y, Zhuang H, Zhuang X, Zientara-Rytter K, Zimmermann C, Ziviani E, Zoladek T, Zong W, Zorov D, Zorzano A, Zou W, Zou Z, Zuryn S, Zwerschke W, Brand-Saberi B, Kenchappa C, Oshima S, Rong Y, Sluimer J, and Stallings C
Subjects: flux, macroautophagy, phagophore, stress, vacuole, Autophagosome, LC3, lysosome, neurodegeneration, cancer
Abstract: In 2008, we published the first set of guidelines for standardizing research in autophagy. Since then, this topic has received increasing attention, and many scientists have entered the field. Our knowledge base and relevant new technologies have also been expanding. Thus, it is important to formulate on a regular basis updated guidelines for monitoring autophagy in different organisms. Despite numerous reviews, there continues to be confusion regarding acceptable methods to evaluate autophagy, especially in multicellular eukaryotes. Here, we present a set of guidelines for investigators to select and interpret methods to examine autophagy and related processes, and for reviewers to provide realistic and reasonable critiques of reports that are focused on these processes. These guidelines are not meant to be a dogmatic set of rules, because the appropriateness of any assay largely depends on the question being asked and the system being used. Moreover, no individual assay is perfect for every situation, calling for the use of multiple techniques to properly monitor autophagy in each experimental setting. Finally, several core components of the autophagy machinery have been implicated in distinct autophagic processes (canonical and noncanonical autophagy), implying that genetic approaches to block autophagy should rely on targeting two or more autophagy-related genes that ideally participate in distinct steps of the pathway. Along similar lines, because multiple proteins involved in autophagy also regulate other cellular pathways including apoptosis, not all of them can be used as a specific marker for bona fide autophagic responses. Here, we critically discuss current methods of assessing autophagy and the information they can, or cannot, provide. Our ultimate goal is to encourage intellectual and technical innovation in the field.
Published: 2021

109. Influence of Solvent Temperature and Type on Naphthalene Solubility for Tar Removal in a Dual Fluidized Bed Biomass Gasification Process

Author: Tonpakdee, P., Hongrapipat, J., Siriwongrungson, V., Rauch, R., Pang, S., Thaveesri, J., Messner, M., Kuba, M., and Hofbauer, H.
Subjects: oil scrubber, Chemical engineering, tar removal, dual fluidized bed biomass gasification, ddc:660, naphthalene, food and beverages, solvent scrubbing, complex mixtures
Abstract: Tar condensation is a cause of blockage in downstream application of the gasification process. An oil scrubber is considered as an effective method for tar removal. In this research, the naphthalene solubility in different local Thai oils and water was investigated in a laboratory-scale test-rig. The solubility value was conducted at 30, 50, 70, and 80°C. Biodiesels investigated were rapeseed methyl ester (RME) and two different palm methyl esters (PME 1 and PME 2). Furthermore, vegetable oils including sunflower oil, rice bran oil, crude palm oil, and refined palm oil were examined. The results showed that higher temperature enhanced naphthalene solubility in all types of investigated oils. Biodiesel has the highest value of naphthalene solubility. All scrubbing oils have similar naphthalene solubility trends at the temperature range of 50-80°C in the order of RME > PME 1 > PME 2 > diesel > sunflower oil > refined palm oil > rice bran oil > crude palm oil. Based on these experimental investigations, PME 1 has a naphthalene solubility value similar to RME. Therefore, PME 1 has been selected to be tested as scrubbing solvent in the 1 MWel prototype dual fluidized gasifier located in Nong Bua district, Nakhon Sawan province, Thailand.
Published: 2021
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110. Characteristics of Beef Cattle Breeders in Timor Tengah Utara and Belu Regencies, East Nusa Tenggara Indonesia

Author: Simamora, Ture, Fatchiya, Anna, Sadono, Dwi, Asngari, Pang S, Simamora, Ture, Fatchiya, Anna, Sadono, Dwi, and Asngari, Pang S
Abstract: This study aims to analyze the characteristics of farmers in North Central Timor and Belu Regencies. This research is explanatory. The research method is a survey method. The research location is in the regencies of Timor Tengah Utara and Belu. Field research data collection took place from August to March 2020. The number of research samples was 462 beef cattle farmers who were members of the group. The results showed that in general the characteristics of beef cattle breeders in the two districts were relatively low. The level of characteristics of the length of beef cattle business, the level of motivation of the beef cattle business and the level of cosmopolitan of beef cattle breeders have significant differences in the two regencies. The intensity of training for beef cattle farmers needs to be increased to optimize the characteristics of beef cattle farmers.
Published: 2021

111. Evaluating coverage bias in next-generation sequencing of Escherichia coli

Author: Gunasekera, S., Abraham, S., Stegger, M., Pang, S., Wang, P., Sahibzada, S., O’Dea, M., Gunasekera, S., Abraham, S., Stegger, M., Pang, S., Wang, P., Sahibzada, S., and O’Dea, M.
Abstract: Whole-genome sequencing is essential to many facets of infectious disease research. However, technical limitations such as bias in coverage and tagmentation, and difficulties characterising genomic regions with extreme GC content have created significant obstacles in its use. Illumina has claimed that the recently released DNA Prep library preparation kit, formerly known as Nextera Flex, overcomes some of these limitations. This study aimed to assess bias in coverage, tagmentation, GC content, average fragment size distribution, and de novo assembly quality using both the Nextera XT and DNA Prep kits from Illumina. When performing whole-genome sequencing on Escherichia coli and where coverage bias is the main concern, the DNA Prep kit may provide higher quality results; though de novo assembly quality, tagmentation bias and GC content related bias are unlikely to improve. Based on these results, laboratories with existing workflows based on Nextera XT would see minor benefits in transitioning to the DNA Prep kit if they were primarily studying organisms with neutral GC content.
Published: 2021

112. Genome-wide association studies reveal candidate genes associated to bacteraemia caused by ST93-IV CA-MRSA

Author: Pang, S., Daley, D.A., Sahibzada, S., Mowlaboccus, S., Stegger, M., Coombs, G.W., Pang, S., Daley, D.A., Sahibzada, S., Mowlaboccus, S., Stegger, M., and Coombs, G.W.
Abstract: Background The global emergence of community-associated methicillin-resistant Staphylococcus aureus (CA-MRSA) has seen the dominance of specific clones in different regions around the world with the PVL-positive ST93-IV as the predominant CA-MRSA clone in Australia. In this study we applied a genome-wide association study (GWAS) approach on a collection of Australian ST93-IV MRSA genomes to screen for genetic traits that might have assisted the ongoing transmission of ST93-IV in Australia. We also compared the genomes of ST93-IV bacteraemia and non-bacteraemia isolates to search for potential virulence genes associated with bacteraemia. Results Based on single nucleotide polymorphism phylogenetics we revealed two distinct ST93-IV clades circulating concurrently in Australia. One of the clades contained isolates primarily isolated in the northern regions of Australia whilst isolates in the second clade were distributed across the country. Analyses of the ST93-IV genome plasticity over a 15-year period (2002–2017) revealed an observed gain in accessory genes amongst the clone’s population. GWAS analysis on the bacteraemia isolates identified two gene candidates that have previously been associated to this kind of infection. Conclusions Although this hypothesis was not tested here, it is possible that the emergence of a ST93-IV clade containing additional virulence genes might be related to the high prevalence of ST93-IV infections amongst the indigenous population living in the northern regions of Australia. More importantly, our data also demonstrated that GWAS can reveal candidate genes for further investigations on the pathogenesis and evolution of MRSA strains within a same lineage.
Published: 2021

113. Antimicrobial resistance in porcine enterococci in Australia and the ramifications for human health

Author: Lee, T., Jordan, D., Sahibzada, S., Abraham, R., Pang, S., Coombs, G.W., O’Dea, M., Abraham, S., Lee, T., Jordan, D., Sahibzada, S., Abraham, R., Pang, S., Coombs, G.W., O’Dea, M., and Abraham, S.
Abstract: Enterococci are ubiquitous opportunistic pathogens that have become a major public health issue globally. The increasing prevalence of antimicrobial resistance in hospital-adapted enterococci had been thought to originate from livestock. However, this association between livestock and hospital-adapted enterococci is currently unclear. This study investigates the antimicrobial susceptibilities of enterococci isolated from pig cecal samples and compares the genomic characteristics of Enterococcus faecium from pigs to those of isolates from meat chickens and from human sepsis cases. From 200 cecal samples, antimicrobial susceptibility testing was performed for E. faecium (n = 84), E. hirae (n = 36), and E. faecalis (n = 17). Whole-genome sequencing was performed for all E. faecium isolates, and the sequences were compared to those of previously studied isolates from meat chickens and human sepsis cases through bioinformatics analysis. Resistance (non-wild type) to erythromycin, gentamicin, tetracycline, ampicillin, daptomycin, virginiamycin, and quinupristin-dalfopristin was identified. More importantly, except for a single isolate harboring the vanC operon, no resistance was observed in the three species to vancomycin, teicoplanin, and linezolid, which are critically important antimicrobials used to treat enterococcal infections in humans. The E. faecium isolates from chickens were genetically distinct from human and pig isolates, which were more closely related. Human strains that were closely related to pig strains were not typical “hospital-adapted strains” as previously identified. The results of this study show that enterococci from Australian finisher pigs are not a source of resistance to critically important antimicrobials and that E. faecium from pigs is not part of the current human hospital-adapted population.
Published: 2021

114. Guidelines for the use and interpretation of assays for monitoring autophagy (4th edition)

Author: Klionsky, D, Abdel-Aziz, A, Abdelfatah, S, Abdellatif, M, Abdoli, A, Abel, S, Abeliovich, H, Abildgaard, M, Abudu, Y, Acevedo-Arozena, A, Adamopoulos, I, Adeli, K, Adolph, T, Adornetto, A, Aflaki, E, Agam, G, Agarwal, A, Aggarwal, B, Agnello, M, Agostinis, P, Agrewala, J, Agrotis, A, Aguilar, P, Ahmad, S, Ahmed, Z, Ahumada-Castro, U, Aits, S, Aizawa, S, Akkoc, Y, Akoumianaki, T, Akpinar, H, Al-Abd, A, Al-Akra, L, Al-Gharaibeh, A, Alaoui-Jamali, M, Alberti, S, Alcocer-Gómez, E, Alessandri, C, Ali, M, Alim Al-Bari, M, Aliwaini, S, Alizadeh, J, Almacellas, E, Almasan, A, Alonso, A, Alonso, G, Altan-Bonnet, N, Altieri, D, Álvarez, É, Alves, S, Alves da Costa, C, Alzaharna, M, Amadio, M, Amantini, C, Amaral, C, Ambrosio, S, Amer, A, Ammanathan, V, An, Z, Andersen, S, Andrabi, S, Andrade-Silva, M, Andres, A, Angelini, S, Ann, D, Anozie, U, Ansari, M, Antas, P, Antebi, A, Antón, Z, Anwar, T, Apetoh, L, Apostolova, N, Araki, T, Araki, Y, Arasaki, K, Araújo, W, Araya, J, Arden, C, Arévalo, M, Arguelles, S, Arias, E, Arikkath, J, Arimoto, H, Ariosa, A, Armstrong-James, D, Arnauné-Pelloquin, L, Aroca, A, Arroyo, D, Arsov, I, Artero, R, Asaro, D, Aschner, M, Ashrafizadeh, M, Ashur-Fabian, O, Atanasov, A, Au, A, Auberger, P, Auner, H, Aurelian, L, Autelli, R, Avagliano, L, Ávalos, Y, Aveic, S, Aveleira, C, Avin-Wittenberg, T, Aydin, Y, Ayton, S, Ayyadevara, S, Azzopardi, M, Baba, M, Backer, J, Backues, S, Bae, D, Bae, O, Bae, S, Baehrecke, E, Baek, A, Baek, S, Bagetta, G, Bagniewska-Zadworna, A, Bai, H, Bai, J, Bai, X, Bai, Y, Bairagi, N, Baksi, S, Balbi, T, Baldari, C, Balduini, W, Ballabio, A, Ballester, M, Balazadeh, S, Balzan, R, Bandopadhyay, R, Banerjee, S, Bánréti, Á, Bao, Y, Baptista, M, Baracca, A, Barbati, C, Bargiela, A, Barilà, D, Barlow, P, Barmada, S, Barreiro, E, Barreto, G, Bartek, J, Bartel, B, Bartolome, A, Barve, G, Basagoudanavar, S, Bassham, D, Bast, R, Basu, A, Batoko, H, Batten, I, Baulieu, E, Baumgarner, B, Bayry, J, Beale, R, Beau, I, Beaumatin, F, Bechara, L, Beck, G, Beers, M, Begun, J, Behrends, C, Behrens, G, Bei, R, Bejarano, E, Bel, S, Behl, C, Belaid, A, Belgareh-Touzé, N, Bellarosa, C, Belleudi, F, Belló Pérez, M, Bello-Morales, R, Beltran, J, Beltran, S, Benbrook, D, Bendorius, M, Benitez, B, Benito-Cuesta, I, Bensalem, J, Berchtold, M, Berezowska, S, Bergamaschi, D, Bergami, M, Bergmann, A, Berliocchi, L, Berlioz-Torrent, C, Bernard, A, Berthoux, L, Besirli, C, Besteiro, S, Betin, V, Beyaert, R, Bezbradica, J, Bhaskar, K, Bhatia-Kissova, I, Bhattacharya, R, Bhattacharya, S, Bhattacharyya, S, Bhuiyan, M, Bhutia, S, Bi, L, Bi, X, Biden, T, Bijian, K, Billes, V, Binart, N, Bincoletto, C, Birgisdottir, A, Bjorkoy, G, Blanco, G, Blas-Garcia, A, Blasiak, J, Blomgran, R, Blomgren, K, Blum, J, Boada-Romero, E, Boban, M, Boesze-Battaglia, K, Boeuf, P, Boland, B, Bomont, P, Bonaldo, P, Bonam, S, Bonfili, L, Bonifacino, J, Boone, B, Bootman, M, Bordi, M, Borner, C, Bornhauser, B, Borthakur, G, Bosch, J, Bose, S, 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Abstract: In 2008, we published the first set of guidelines for standardizing research in autophagy. Since then, this topic has received increasing attention, and many scientists have entered the field. Our knowledge base and relevant new technologies have also been expanding. Thus, it is important to formulate on a regular basis updated guidelines for monitoring autophagy in different organisms. Despite numerous reviews, there continues to be confusion regarding acceptable methods to evaluate autophagy, especially in multicellular eukaryotes. Here, we present a set of guidelines for investigators to select and interpret methods to examine autophagy and related processes, and for reviewers to provide realistic and reasonable critiques of reports that are focused on these processes. These guidelines are not meant to be a dogmatic set of rules, because the appropriateness of any assay largely depends on the question being asked and the system being used. Moreover, no individual assay is perfect for every situation, calling for the use of multiple techniques to properly monitor autophagy in each experimental setting. Finally, several core components of the autophagy machinery have been implicated in distinct autophagic processes (canonical and noncanonical autophagy), implying that genetic approaches to block autophagy should rely on targeting two or more autophagy-related genes that ideally participate in distinct steps of the pathway. Along similar lines, because multiple proteins involved in autophagy also regulate other cellular pathways including apoptosis, not all of them can be used as a specific marker for bona fide autophagic responses. Here, we critically discuss current methods of assessing autophagy and the information they can, or cannot, provide. Our ultimate goal is to encourage intellectual and technical innovation in the field.
Published: 2021

115. Influence of mean gas residence time in the bubbling fluidised bed on the performance of a 100-kW dual fluidised bed steam gasifier

Author: Saw, W. L. and Pang, S. S.
Published: 2012
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116. Analysis of ESTs generated from inner bark tissue of an Acacia auriculiformis x Acacia mangium hybrid

Author: Yong, S. Y. C., Choong, C. Y., Cheong, P. L., Pang, S. L., Nor Amalina, R., Harikrishna, J. A., Mat-Isa, M. N., Hedley, P., Milne, L., Vaillancourt, R., and Wickneswari, R.
Published: 2011
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117. Expression of parvin-β is a prognostic factor for patients with urothelial cell carcinoma of the upper urinary tract

Author: Wu, C-F, Ng, K-F, Chen, C-S, Chang, P-L, Chuang, C-K, Weng, W-H, Liao, S-K, and Pang, S-T
Published: 2010
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118. Ezrin mediates c-Myc actions in prostate cancer cell invasion

Author: Chuan, Y-C, Iglesias-Gato, D, Fernandez-Perez, L, Cedazo-Minguez, A, Pang, S-T, Norstedt, G, Pousette, Å, and Flores-Morales, A
Published: 2010
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119. Preparation and Stability Evaluation of Black Rice Anthocyanin Microcapsules

Author: PENG Wen-ting, LI Shi-peng, WANG Yong, PANG Shao-jie, SONG Ge, FANG Wei, and QI Wen-tao
Subjects: black rice anthocyanins, microcapsules, emulsification and gelation, stability, releasability, Food processing and manufacture, TP368-456, Nutrition. Foods and food supply, TX341-641
Abstract: The stability of black rice anthocyanin microcapsules at high temperature, light and pH, and their release in simulated gastroenteric fluid were studied by emulsification and gelation of black rice anthocyanin microcapsules with calcium alginate as wall material. The stability of black rice anthocyanin in microcapsules prepared under the process parameters of sodium alginate concentration of 15 g/L, water oil volume ratio of 1∶3, wall to core ratio M (C3G)∶M (NaAlg) of 2∶1, and solution pH of 4.5 was significantly higher than that of uncoated free black ones under different pH, temperature, and light conditions. The microencapsulated anthocyanin could be kept for 4 hours in simulated gastric fluid, and the wall material was slowly decomposed and released in simulated intestinal fluid. The microencapsulation technology based on emulsified gel can improve the stability of anthocyanins, and achieve their intestinal delivery and sustained release in vivo.
Published: 2024
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120. Effects of Mo element on microstructure, mechanical properties and corrosion behavior of Al0.3CrFeCoNiMox high-entropy alloys

Author: FAN Shichao, LIAO Zhenlong, LI Roushan, and PANG Shujie
Subjects: high-entropy alloys, microstructure, mechanical property, corrosion behavior, Materials of engineering and construction. Mechanics of materials, TA401-492
Abstract: In order to improve the mechanical properties and corrosion resistance of Al-Cr-Fe-Co-Ni system high-entropy alloys (HEAs), the effects of Mo on the microstructure, mechanical properties and corrosion behavior of the Al0.3CrFeCoNiMox (x=0.2, 0.4, 0.6, 0.8, molar ratio, the same below) HEAs were studied. The results show that the microstructures of the HEAs evolve from the FCC phase (x=0.2) to the FCC+σ phases (x=0.4-0.8) with the increase of Mo content. The compressive yield strength and hardness of the HEAs are enhanced from 304 MPa and 214HV (x=0.2) to 1192 MPa and 513HV (x=0.8), respectively, while the plastic strain decreases from > 50% to 5.2%, mainly due to the solution strengthening and the increase in σ phase of the alloys.Among the present alloys system, the Al0.3CrFeCoNiMo0.4 and Al0.3CrFeCoNiMo0.6 alloys show relatively high yield strength (571-776 MPa) combined with good plasticity (plastic strain of 10.3%-23.8%).In 3.5%(mass fraction) NaCl solution, the Al0.3CrFeCoNiMox HEAs are spontaneously passivated and exhibited low corrosion rates of 3.6×10－4-5.9×10－4 mm/a, and the addition of Mo effectively suppresses pitting corrosion. The corrosion resistance of the Al0.3CrFeCoNiMox HEAs could be improved with the increase of Mo content, which is related to the increment in the electrochemical impedance and the thicknesses of the passive films on the alloys. Appropriate addition of Mo to the Al-Cr-Fe-Co-Ni system HEAs can lead to a combination of good mechanical properties and corrosion resistance.
Published: 2024
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121. Clinical outcomes of bacteraemia in cellulitis of the leg

Author: Tay, E.-Y., Thirumoorthy, T., Pang, S.-M., and Lee, H.-Y.
Published: 2014
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122. Abstract No. 77 Clinical outcomes and safety of the SpineJack vertebral augmentation system: treatment of vertebral compression fractures in a United States patient population

Author: England, R., primary, Gong, A., additional, Botros, D., additional, Li, T., additional, Pang, S., additional, Manupipatpong, S., additional, Hui, F., additional, and Khan, M., additional
Published: 2021
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123. Abstract No. 139 Post-discharge complications of percutaneous biliary interventions in a large academic medical center

Author: Kolarich, A., primary, Golden, S., additional, Solomon, A., additional, Pang, S., additional, Wang, R., additional, Gowda, P., additional, Georgiades, C., additional, and Holly, B., additional
Published: 2021
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124. Abstract No. 105 Increasing consulting fee payments to interventional radiologists in the United States from industry, 2014 to 2018: analysis of the Open Payments Database

Author: Kolarich, A., primary, Pang, S., additional, Solomon, A., additional, England, R., additional, and Georgiades, C., additional
Published: 2021
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125. Abstract No. 91 Clinical outcomes of percutaneous biliary endoscopy: a 7-year single-institution experience

Author: Guan, J., primary, England, R., additional, Solomon, A., additional, Pang, S., additional, Hong, K., additional, and Singh, H., additional
Published: 2021
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126. Abstract No. 90 Single-use versus reusable endoscopes for percutaneous biliary endoscopy with lithotripsy: technical metrics, clinical outcomes, and cost comparison

Author: Pang, S., primary, England, R., additional, Solomon, A., additional, Hong, K., additional, and Singh, H., additional
Published: 2021
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127. Immunometabolic changes in resident macrophages underlie msc therapeutic effects

Author: Pang, S., primary, Bhuvan, T., additional, Zheng, D., additional, Mendonca, S., additional, D’Rozario, J., additional, Powell, D., additional, and Heng, T., additional
Published: 2021
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128. Abstract No. 195 National trends in transjugular intrahepatic portosystemic shunt placement, revision, and trainee procedure involvement

Author: Kolarich, A., primary, Ring, N., additional, Pang, S., additional, Farhan, A., additional, Covarrubias, O., additional, Ng, R., additional, Solomon, A., additional, Gullotti, D., additional, Holly, B., additional, Hong, K., additional, and Georgiades, C., additional
Published: 2021
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129. Abstract No. 198 Clinical outcomes and safety comparison of vertebroplasty, kyphoplasty, and SpineJack vertebral implant for treatment of vertebral compression fractures

Author: Pang, S., primary, Li, T., additional, England, R., additional, Gong, A., additional, Botros, D., additional, Manupipatpong, S., additional, Hui, F., additional, and Khan, M., additional
Published: 2021
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130. The role of intravenous immunoglobulin in toxic epidermal necrolysis: a retrospective analysis of 64 patients managed in a specialized centre

Author: Lee, H. Y., Lim, Y. L., Thirumoorthy, T., and Pang, S. M.
Published: 2013
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131. Cultivation of the brown alga Hizikia fusiformis (Harvey) Okamura: stress resistance of artificially raised young seedlings revealed by chlorophyll fluorescence measurement

Author: Pang, S. J., Zhang, Z. H., Zhao, H. J., and Sun, J. Z.
Published: 2007
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132. High resolution 3D imaging of liver reveals a central role for subcellular architectural organization in metabolism

Author: Xu Cs, Ana Paula Arruda, Cagampan E, Ekin Guney, Gökhan S. Hotamisligil, Gunes Parlakgul, Pang S, Yvonne C. Lee, and Hess Hf
Subjects: Chemistry, Endoplasmic reticulum, Organelle, High resolution, Context (language use), Metabolism, Compartmentalization (psychology), Intracellular, Homeostasis, Cell biology
Abstract: Cells display complex intracellular organization through compartmentalization of metabolic processes into organelles, yet neither the resolution of these structures in the native tissue context nor its functional consequences are well understood. Here, we resolved the 3-dimensional organelle structural organization in large (>2.8×105μm3) volumes of intact liver tissue (15 partial or full hepatocytes per condition) in high resolution (8nm isotropic pixel size) by utilizing enhanced Focused Ion Beam Scanning Electron Microscopy (FIB-SEM) imaging, followed by deep-learning-based image segmentation and 3D reconstruction. We also performed a comparative analysis of subcellular structures in liver tissue of lean and obese animals and found marked alterations particularly in hepatic endoplasmic reticulum (ER), which undergoes massive structural re-organization in obesity characterized by marked disorganization of stacks of ER sheets and predominance of ER tubules. Finally, we demonstrated the functional importance of these structural changes upon experimental recovery of the subcellular organization and its marked impact on cellular and systemic metabolism. We conclude that hepatic subcellular organization and ER’s architecture is highly dynamic, integrated with the metabolic state, and critical for adaptive homeostasis and tissue health.
Published: 2020

133. Lead Exposure Induced Copper Clearance Disorder of Blood-CSF Barrier

Author: Cao F, Wang L, Wu L, He B, Pang S, Zhang Y, Chen S, and Li S
Subjects: Text mining, Chemistry, business.industry, Lead exposure, chemistry.chemical_element, Pharmacology, Blood csf barrier, business, Copper
Abstract: Lead is a heavy metal commonly found in the environment with known neurotoxicity, hematological and other toxicities. It has been found that lead exposure can disturb partial metal regulatory function in the blood-CSF barrier (BCB). Copper, which play an important role in maintaining normal brain function, can accumulate in brain after lead exposure. The studies of Alzheimer's disease (AD) indicated that abnormal copper homeostasis in cerebrospinal fluid (CSF) may be involved in the pathogenesis. However, the mechanism of copper disturbance in the brain caused by lead is still unknown. This study was designed to investigate copper clearance by the BCB in central nervous system after lead exposure, with focus on copper transporter protein CTR1/ATP7A. Inductively coupled plasma mass spectrometry (ICP-MS) and principal component analysis (PCA) were used to identify the changes of heavy metal level in hippocampus and CSF after lead exposure. It was found that the change in copper level was most pronounced in the brain between 3 to 12 weeks post lead exposure. Ventriculo-cisternal (VC) perfusion in Sprague Dawley (SD) rat suggested that the ability of BCB to deliver copper from the CSF to blood was decreased after lead exposure. Confocal microscope showed evidence of the presence of excess copper in the choroid plexus cells leading to CTR1/ATP7A shifting toward the apical microvilli facing the CSF after lead exposure. Finally, transmission electron microscopy (TEM) was used for observation of the microstructure of choroid plexus showed altered mitochondrial morphology with decreased microvilli after lead exposure. Our data suggested that lead exposure may alter BCB cellular microscopic structure and its copper transport, clearance function that might further cause brain injury.
Published: 2020

134. Weakly supervised learning for image keypoint matching using graph convolutional networks

Author: Pang S, Du A, Orgun MA, and Chen H
Subjects: 08 Information and Computing Sciences, 15 Commerce, Management, Tourism and Services, 17 Psychology and Cognitive Sciences, Computer Science::Computer Vision and Pattern Recognition, ComputingMethodologies_IMAGEPROCESSINGANDCOMPUTERVISION, Artificial Intelligence & Image Processing
Abstract: © 2020 Elsevier B.V. Matching between two sets of features from a pair of images is a fundamental and critical step in most computer vision tasks. Existing attempts typically establish a set of putative correspondences with the nearest-neighbor rule in feature spaces and then try to find a subset of reliable matches. However, when there are large camera angles, repetitive structures, and illumination changes existing in the two images of the same scene, recently proposed feature matching approaches do not work well to find good correspondences, especially with a higher proportion of false-positive matches in the putative set. To address these problems, we propose a novel weakly supervised Graph Convolutional Siamese Network Matcher, called GCSNMatcher, to learn the correct correspondences for image feature matching. In particular, GCSNMatcher can directly work on unstructured keypoint sets and further exploit geometric information among sparse interest points by constructing dynamic neighborhood graph structures to enhance the ability of the feature representation of each keypoint. With channel-wised symmetric aggregation operations in our graph convolutional neural networks, the performance of our matcher does not vary under different permutations of unordered keypoint sets. Empirical studies on Yahoo's YFCC100M benchmark dataset demonstrate that our matcher can give a more robust performance for image matching tasks than those state-of-the-art methods, even when it is trained on small datasets.
Published: 2020

135. Identification of TFEB gene genetic variants in acute myocardial infarction

Author: Bo Yan, Pang S, Zhang J, Wang S, He X, and Zhang Y
Subjects: Text mining, business.industry, medicine, Genetic variants, TFEB, Identification (biology), Myocardial infarction, Computational biology, Biology, medicine.disease, business, Gene
Abstract: Background: Abnormal lipid metabolism and inflammation play critical roles in the initiation and progression of atherosclerosis and its associated complications, including coronary artery disease (CAD) and acute myocardial infarction (AMI). Autophagic-lysosomal system is involved in many physiological processes, such as lipid metabolism and inflammation. TFEB, a master regulator of the system, coordinates the expression of lysosomal hydrolases, lysosomal membrane proteins, and autophagic proteins. Altered level of TFEB gene expression and subsequent changes of autophagic-lysosomal system may be involved in the onset of CAD and AMI.Methods: In this study, the promoter of the TFEB gene was genetically and functionally analyzed in AMI patients (n=352) and ethnic-matched healthy controls (n=337).Results: A total of fifteen genetic variants, including eight single nucleotide polymorphisms (SNPs), were identified in the participants. Two novel genetic variants and four SNPs were only identified in six AMI patients, and significantly altered the transcriptional activity of the TFEB gene in cultured cells. Further electrophoretic mobility shift assay revealed that two genetic variants (g.41737144A>G and g.41736544C>T) and two SNPs [g.41737274T>C (rs533895008) and g.41736987C>T (rs760293138)] evidently affected the binding of transcription factors.Conclusions: Our findings suggested that the genetic variants in TFEB gene promoter may change TFEB levels, contributing to AMI as a low-frequency risk factor.
Published: 2020

136. CTumorGAN: a unified framework for automatic computed tomography tumor segmentation

Author: Pang S, Du A, Orgun MA, Yu Z, Wang Y, and Liu G
Subjects: Nuclear Medicine & Medical Imaging, ComputingMethodologies_PATTERNRECOGNITION, ComputingMethodologies_IMAGEPROCESSINGANDCOMPUTERVISION, 0299 Other Physical Sciences, 1103 Clinical Sciences
Abstract: PURPOSE:Unlike the normal organ segmentation task, automatic tumor segmentation is a more challenging task because of the existence of similar visual characteristics between tumors and their surroundings, especially on computed tomography (CT) images with severe low contrast resolution, as well as the diversity and individual characteristics of data acquisition procedures and devices. Consequently, most of the recently proposed methods have become increasingly difficult to be applied on a different tumor dataset with good results, and moreover, some tumor segmentors usually fail to generalize beyond those datasets and modalities used in their original evaluation experiments. METHODS:In order to alleviate some of the problems with the recently proposed methods, we propose a novel unified and end-to-end adversarial learning framework for automatic segmentation of any kinds of tumors from CT scans, called CTumorGAN, consisting of a Generator network and a Discriminator network. Specifically, the Generator attempts to generate segmentation results that are close to their corresponding golden standards, while the Discriminator aims to distinguish between generated samples and real tumor ground truths. More importantly, we deliberately design different modules to take into account the well-known obstacles, e.g., severe class imbalance, small tumor localization, and the label noise problem with poor expert annotation quality, and then use these modules to guide the CTumorGAN training process by utilizing multi-level supervision more effectively. RESULTS:We conduct a comprehensive evaluation on diverse loss functions for tumor segmentation and find that mean square error is more suitable for the CT tumor segmentation task. Furthermore, extensive experiments with multiple evaluation criteria on three well-established datasets, including lung tumor, kidney tumor, and liver tumor databases, also demonstrate that our CTumorGAN achieves stable and competitive performance compared with the state-of-the-art approaches for CT tumor segmentation. CONCLUSION:In order to overcome those key challenges arising from CT datasets and solve some of the main problems existing in the current deep learning-based methods, we propose a novel unified CTumorGAN framework, which can be effectively generalized to address any kinds of tumor datasets with superior performance.
Published: 2020

137. More accurate areal precipitation over land and sea - APOLAS Abschlussbericht

Author: Bumke, K., Clemens, M., Graßl, H., Pang, S., Peters, G., Seltmann, J.E.E, Siebenborn, T., and Wagner, Andreas
Published: 2020

138. APOLAS - more accurate areal precipitation over land and sea

Author: Bumke, Karl, Clemens, Marco, Fischer, B., Peters, G., Graßl, H., Pang, S., Seltmann, J., and Wagner, A.
Abstract: Long-term feild comparisons of four progressive precipitation sensors demonstrate their superior performance. Measurements yield differences in cloud micro physics between land and sea and between surface and higher altitutdes. A pattern recognition algorithm based on CAPPI-fields of Rostock weather radar was developed to separate convective from stratiform rain areas
Published: 2020

139. Durvalumab alone and durvalumab plus tremelimumab versus chemotherapy in previously untreated patients with unresectable, locally advanced or metastatic urothelial carcinoma (DANUBE): a randomised, open-label, multicentre, phase 3 trial

Author: Powles, T. van der Heijden, M.S. Castellano, D. Galsky, M.D. Loriot, Y. Petrylak, D.P. Ogawa, O. Park, S.H. Lee, J.-L. De Giorgi, U. Bögemann, M. Bamias, A. Eigl, B.J. Gurney, H. Mukherjee, S.D. Fradet, Y. Skoneczna, I. Tsiatas, M. Novikov, A. Suárez, C. Fay, A.P. Duran, I. Necchi, A. Wildsmith, S. He, P. Angra, N. Gupta, A.K. Levin, W. Bellmunt, J. van der Heijden, M.S. Lee, J.L. Eigl, B.J. Mukherjee, S.D. Suarez, C. Westgeest, H. Flechon, A. Ou, Y.-C. Park, I. Matveev, V. Pérez-Valderrama, B. Cheng, S. Frank, S. Anido, U. Hamzaj, A. Retz, M. Sridhar, S. Scagliotti, G.V. Voortman, J. Alekseev, B. Alyasova, A. Komyakov, B. Dumez, H. Pavic, M. Kimura, G. Mizokami, A. Osanto, S. Arranz, J.A. Piersma, D. Shin, S.J. Karyakin, O. Delgado, I. Gonzalez, J.L. Pang, S.-T. Tran, A. Lipatov, O. Su, W.-P. Flaig, T. Alva, A. Park Kyong, H. Kopyltsov, E. Almagro, E. Domenech, M. Chang, Y.-H. Sautois, B. Ravaux, A. Aravantinos, G. Georgoulias, V. Mulder, S. Kim, Y.J. Kater, F. Chevreau, C. Tagawa, S. Zalewski, P. Joly, F. Hatiboglu, G. Gianni, L. Morelli, F. Tambaro, R. Hashimoto, Y. Nosov, A. Font, A. Rodriguez-Vida, A.M. Jones, R. Vasudev, N. Srinivas, S. Zhang, J. Gil, T. Finch, D. Grimm, M.-O. Su, Y.-L. Chowdhury, S. Hocking, C. Plas, E. North, S. Jensen, N.V. Theodore, C. Imkamp, F. Peer, A. Kobayashi, T. Sakai, H. Sassa, N. Yoshimura, K. Aarts, M. Ferreira Castro, A. Topuzov, M. Rodriguez, J.F. Vazquez, F.J. Tsai, Y.-C. Crabb, S. Hussain, S. Bendell, J. Gross-Goupil, M. Gwenaelle, G. Berger, R. Statsenko, G. Evans, L. Drakaki, A. Somer, B. Davis, I. Lynam, J. Borges, G. Dettino, A. Fay, A.P. Martins, G. Zucca, L.E. Agerbaek, M. Kalofonos, H. Rosenbaum, E. Enokida, H. Kikukawa, H. Nishimura, K. Tamada, S. Uemura, M. Lopez, Y. Gietema, J. Slojewski, M. Fernandes, I. Smolin, A. Mazhar, D. Kalebasty, A.R. Carthon, B. Loidl, W. Franke, F. Girotto, G. Alimohamed, N. Macfarlane, R. Pappot, H. Niegisch, G. Mavroudis, D. Sella, A. Porta, C. Ebara, S. Nakamura, M. Obara, W. Okuno, N. Shinohara, N. Sugimoto, M. Suzuki, A. Tokuda, N. Uemura, H. Yamaguchi, A. Ramirez, F. Rozanowski, P. Wiechno, P. Keam, B. Kislov, N. Plaksin, D. Cicin, I. Kumar, S. Galsky, M.D. Petrylak, D.P. Rosales, J. Vaishampayan, U. Culine, S. Papandreou, C. Nara, T. Erman, M. Kreiger, L. Janoski, J. Rosa, D. Siqueira, M. Canil, C. Sengelov, L. Tourani, J.-M. Arai, G. Hashine, K. Kawakita, M. Nakaigawa, N. Nomi, H. Shiina, H. Suzuki, H. Yonese, J. Kuri, R. Macedo, E. Rivera, S. Villalobos Prieto, A. Polakiewicz-Gilowska, A. Zaucha, R. Lopes, F. Ponomarev, R. Pomerantz, M. Shariat, S. Luk, C. Lesniewski-Kmak, K.
Abstract: Background: Survival outcomes are poor for patients with metastatic urothelial carcinoma who receive standard, first-line, platinum-based chemotherapy. We assessed the overall survival of patients who received durvalumab (a PD-L1 inhibitor), with or without tremelimumab (a CTLA-4 inhibitor), as a first-line treatment for metastatic urothelial carcinoma. Methods: DANUBE is an open-label, randomised, controlled, phase 3 trial in patients with untreated, unresectable, locally advanced or metastatic urothelial carcinoma, conducted at 224 academic research centres, hospitals, and oncology clinics in 23 countries. Eligible patients were aged 18 years or older with an Eastern Cooperative Oncology Group performance status of 0 or 1. We randomly assigned patients (1:1:1) to receive durvalumab monotherapy (1500 mg) administered intravenously every 4 weeks; durvalumab (1500 mg) plus tremelimumab (75 mg) administered intravenously every 4 weeks for up to four doses, followed by durvalumab maintenance (1500 mg) every 4 weeks; or standard-of-care chemotherapy (gemcitabine plus cisplatin or gemcitabine plus carboplatin, depending on cisplatin eligibility) administered intravenously for up to six cycles. Randomisation was done through an interactive voice–web response system, with stratification by cisplatin eligibility, PD-L1 status, and presence or absence of liver metastases, lung metastases, or both. The coprimary endpoints were overall survival compared between the durvalumab monotherapy versus chemotherapy groups in the population of patients with high PD-L1 expression (the high PD-L1 population) and between the durvalumab plus tremelimumab versus chemotherapy groups in the intention-to-treat population (all randomly assigned patients). The study has completed enrolment and the final analysis of overall survival is reported. The trial is registered with ClinicalTrials.gov, NCT02516241, and the EU Clinical Trials Register, EudraCT number 2015-001633-24. Findings: Between Nov 24, 2015, and March 21, 2017, we randomly assigned 1032 patients to receive durvalumab (n=346), durvalumab plus tremelimumab (n=342), or chemotherapy (n=344). At data cutoff (Jan 27, 2020), median follow-up for survival was 41·2 months (IQR 37·9–43·2) for all patients. In the high PD-L1 population, median overall survival was 14·4 months (95% CI 10·4–17·3) in the durvalumab monotherapy group (n=209) versus 12·1 months (10·4–15·0) in the chemotherapy group (n=207; hazard ratio 0·89, 95% CI 0·71–1·11; p=0·30). In the intention-to-treat population, median overall survival was 15·1 months (13·1–18·0) in the durvalumab plus tremelimumab group versus 12·1 months (10·9–14·0) in the chemotherapy group (0·85, 95% CI 0·72–1·02; p=0·075). In the safety population, grade 3 or 4 treatment-related adverse events occurred in 47 (14%) of 345 patients in the durvalumab group, 93 (27%) of 340 patients in the durvalumab plus tremelimumab group, and in 188 (60%) of 313 patients in the chemotherapy group. The most common grade 3 or 4 treatment-related adverse event was increased lipase in the durvalumab group (seven [2%] of 345 patients) and in the durvalumab plus tremelimumab group (16 [5%] of 340 patients), and neutropenia in the chemotherapy group (66 [21%] of 313 patients). Serious treatment-related adverse events occurred in 30 (9%) of 345 patients in the durvalumab group, 78 (23%) of 340 patients in the durvalumab plus tremelimumab group, and 50 (16%) of 313 patients in the chemotherapy group. Deaths due to study drug toxicity were reported in two (1%) patients in the durvalumab group (acute hepatic failure and hepatitis), two (1%) patients in the durvalumab plus tremelimumab group (septic shock and pneumonitis), and one (
Published: 2020

140. Co-gasification of Cassava Rhizome and Woody Biomass in the 1 MW$_{el}$ Prototype Dual Fluidised Bed Gasifier by Gussing Renewable Energy

Author: Hongrapipat, J., Siriwongrungson, V., Messner, M., Henrich, C., Gunnarsson, S., Koch, M., Dichand, M., Rauch, R., Pang, S., and Hofbauer, H.
Subjects: Dual Fluidized Bed Gasifier, Cassava, Chemical engineering, ddc:660, Biomass, Gasification, Biomass Power Plant
Abstract: In the current research, the effect of the mixture ratio by weight of wood chips to cassava rhizome (100%:0%, 75%:25%, and 50%:50%) was investigated on the properties of the product gas produced from the Dual Fluidised Bed gasifier power plant. The DFB gasifier power plant is located in Nongbua district, Nakhon Sawan province, Thailand. The results from this study show that the use of 100% wood chips as a fuel generates high quality product gas as designed. The mixture of wood chips and cassava rhizome in the weight ratio of 75%:25% and 50%:50% also gives satisfactory results: steady operation conditions of the whole power plant process, good quality and quantity of product gas, however, the tar content in the product gas was slightly higher than that of using wood chips alone. The researchers found that cassava rhizome can be used as a fuel mixture together with wood chips in the current DFB gasifier at site to generate heat and electricity. The outcome of this research will create the use of waste cassava rhizome, enormously available around the power plant, as well as the broad application of gasification technology using various biomass feedstock types available in Thailand.
Published: 2020

141. Effect of Er doping on glass-forming ability of Co50Cr15Mo14C15B6 alloy

Author: Men, H., Pang, S. J., and Zhang, T.
Published: 2006
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142. Statistical Mechanics of Safety Factors and Size Effect in Quasibrittle Fracture

Author: Bazant, Z. P., Pang, S. -D., and Gdoutos, E. E., editor
Published: 2006
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143. Identification and characterisation of fosfomycin resistance in Escherichia coli urinary tract infection isolates from Australia

Author: Mowlaboccus, S., Daley, D., Pang, S., Gottlieb, T., Merlino, J., Nimmo, G.R., George, N., Korman, T.M., Streitberg, R., Robson, J., Peachey, G., Collignon, P., Bradbury, S., Colombi, Elena, Ramsay, Josh, Rogers, B.A., Coombs, G.W., Mowlaboccus, S., Daley, D., Pang, S., Gottlieb, T., Merlino, J., Nimmo, G.R., George, N., Korman, T.M., Streitberg, R., Robson, J., Peachey, G., Collignon, P., Bradbury, S., Colombi, Elena, Ramsay, Josh, Rogers, B.A., and Coombs, G.W.
Abstract: © 2020 Elsevier Ltd Of 1033 Escherichia coli urinary tract infection isolates collected from females >12 years of age in Australia in 2019, only 2 isolates were resistant to fosfomycin with a minimum inhibitory concentration (MIC) of >256 mg/L. Despite having different multilocus sequence types, the two isolates harboured an identical plasmid-encoded fosA4 gene. The fosA4 gene has previously been identified in a single clinical E. coli isolate cultured in Japan in 2014. Each fosfomycin-resistant isolate harboured two conjugative plasmids that possessed an array of genes conferring resistance to aminoglycosides, β-lactams, macrolides, quinolones, sulfonamides and/or trimethoprim.
Published: 2020

144. Evaluation of the Haemophilus influenzae EUCAST and CLSI disc diffusion methods to recognize aminopenicillin and amoxicillin/clavulanate resistance

Author: Gottlieb, T., Coombs, G.W., Merlino, J., Phan, T., McKew, G.L., Pang, S., Fernando, S.A., Gottlieb, T., Coombs, G.W., Merlino, J., Phan, T., McKew, G.L., Pang, S., and Fernando, S.A.
Abstract: Objectives Implementation of EUCAST susceptibility testing in an Australian hospital laboratory demonstrated higher rates of aminopenicillin and amoxicillin/clavulanate resistance in Haemophilus influenzae than previously recognized. This study aimed to better define the variability in the detection of β-lactam resistance based on EUCAST and CLSI disc diffusion (DD) methodology, by comparison with the recommended reference method, broth microdilution (BMD), and by concordance with genomic analysis. Methods A total of 100 random H. influenzae isolates were assessed for ampicillin and amoxicillin/clavulanate susceptibility by EUCAST and CLSI DD and BMD. WGS was used to analyse the ftsI gene of a subset of isolates with β-lactam resistance, other than that due to isolated β-lactamase production. Results Of the 100 isolates, 32 were categorized as either β-lactamase negative, ampicillin resistant (BLNAR) (n = 18) or β-lactamase positive, amoxicillin/clavulanate resistant (BLPACR) (n = 14) by EUCAST DD. All 18 EUCAST BLNAR isolates were genotypically confirmed by WGS. Five of 18 BLNAR isolates were concordant by CLSI DD, 12 by EUCAST BMD and 4 by CLSI BMD. Nine of 14 EUCAST BLPACR isolates were confirmed by WGS; the remaining 5 were 1 mm below the EUCAST DD breakpoint. Only one isolate was detected as BLPACR by CLSI DD. Group III mutations associated with high-level ampicillin resistance were identified in 10/32 isolates. Conclusions The EUCAST DD susceptibility method is more reliable than either CLSI or BMD for the detection of genotypically defined BLNAR resistance. However, accurate categorization of amoxicillin/clavulanate resistance remains problematic. Continuous and reproducible surveillance of resistance is needed; for this to be possible, robust susceptibility methods are required.
Published: 2020

145. New insights into the microbial degradation of d-cyphenothrin in contaminated water/soil environments

Author: Huang, Y. Lin, Z. Zhang, W. Pang, S. Bhatt, P. Rene, E. R. Kumar, A. J. Chen, S. and Huang, Y. Lin, Z. Zhang, W. Pang, S. Bhatt, P. Rene, E. R. Kumar, A. J. Chen, S.
Abstract: Persistent use of the insecticide D-cyphenothrin has resulted in heavy environmental contamination and public concern. However, microbial degradation of D-cyphenothrin has never been investigated and the mechanism remains unknown. During this study, for the first time, an efficient D-cyphenothrin-degrading bacterial strain Staphylococcus succinus HLJ-10 was identified. Response surface methodology was successfully employed by using Box-Behnken design to optimize the culture conditions. At optimized conditions, over 90% degradation of D-cyphenothrin (50 mg·L−1) was achieved in a mineral salt medium within 7 d. Kinetics analysis revealed that its half-life was reduced by 61.2 d, in comparison with the uninoculated control. Eight intermediate metabolites were detected in the biodegradation pathway of D-cyphenothrin including cis-D-cyphenothrin, trans-D-cyphenothrin, 3-phenoxybenzaldehyde, α-hydroxy-3-phenoxy-benzeneacetonitrile, trans-2,2-dimethyl-3-propenyl-cyclopropanol, 2,2-dimethyl-3-propenyl-cyclopropionic acid, trans-2,2-dimethyl-3-propenyl-cyclopropionaldehyde, and 1,2-benzenedicarboxylic acid, dipropyl ester. This is the first report about the degradation of D-cyphenothrin through cleavage of carboxylester linkage and diaryl bond. In addition to degradation of D-cyphenothrin, strain HLJ-10 effectively degraded a wide range of synthetic pyrethroids including permethrin, tetramethrin, bifenthrin, allethrin, and chlorempenthrin, which are also widely used insecticides with environmental contamination problems. Bioaugmentation of D-cyphenothrin-contaminated soils with strain HLJ-10 substantially enhanced its degradation and over 72% of D-cyphenothrin was removed from soils within 40 d. These findings unveil the biochemical basis of a highly efficient D-cyphenothrin-degrading bacterial isolate and provide potent agents for eliminating environmental residues of pyrethroids.
Published: 2020
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146. Australian Group on Antimicrobial Resistance (AGAR) Australian Staphylococcus aureus Sepsis Outcome Programme (ASSOP) Annual Report 2018

Author: Coombs, G.W., Daley, D.A., Mowlaboccus, S., Lee, Y.T., Pang, S., Coombs, G.W., Daley, D.A., Mowlaboccus, S., Lee, Y.T., and Pang, S.
Abstract: From 1 January to 31 December 2018, thirty-six institutions around Australia participated in the Australian Staphylococcus aureus Sepsis Outcome Programme (ASSOP). The aim of ASSOP 2018 was to determine the proportion of Staphylococcus aureus bacteraemia (SAB) isolates in Australia that are antimicrobial resistant, with particular emphasis on susceptibility to methicillin, and to characterise the molecular epidemiology of the methicillin-resistant isolates. A total of 2,673 S. aureus bacteraemia episodes were reported, of which 78.9% were community-onset. A total of 17.4% of S. aureus isolates were methicillin resistant. The 30-day all-cause mortality associated with methicillin-resistant SAB was 17.1% which was not significantly higher than the 13.6% mortality associated with methicillin-susceptible SAB (p = 0.1). With the exception of the β-lactams and erythromycin, antimicrobial resistance in methicillin-susceptible S. aureus was rare. However in addition to the β-lactams approximately 42% of methicillin-resistant S. aureus (MRSA) were resistant to erythromycin, 36% to ciprofloxacin and approximately 13% resistant to co-trimoxazole, tetracycline and gentamicin. When applying the EUCAST breakpoints teicoplanin resistance was detected in two S. aureus isolates. Resistance was not detected for vancomycin and linezolid. Resistance to non-beta-lactam antimicrobials was largely attributable to two healthcare-associated MRSA clones: ST22-IV [2B] (EMRSA-15) and ST239-III [3A] (Aus-2/3 EMRSA). The ST22-IV [2B] (EMRSA-15) clone is the predominant healthcare-associated clone in Australia. Seventy-eight percent of methicillin-resistant SAB episodes in 2018 were due to community-associated clones. Although polyclonal, approximately 76.3% of community-associated clones were characterised as ST93-IV [2B] (Queensland CA-MRSA), ST5-IV [2B], ST45-VT [5C2&5], ST1-IV [2B], ST30-IV [2B], ST78-IV [2B] and ST97-IV [2B]. Community-associated MRSA, in particular the ST45-VT [5C2&5] clone
Published: 2020

147. Identification and characterisation of fosfomycin resistance in Escherichia coli urinary tract infection isolates from Australia.

Author: Bradbury S., Colombi E., Coombs G.W., Rogers B.A., Ramsay J.P., Mowlaboccus S., Daley D., Pang S., Gottlieb T., Merlino J., Nimmo G.R., George N., Korman T.M., Streitberg R., Robson J., Peachey G., Collignon P., Bradbury S., Colombi E., Coombs G.W., Rogers B.A., Ramsay J.P., Mowlaboccus S., Daley D., Pang S., Gottlieb T., Merlino J., Nimmo G.R., George N., Korman T.M., Streitberg R., Robson J., Peachey G., and Collignon P.
Abstract: Of 1033 Escherichia coli urinary tract infection isolates collected from females >12 years of age in Australia in 2019, only 2 isolates were resistant to fosfomycin with a minimum inhibitory concentration (MIC) of >256 mg/L. Despite having different multilocus sequence types, the two isolates harboured an identical plasmid-encoded fosA4 gene. The fosA4 gene has previously been identified in a single clinical E. coli isolate cultured in Japan in 2014. Each fosfomycin-resistant isolate harboured two conjugative plasmids that possessed an array of genes conferring resistance to aminoglycosides, beta-lactams, macrolides, quinolones, sulfonamides and/or trimethoprim.Copyright © 2020 Elsevier Ltd
Published: 2020

148. Antimicrobial resistance and genomic insights into bovine mastitis-associated Staphylococcus aureus in Australia

Author: O’Dea, M., Abraham, R.J., Sahibzada, S., Lee, T., Jordan, D., Laird, T., Pang, S., Buller, N., Stegger, M., Coombs, G.W., Trott, D.J., Abraham, S., O’Dea, M., Abraham, R.J., Sahibzada, S., Lee, T., Jordan, D., Laird, T., Pang, S., Buller, N., Stegger, M., Coombs, G.W., Trott, D.J., and Abraham, S.
Abstract: The aim of this study was to investigate antimicrobial resistance and population structure of bovine mastitis-associated Staphylococcus aureus isolates, and compare them to human isolates obtained from Western Australian hospitals and overseas strains to determine relatedness to human isolates from a zoonotic or reverse zoonotic aspect. Antimicrobial susceptibility testing was performed on 202 S. aureus isolates of which 166 isolates underwent whole genome sequencing. Only resistance to penicillin (12.4%) and erythromycin (0.5%) was identified and of note, no resistance was demonstrated to oxacillin. Genomic characterisation identified 14 multilocus sequence types (STs), with most isolates belonging to clonal complexes 97, 705, and 1. Four distinct clades based on virulence gene composition were identified. The four clades were predominantly ST based, consisting of ST352, ST97, ST81/ST1, and ST705. Core genome comparison of the bovine and human S. aureus isolates demonstrated defined clustering by ST, with the Australian bovine S. aureus isolates clustering together according to their ST separately from human isolates. In addition, a bovine specific cluster comprising Australian ST151 and ST705 isolates, and ST151 isolates from Irish dairy cattle was clearly delineated. Examination of a detailed ST352 phylogeny provided evidence for geographical clustering of Australian strains into a distinct grouping separate from international strains. This study has identified Australian S. aureus isolates have limited genetic diversity and are genetically distinct from human and international bovine S. aureus isolates. Current first line therapies for bovine mastitis in Australian dairy cattle remain appropriate.
Published: 2020

149. Australian Group on Antimicrobial Resistance (AGAR) Australian Enterococcal Sepsis Outcome Programme (AESOP) Annual Report 2019

Author: Coombs, G.W., Daley, D.A., Mowlaboccus, S., Pang, S., Coombs, G.W., Daley, D.A., Mowlaboccus, S., and Pang, S.
Abstract: From 1 January to 31 December 2019, thirty-nine institutions around Australia participated in the Australian Enterococcal Sepsis Outcome Programme (AESOP). The aim of AESOP 2019 was to determine the proportion of enterococcal bacteraemia isolates in Australia that were antimicrobial resistant, and to characterise the molecular epidemiology of the E. faecium isolates. Of the 1,361 unique episodes of bacteraemia investigated, 95.2% were caused by either E. faecalis (51.4%) or E. faecium (43.8%). Ampicillin resistance was not detected in E. faecalis but was detected in 91.1% of E. faecium. Vancomycin non-susceptibility was detected in 0.1% of E. faecalis and in 41.8% of E. faecium. Overall, 45.4% of E. faecium harboured vanA and /or vanB genes. For the vanA / vanB positive E. faecium isolates, 49.1% harboured vanA genes only and 50.6% vanB genes; 0.3% harboured both vanA and vanB genes. The percentage of E. faecium bacteraemia isolates resistant to vancomycin in Australia is substantially higher than that seen in most European countries. E. faecium consisted of 78 multilocus sequence types (STs), of which 75.0% of isolates were classified into six major STs containing ten or more isolates. All major STs belong to clonal cluster (CC) 17, a major hospital-adapted polyclonal E. faecium cluster. The predominant STs (ST1424, ST17, ST796, ST80, ST1421, and ST78) were found across most regions of Australia. The most prevalent clone was ST1424, which was identified in all regions except the Northern Territory and Western Australia. Overall, 51.4% of isolates belonging to the six predominant STs harboured vanA or vanB genes. In 2019, AESOP has shown that enterococcal bacteraemias in Australia are frequently caused by polyclonal ampicillin-resistant high-level gentamicin-resistant vanA or vanB E. faecium which have limited treatment options.
Published: 2020

150. Investigation of a Lomentospora prolificans case cluster with whole genome sequencing

Author: Boan, P., Pang, S., Gardam, D.J., Darragh, H., Wright, M., Coombs, G.W., Boan, P., Pang, S., Gardam, D.J., Darragh, H., Wright, M., and Coombs, G.W.
Abstract: Lomentospora prolificans has caused outbreaks in immunocompromised patients. We performed whole genome sequencing (WGS) on 4 L. prolificans isolates from infections occurring during an 8-month period in the haematology unit at Hospital 1., and 2 isolates from unrelated infections at Hospital 2., showing a high number of mutational differences (>10,000 single nucleotide polymorphisms) between L. prolificans isolates from Hospital 1. Novel typing of isolates by WGS did not demonstrate a single causative strain.
Published: 2020

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