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203 results on '"Safaei, S"'

3. Monitoring currents in cold-atom circuits

Author

Safaei, S., Kwek, L. -C., Dumke, R., and Amico, L.

Subjects
Condensed Matter - Quantum Gases
Abstract

Complex circuits of cold atoms can be exploited to devise new protocols for the diagnostics of cold-atoms systems. Specifically, we study the quench dynamics of a condensate confined in a ring-shaped potential coupled with a rectilinear guide of finite size. We find that the dynamics of the atoms inside the guide is distinctive of the states with different winding numbers in the ring condensate. We also observe that the depletion of the density, localized around the tunneling region of the ring condensate, can decay in a pair of excitations experiencing a Sagnac effect. In our approach, the current states of the condensate in the ring can be read out by inspection of the rectilinear guide only, leaving the ring condensate minimally affected by the measurement. We believe that our results set the basis for definition of new quantum rotation sensors. At the same time, our scheme can be employed to explore fundamental questions involving dynamics of bosonic condensates., Comment: Figures are enlarged. Section IV is added. Journal reference added

Published
2018
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4. Decentralized Algae Removal Technologies for Lake Diefenbaker Irrigation Canals: A Review.

Author

Safaei, S. H. and Young, S.

Subjects
DISSOLVED air flotation (Water purification), IRRIGATION, IRRIGATION water, ALGAL blooms, WATER security
Abstract

Lake Diefenbaker Irrigation Canals in Canada are crucial in providing water for irrigation, preventing droughts and floods, and supporting the Saskatchewan agriculture industry and economy. Unfortunately, filamentous algal blooms occur every summer in Lake Diefenbaker Irrigation Canals. These algae are not toxic but a nuisance. They block farmers' pumps and reduce irrigation water flow rates. Currently, the Water Security Agency periodically adds the algaecide Magnacide H. to control the algal blooms, which is costly (i.e., one million dollars per year for the Lake Diefenbaker M1 Irrigation Canal only) and requires effort to dewater the canal to protect fish. Therefore, algae removal before the canal water enters farmer's pumps might be a cost-effective alternative, especially the removal of microalgae during the initial stages of growth in June of each year. This paper has summarized and evaluated algae removal technologies, considering their advantages, disadvantages, and potential solutions for addressing the challenges and limitations associated with these technologies. Five algae removal technologies were identified as promising, which are suspended air flotation (SAF), dissolved air flotation (DAF), hydrodynamic cavitation, spiral blade centrifuge, and coagulation. Among them, SAF seems the most suitable option, while DAF and hydrodynamic cavitation offer eco-friendly advantages. Further research and pilot testing are needed to determine the costeffective and feasible algae removal technology for Lake Diefenbaker Irrigation Canals. [ABSTRACT FROM AUTHOR]

Published
2024
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7. Observation of topological crystalline insulator surface states on (111)-oriented Pb$_{1-x}$Sn$_{x}$Se films

Author

Polley, C. M., Dziawa, P., Reszka, A., Szczerbakow, A., Minikayev, R., Domagala, J. Z., Safaei, S., Kacman, P., Buczko, R., Adell, J., Berntsen, M. H., Wojek, B. M., Tjernberg, O., Kowalski, B. J., Story, T., and Balasubramanian, T.

Subjects
Condensed Matter - Mesoscale and Nanoscale Physics, Condensed Matter - Materials Science
Abstract

We present angle resolved photoemission spectroscopy measurements of the surface states on in-situ grown (111) oriented films of Pb$_{1-x}$Sn$_{x}$Se, a three dimensional topological crystalline insulator. We observe surface states with Dirac-like dispersion at $\bar{\Gamma}$ and $\bar{M}$ in the surface Brillouin zone, supporting recent theoretical predictions for this family of materials. We study the parallel dispersion isotropy and Dirac-point binding energy of the surface states, and perform tight-binding calculations to support our findings. The relative simplicity of the growth technique is encouraging, and suggests a clear path for future investigations into the role of strain, vicinality and alternative surface orientations in (Pb,Sn)Se compounds., Comment: 5 pages, 4 figures

Published
2013
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8. The topological-crystalline-insulator (Pb,Sn)Te - surface states and their spin-polarization

Author

Safaei, S., Kacman, P., and Buczko, R.

Subjects
Condensed Matter - Materials Science
Abstract

Using a tight-binding approach we study theoretically the nature of surface states in Pb0.4Sn0.6Te - the newly discovered topological-crystalline-insulator. Apart from the studied before (001) surface states, two other surface families, {011} and {111}, in which the mirror symmetry of the crystal's rock-salt structure plays the same role in topological protection, are considered. Our calculations show that while in (111) surface states of (Pb,Sn)Te four single topologically protected Dirac-cones should appear, for the (110) surface states the protection is lifted for two L points. In this case, instead of the Dirac points energy gaps occur in the surface states, due to the interaction between the two L valleys. In all studied cases a chiral spin texture is obtained., Comment: 8 pages, 7 figures, submitted to Phys. Rev. B

Published
2013
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9. Spin-polarized (001) surface states of the topological crystalline insulator Pb_{0.73}Sn_{0.27}Se

Author

Wojek, B. M., Buczko, R., Safaei, S., Dziawa, P., Kowalski, B. J., Berntsen, M. H., Balasubramanian, T., Leandersson, M., Szczerbakow, A., Kacman, P., Story, T., and Tjernberg, O.

Subjects
Condensed Matter - Materials Science
Abstract

We study the nature of (001) surface states in Pb_{0.73}Sn_{0.27}Se in the newly discovered topological-crystalline-insulator (TCI) phase as well as the corresponding topologically trivial state above the band-gap-inversion temperature. Our calculations predict not only metallic surface states with a nontrivial chiral spin structure for the TCI case, but also nonmetallic (gapped) surface states with nonzero spin polarization when the system is a normal insulator. For both phases, angle- and spin-resolved photoelectron spectroscopy measurements provide conclusive evidence for the formation of these (001) surface states in Pb_{0.73}Sn_{0.27}Se, as well as for their chiral spin structure., Comment: 6 pages, 2 figures

Published
2012
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13. Technology Development for the Removal of Covid-19 Pharmaceutical Active Compounds from Water and Wastewater: A Review.

Author

Hashemi Safaei, S., Young, S., Samimi, Z., Parvizi, F., Shokrollahi, A., and Baniamer, M.

Subjects
MICROPOLLUTANTS, WATER treatment plants, WATER purification, SEWAGE disposal plants, WASTEWATER treatment, SEWAGE
Abstract

The novel coronavirus (SARS-CoV-2) outbreak has given rise to an inevitable worldwide application of a wide variety of drugs. Some of these pharmaceutical compounds pass through water and wastewater treatment processes and appear in treated water, wastewater and biosolids. These have posed potential risks to the water quality of aquatic ecosystems and public health. As a result, the failure to lessen coronavirus drugs' negative environmental impacts is the subject of criticism. Hence, there is an urgent need for water utilities to upgrade their existing water and wastewater treatment processes to increase the removal efficiencies of these emerging micropollutants from coronavirus drugs, especially endocrine disruptor compounds. This review paper will present different treatment technologies that may be used in water and wastewater treatment plants to further remove pharmaceutical micropollutants from coronavirus drugs. Also, different classes of these drugs, their occurrence, and risks to aquatic ecosystems and human health have been discussed in the current study. [ABSTRACT FROM AUTHOR]

Published
2022
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14. Large expert-curated database for benchmarking document similarity detection in biomedical literature search

Author

Brown, P, Zhou, Y, Tan, A, El-Esawi, M, Liehr, T, Blanck, O, Gladue, D, Almeida, G, Cernava, T, Sorzano, C, Yeung, A, Engel, M, Chandrasekaran, A, Muth, T, Staege, M, Daulatabad, S, Widera, D, Zhang, J, Meule, A, Honjo, K, Pourret, O, Yin, C, Zhang, Z, Cascella, M, Flegel, W, Goodyear, C, van Raaij, M, Bukowy-Bieryllo, Z, Campana, L, Kurniawan, N, Lalaouna, D, Huttner, F, Ammerman, B, Ehret, F, Cobine, P, Tan, E, Han, H, Xia, W, Mccrum, C, Dings, R, Marinello, F, Nilsson, H, Nixon, B, Voskarides, K, Yang, L, Costa, V, Bengtsson-Palme, J, Bradshaw, W, Grimm, D, Kumar, N, Martis, E, Prieto, D, Sabnis, S, Amer, S, Liew, A, Perco, P, Rahimi, F, Riva, G, Zhang, C, Devkota, H, Ogami, K, Basharat, Z, Fierz, W, Siebers, R, Tan, K, Boehme, K, Brenneisen, P, Brown, J, Dalrymple, B, Harvey, D, Ng, G, Werten, S, Bleackley, M, Dai, Z, Dhariwal, R, Gelfer, Y, Hartmann, M, Miotla, P, Tamaian, R, Govender, P, Gurney-Champion, O, Kauppila, J, Zhang, X, Echeverria, N, Subhash, S, Sallmon, H, Tofani, M, Bae, T, Bosch, O, Cuiv, P, Danchin, A, Diouf, B, Eerola, T, Evangelou, E, Filipp, F, Klump, H, Kurgan, L, Smith, S, Terrier, O, Tuttle, N, Ascher, D, Janga, S, Schulte, L, Becker, D, Browngardt, C, Bush, S, Gaullier, G, Ide, K, Meseko, C, Werner, G, Zaucha, J, Al-Farha, A, Greenwald, N, Popoola, S, Rahman, S, Xu, J, Yang, S, Hiroi, N, Alper, O, Baker, C, Bitzer, M, Chacko, G, Debrabant, B, Dixon, R, Forano, E, Gilliham, M, Kelly, S, Klempnauer, K, Lidbury, B, Lin, M, Lynch, I, Ma, W, Maibach, E, Mather, D, Nandakumar, K, Ohgami, R, Parchi, P, Tressoldi, P, Xue, Y, Armitage, C, Barraud, P, Chatzitheochari, S, Coelho, L, Diao, J, Doxey, A, Gobet, A, Hu, P, Kaiser, S, Mitchell, K, Salama, M, Shabalin, I, Song, H, Stevanovic, D, Yadollahpour, A, Zeng, E, Zinke, K, Alimba, C, Beyene, T, Cao, Z, Chan, S, Gatchell, M, Kleppe, A, Piotrowski, M, Torga, G, Woldesemayat, A, Cosacak, M, Haston, S, Ross, S, Williams, R, Wong, A, Abramowitz, M, Effiong, A, Lee, S, Abid, M, Agarabi, C, Alaux, C, Albrecht, D, Atkins, G, Beck, C, Bonvin, A, Bourke, E, Brand, T, Braun, R, Bull, J, Cardoso, P, Carter, D, Delahay, R, Ducommun, B, Duijf, P, Epp, T, Eskelinen, E, Fallah, M, Farber, D, Fernandez-Triana, J, Feyerabend, F, Florio, T, Friebe, M, Furuta, S, Gabrielsen, M, Gruber, J, Grybos, M, Han, Q, Heinrich, M, Helantera, H, Huber, M, Jeltsch, A, Jiang, F, Josse, C, Jurman, G, Kamiya, H, de Keersmaecker, K, Kristiansson, E, de Leeuw, F, Li, J, Liang, S, Lopez-Escamez, J, Lopez-Ruiz, F, Marchbank, K, Marschalek, R, Martin, C, Miele, A, Montagutelli, X, Morcillo, E, Nicoletti, R, Niehof, M, O'Toole, R, Ohtomo, T, Oster, H, Palma, J, Paterson, R, Peifer, M, Portilla, M, Portillo, M, Pritchard, A, Pusch, S, Raghava, G, Roberts, N, Ross, K, Schuele, B, Sergeant, K, Shen, J, Stella, A, Sukocheva, O, Uversky, V, Vanneste, S, Villet, M, Viveiros, M, Vorholt, J, Weinstock, C, Yamato, M, Zabetakis, I, Zhao, X, Ziegler, A, Aizat, W, Atlas, L, Bridges, K, Chakraborty, S, Deschodt, M, Domingues, H, Esfahlani, S, Falk, S, Guisado, J, Kane, N, Kueberuwa, G, Lau, C, Liang, D, Liu, E, Luu, A, Ma, C, Ma, L, Moyer, R, Norris, A, Panthee, S, Parsons, J, Peng, Y, Pinto, I, Reschke, C, Sillanpaa, E, Stewart, C, Uhle, F, Yang, H, Zhou, K, Zhu, S, Ashry, M, Bergsland, N, Berthold, M, Chen, C, Colella, V, Cuypers, M, Eskew, E, Fan, X, Gajda, M, Gonzalezlez-Prendes, R, Goodin, A, Graham, E, Groen, E, Gutierrez-Sacristan, A, Habes, M, Heffler, E, Higginbottom, D, Janzen, T, Jayaraman, J, Jibb, L, Jongen, S, Kinyanjui, T, Koleva-Kolarova, R, Li, Z, Liu, Y, Lund, B, Lussier, A, Mier, P, Moore, M, Nagler, K, Orme, M, Pearson, J, Prajapati, A, Saito, Y, Troder, S, Uchendu, F, Verloh, N, Voutchkova, D, Abu-Zaid, A, Bakkach, J, Baumert, P, Dono, M, Hanson, J, Herbelet, S, Hobbs, E, Kulkarni, A, Liu, S, Loft, N, Reddan, T, Senghore, T, Vindin, H, Xu, H, Bannon, R, Chen, B, Cheung, J, Cooper, J, Esnakula, A, Feghali, K, Ghelardi, E, Gnasso, A, Horbar, J, Lai, H, Ma, R, Pan, Z, Peres, M, Pranata, R, Seow, E, Sydes, M, Testoni, I, Westermair, A, Yang, Y, Afnan, M, Albiol, J, Albuquerque, L, Amir, S, Amiya, E, Amorim, R, An, Q, Andersen, S, Aplin, J, Argyropoulos, C, Asmann, Y, Assaeed, A, Atanasov, A, Atchison, D, Avery, S, Avillach, P, Baade, P, Backman, L, Badie, C, Baldi, A, Ball, E, Bardot, O, Barnett, A, Basner, M, Batra, J, Bazanova, O, Beale, A, Beddoe, T, Bell, M, Berezikov, E, Berners-Price, S, Bernhardt, P, Berry, E, Bessa, T, Billington, C, Birch, J, Blakely, R, Blaskovich, M, Blum, R, Boelaert, M, Bogdanos, D, Bosch, C, Bourgoin, T, Bouvard, D, Boykin, L, Bradley, G, Braun, D, Brownlie, J, Bruhl, A, Burt, A, Butler, L, Byrareddy, S, Byrne, H, Cabantous, S, Calatayud, S, Candal, E, Carlson, K, Casillas, S, Castelvetro, V, Caswell, P, Cavalli, G, Cerovsky, V, Chagoyen, M, Chen, D, Chen, H, Chen, J, Chen, Y, Cheng, C, Cheng, J, Chinapaw, M, Chinopoulos, C, Cho, W, Chong, L, Chowdhury, D, Chwalibog, A, Ciresi, A, Cockcroft, S, Conesa, A, Cook, P, Cooper, D, Coqueret, O, Corea, E, Costa, A, Costa, E, Coupland, C, Crawford, S, Cruz, A, Cui, H, Cui, Q, Culver, D, D'Angiulli, A, Dahms, T, Daigle, F, Dalgleish, R, Danielsen, H, Darras, S, Davidson, S, Day, D, Degirmenci, V, Demaison, L, Devriendt, K, Ding, J, Dogan, Y, Dong, X, Donner, C, Dressick, W, Drevon, C, Duan, H, Ducho, C, Dumaz, N, Dwarakanath, B, Ebell, M, Eisenhardt, S, Elkum, N, Engel, N, Erickson, T, Fairhead, M, Faville, M, Fejzo, M, Festa, F, Feteira, A, Flood-Page, P, Forsayeth, J, Fox, S, Franks, S, Frentiu, F, Frilander, M, Fu, X, Fujita, S, Galea, I, Galluzzi, L, Gani, F, Ganpule, A, Garcia-Alix, A, Gedye, K, Giordano, M, Giunta, C, Gleeson, P, Goarant, C, Gong, H, Gora, D, Gough, M, Goyal, R, Graham, K, Grande-Perez, A, Graves, P, Greidanus, H, Grice, D, Grunau, C, Gumulya, Y, Guo, Y, Gurevich, V, Gusev, O, Hacker, E, Hage, S, Hagen, G, Hahn, S, Haller, D, Hammerschmidt, S, Han, J, Han, R, Handfield, M, Hapuarachchi, H, Harder, T, Hardingham, J, Heck, M, Heers, M, Hew, K, Higuchi, Y, Hilaire, C, Hilton, R, Hodzic, E, Hone, A, Hongoh, Y, Hu, G, Huber, H, Hueso, L, Huirne, J, Hurt, L, Idborg, H, Ikeo, K, Ingley, E, Jakeman, P, Jensen, A, Jia, H, Jia, S, Jiang, J, Jiang, X, Jin, Y, Jo, D, Johnson, A, Johnston, M, Jonscher, K, Jorens, P, Jorgensen, J, Joubert, J, Jung, S, Junior, A, Kahan, T, Kamboj, S, Kang, Y, Karamanos, Y, Karp, N, Kelly, R, Kenna, R, Kennedy, J, Kersten, B, Khalaf, R, Khalid, J, Khatlani, T, Khider, T, Kijanka, G, King, S, Kluz, T, Knox, P, Kobayashi, T, Koch, K, Kohonen-Corish, M, Kong, X, Konkle-Parker, D, Korpela, K, Kostrikis, L, Kraiczy, P, Kratz, H, Krause, G, Krebsbach, P, Kristensen, S, Kumari, P, Kunimatsu, A, Kurdak, H, Kwon, Y, Lachat, C, Lagisz, M, Laky, B, Lammerding, J, Lange, M, Larrosa, M, Laslett, A, Laverman, G, Leclair, E, Lee, K, Lee, M, Li, G, Lieb, K, Lim, Y, Lindsey, M, Line, P, Liu, D, Liu, F, Liu, H, Lloyd, V, Lo, T, Locci, E, Loidl, J, Lorenzen, J, Lorkowski, S, Lovell, N, Lu, H, Lu, W, Lu, Z, Luengo, G, Lundh, L, Lysy, P, Mabb, A, Mack, H, Mackey, D, Mahdavi, S, Maher, P, Maher, T, Maity, S, Malgrange, B, Mamoulakis, C, Mangoni, A, Manke, T, Manstead, A, Mantalaris, A, Marsal, J, Marschall, H, Martin, F, Martinez-Raga, J, Martinez-Salas, E, Mathieu, D, Matsui, Y, Maza, E, Mccutcheon, J, Mckay, G, Mcmillan, B, Mcmillan, N, Meads, C, Medina, L, Merrick, B, Metzger, D, Meunier, F, Michaelis, M, Micheau, O, Mihara, H, Mintz, E, Mizukami, T, Moalic, Y, Mohapatra, D, Monteiro, A, Montes, M, Moran, J, Morozov, S, Mort, M, Murai, N, Murphy, D, Murphy, S, Murray, S, Naganawa, S, Nammi, S, Nasios, G, Natoli, R, Nguyen, F, Nicol, C, van Nieuwerburgh, F, Nilsen, E, Nobile, C, O'Mahony, M, Ohlsson, S, Olatunbosun, O, Olofsson, P, Ortiz, A, Ostrikov, K, Otto, S, Outeiro, T, Ouyang, S, Paganoni, S, Page, A, Palm, C, Paradies, Y, Parsons, M, Parsons, N, Pascal, P, Paul, E, Peckham, M, Pedemonte, N, Pellizzon, M, Petrelli, M, Pichugin, A, Pinto, C, Plevris, J, Pollesello, P, Polz, M, Ponti, G, Porcelli, P, Prince, M, Quinn, G, Quinn, T, Ramula, S, Rappsilber, J, Rehfeldt, F, Reiling, J, Remacle, C, Rezaei, M, Riddick, E, Ritter, U, Roach, N, Roberts, D, Robles, G, Rodrigues, T, Rodriguez, C, Roislien, J, Roobol, M, Rowe, A, Ruepp, A, van Ruitenbeek, J, Rust, P, Saad, S, Sack, G, Santos, M, Saudemont, A, Sava, G, Schrading, S, Schramm, A, Schreiber, M, Schuler, S, Schymkowitz, J, Sczyrba, A, Seib, K, Shi, H, Shimada, T, Shin, J, Shortt, C, Silveyra, P, Skinner, D, Small, I, Smeets, P, So, P, Solano, F, Sonenshine, D, Song, J, Southall, T, Speakman, J, Srinivasan, M, Stabile, L, Stasiak, A, Steadman, K, Stein, N, Stephens, A, Stewart, D, Stine, K, Storlazzi, C, Stoynova, N, Strzalka, W, Suarez, O, Sultana, T, Sumant, A, Summers, M, Sun, G, Tacon, P, Tanaka, K, Tang, H, Tanino, Y, Targett-Adams, P, Tayebi, M, Tayyem, R, Tebbe, C, Telfer, E, Tempel, W, Teodorczyk-Injeyan, J, Thijs, G, Thorne, S, Thrift, A, Tiffon, C, Tinnefeld, P, Tjahjono, D, Tolle, F, Toth, E, Del Tredici, A, Tsapas, A, Tsirigotis, K, Turak, A, Tzotzos, G, Udo, E, Utsumi, T, Vaidyanathan, S, Vaillant, M, Valsesia, A, Vandenbroucke, R, Veiga, F, Vendrell, M, Vesk, P, Vickers, P, Victor, V, Villemur, R, Vohl, M, Voolstra, C, Vuillemin, A, Wakelin, S, Waldron, L, Walsh, L, Wang, A, Wang, F, Wang, Y, Watanabe, Y, Weigert, A, Wen, J, Wham, C, White, E, Wiener, J, Wilharm, G, Wilkinson, S, Willmann, R, Wilson, C, Wirth, B, Wojan, T, Wolff, M, Wong, B, Wu, T, Wuerbel, H, Xiao, X, Xu, D, Xue, B, Yalcin, S, Yan, H, Yang, E, Yang, W, Ye, Y, Ye, Z, Yli-Kauhaluoma, J, Yoneyama, H, Yu, Y, Yuan, G, Yuh, C, Zaccolo, M, Zeng, C, Zevnik, B, Zhang, L, Zhang, Y, Zhao, Y, Zhou, M, Zuberbier, T, Aanei, C, Ahmad, R, Al-Lawama, M, Alanio, A, Allardyce, J, Alonso-Caneiro, D, Atack, J, Baier, D, Bansal, A, Benezeth, Y, Berbesque, C, Berrevoet, F, Biedermann, P, Bijleveld, E, Bittner, F, Blombach, F, van den Bos, W, Boudreau, S, Bramoweth, A, Braubach, O, Cai, Y, Campbell, M, Catry, T, Chen, X, Cheng, S, Chung, H, Chavez-Fumagalli, M, Conway, A, Costa, B, Cyr, N, Dean, L, Denzel, M, Dlamini, S, Dudley, K, Dufies, M, Ecke, T, Eckweiler, D, Eixarch, E, El-Adawy, H, Emmrich, J, Eustace, A, Falter-Wagner, C, Farhoudi, R, Fuss, J, Gao, J, Gill, M, Gloyn, L, Goggs, R, Govinden, U, Greene, G, Greiff, V, Grundle, D, Gruneberg, P, Gumede, N, Haore, G, Harrison, P, Hoenner, X, Hojsgaard, D, Hori, H, Ikonomopoulou, M, Jeurissen, P, Johnson, D, Kabra, D, Kamagata, K, Karmakar, C, Kasian, O, Kaye, L, Khan, M, Kim, Y, Kish, J, Kobold, S, Kohanbash, G, Kohls, G, Kugler, J, Kumar, G, Lacy-Colson, J, Latif, A, Lauschke, V, Li, B, Lim, C, Liu, X, Lu, J, Lu, Q, Mahavadi, P, Marzocchi, U, Mcgarrigle, C, van Meerten, T, Min, R, Moal, I, Molari, M, Molleman, L, Mondal, S, van de Mortel, T, Moss, W, Moultos, O, Mukherjee, M, Nakayama, K, Narayan, E, Navaratnarajah, Neumann, P, Nie, J, Nie, Y, Niemeyer, F, Nolan, F, Nwaiwu, O, Oldenmenger, W, Olumayede, E, Ou, J, Pallebage-Gamarallage, M, Pearce, S, Pelkonen, T, Pelleri, M, Pereira, J, 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A., van Meerten T., Min R., Moal I., Molari M., Molleman L., Mondal S. R., van de Mortel T., Moss W. N., Moultos O. A., Mukherjee M., Nakayama K., Narayan E., Neumann P. -A., Nie J., Nie Y., Niemeyer F., Nolan F., Nwaiwu O., Oldenmenger W. H., Olumayede E., Ou J., Pallebage-Gamarallage M., Pearce S. P., Pelkonen T., Pelleri M. C., Pereira J. L., Pheko M., Pinto K. A., Piovesan A., Pluess M., Podolsky I. M., Prescott J., Qi D., Qi X., Raikou V. D., Ranft A., Rhodes J., Rotge J. -Y., Rowe A. D., Saggar M., Schuon R. A., Shahid S., Shalchyan V., Shirvalkar P., Shiryayev O., Singh J., Smout M. J., Soares A., Song C., Srivastava K., Srivastava R. K., Sun J., Szabo A., Szymanski W., Tai C. N. P., Takeuchi H., Tanadini-Lang S., Tang F., Tao W., Theron G., Tian C. F., Tian Y. -S., Tuttle L. 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Abstract

Document recommendation systems for locating relevant literature have mostly relied on methods developed a decade ago. This is largely due to the lack of a large offline gold-standard benchmark of relevant documents that cover a variety of research fields such that newly developed literature search techniques can be compared, improved and translated into practice. To overcome this bottleneck, we have established the RElevant LIterature SearcH consortium consisting of more than 1500 scientists from 84 countries, who have collectively annotated the relevance of over 180 000 PubMed-listed articles with regard to their respective seed (input) article/s. The majority of annotations were contributed by highly experienced, original authors of the seed articles. The collected data cover 76% of all unique PubMed Medical Subject Headings descriptors. No systematic biases were observed across different experience levels, research fields or time spent on annotations. More importantly, annotations of the same document pairs contributed by different scientists were highly concordant. We further show that the three representative baseline methods used to generate recommended articles for evaluation (Okapi Best Matching 25, Term Frequency-Inverse Document Frequency and PubMed Related Articles) had similar overall performances. Additionally, we found that these methods each tend to produce distinct collections of recommended articles, suggesting that a hybrid method may be required to completely capture all relevant articles. The established database server located at https://relishdb.ict.griffith.edu.au is freely available for the downloading of annotation data and the blind testing of new methods. We expect that this benchmark will be useful for stimulating the development of new powerful techniques for title and title/abstract-based search engines for relevant articles in biomedical science.

Published
2019

15. The Comparison Of The Efficacy Of Cefriaxon Monotherapy With Ceftazidim Plus Amikacin As Initial Empiric Antibiotic Therapy In Febrile Neutropenic Patients Emam Hospital (2000-2001)

Author

Mohammadi S M, Sharifian R, ghasemi D, Safaei S R, Toogeh G R, and Emami A H

Subjects
Empiric treatment, Medicine (General), R5-920
Abstract

Neutropenic state with fever is exactly regarded as a medical emergency, with high mortality and morbidity rate, unless treated urgently and correctly. Every attempt should be made to find and establish the offending organism, but postponing treatment until obtaining culture results is not advised. Controversy exist on which antibiotic regimen to be used while waiting for culture results. Many antibiotic regiments both monotherapy or combination treatments have been used with varying result. The objective of this study is to compare the efficacy of cefriaxon monothenapy with ceftazidim. Plus Amikacin as initial empiric antibiotic therapy in febrile neutropenic patients."nMaterials and Methods: We performed a randomized, single blind clinical trial in 57 adult (age>12 years), neutropenic (PMN38.5c) in Hematology ward, Imam khomeini hospital. After careful physical exam and obtaining blood & urine samples for culture, the patients were randomized to each of the two arms: Cefriaxon 2 grams daily, intravenously (arm A) and; Ceftazidim 2g thrice daily plus amikacin 500 mg twice daily (arm B). Patients with shock, organ failure or previous antibiotic intake (during 48 hour before fever) were excluded. If needed, dose adjustment of drugs were allowed. Effervescence in 3 days following initiation of treatment, lasting 48 hours or more, were regarded as effective (positive result)."nResults: During a twelve months period of study, a total of 57 patients (17female, 40male) were included. They were randomly selected to each arm of empirical treatment. Of 28 pts in arm A, 19 (67 percent), the treatment was effective, compared to 15 of 29 (51.7 percent) in groups B. The duration of fever after initiation of treatment was 37.9 ± 17 hours in arm A and 40. 1 ± 20 h in arm B. Blood and / or urine culture was equally positive in two arms (25 percent in arm A and 27.6 percent in arm B)."nConclusion: Cefriaxon monotherapy is at least equally effective in low risk neutropenic patients with fever compared to combination of ceftazidim plus amikacin at a decreased cost and probably (expected) less adverse side effects in our patients."n

Published
2003

17. Hierarchical semantic composition of biosimulation models using bond graphs

Author

Beard, DA, Shahidi, N, Pan, M, Safaei, S, Tran, K, Crampin, EJ, Nickerson, DP, Beard, DA, Shahidi, N, Pan, M, Safaei, S, Tran, K, Crampin, EJ, and Nickerson, DP

Abstract

Simulating complex biological and physiological systems and predicting their behaviours under different conditions remains challenging. Breaking systems into smaller and more manageable modules can address this challenge, assisting both model development and simulation. Nevertheless, existing computational models in biology and physiology are often not modular and therefore difficult to assemble into larger models. Even when this is possible, the resulting model may not be useful due to inconsistencies either with the laws of physics or the physiological behaviour of the system. Here, we propose a general methodology for composing models, combining the energy-based bond graph approach with semantics-based annotations. This approach improves model composition and ensures that a composite model is physically plausible. As an example, we demonstrate this approach to automated model composition using a model of human arterial circulation. The major benefit is that modellers can spend more time on understanding the behaviour of complex biological and physiological systems and less time wrangling with model composition.

Published
2021

18. Poster presentation

Author

Duparc, F., Noyon, M., Ozeel, J., Gerometta, A., Michot, C., Tadjalli, M., Moslemy, H., Safaei, S., Heiman, A., Wish-Baratz, S., Melnikov, T., Smoliar, E., Hakan, A. Y., Yucel, F., Kachlík, D. K., Pešl, M. P., Báča, V. B., Stingl, J. S., Kachlík, K. D., Čech, Č. P., Báča, B. V., Mompeó, B., Marrero-Rodriguez, A., Zeybek, A., Sağlam, B., Çikler, E., Çetinel, Ş., Ercan, F., Şener, G., Kawawa, Y., Kohda, E., Tatsuya, T., Moroi, M., Kunimasa, T., Nagamoto, M., Terada, H., Labuschagne, B. C. J., van der Krieke, T. J., Hoogland, P. V., Muller, C. J. F., Lyners, R., Vorster, W., Matusz, P., Zaboi, D. E., Xu, S. C., Tu, L. L., Wang, Q., Zhang, M., Han, H., Tao, W., Jiao, Y., Pang, G., Aydin, M. E., Kopuz, C., Demir, M. T., Yildirim, M., Kale, A., Ince, Y., Khamanarong, K., Jeeravipoolvarn, P., Chaijaroonkhanarak, W., Gawgleun, W., Fujino, T., Uz, A., Apaydin, N., Bozkurt, M., Elhan, A., Sheibani, M. T., Adibmoradi, M., Jahovic, N., Alican, I., Erkanli, G., Arbak, S., Karakaş, S., Taşer, F., Güneş, H., Yildiz, Y., Yazici, Y., Aland, R. C., Kippers, V., Song, W. C., Park, S. H., Shin, C., Koh, K. S., Russo, G., Pomara, F., Veca, M., Cacciola, F., Martorana, U., Gravante, G., Tobenas-Dujardin, A. C., Laquerrière, A., Muller, J. M., Fréger, P., López-Serna, N., Álvarez-González, E., Torres-Gonzàlez, V., Laredo-López, G., Esparza-González, G. V., Álvarez-Cantú, R., Garza-González, C. E., Guzmán-López, S., Aldur, M. M., Çelik, H. H., Sürücü, S., Denk, C., Yang, H. J., Gil, Y. C., Kim, T. J., Lee, H. Y., Lee, W. J., Lee, H., Hu, K. S., Akita, K., Kim, H. J., Jung, H. S., Gurbuz, H., Balik, S., Wavreille, G., Chantelot, C., Demondion, X., Fontaine, C., Çavdar, S., Yalin, A., Saka, E., Özdoǧmuş, Ö., Çakmak, Ö., Elevli, L., Saǧlam, B., Coquerel-Beghin, D., Milliez, P. Y., Lemierre, G., Oktem, G., Vatansever, S., Ayla, S., Uysal, A., Aktas, S., Karabulut, B., Bilir, A., Uslu, S., Aktug, H., Yurtseven, M. E., Celik, H. H., Tatar, I., Surucu, S., Karaduman, A., Tunali, S., Neuhüttler, S., Kröll, A., Moriggl, B., Brenner, E., Loukas, M., Arora, S., Louis, Jr, R. G., Fogg, Q. A., Wagner, T., Tedman, R. A., Ching, H. Y., Eze, N., Bottrill, I. D., Blyth, P., Faull, R. L. M., Vuletic, J., Elizondo-Omaña, R. E., Rodríguez, M. A. García, López, S. Guzmán, de la Garza, O. Tijerina, Liu, Y. H., Zhang, K. L., Lu, D. H., Kwak, H. H., Park, H. D., Youn, K. H., Kang, H. J., Kang, H. C., Han, S. H., Ikiz, Z. A. Aktan, Ucerler, H., Uygur, M., Kutoglu, T., Dina, C., Iliescu, D., Şapte, E., Bordei, P., Lekšan, I., Marcikić, M., Radić, R., Nikolić, V., Kurbel, S., Selthofer, R., Báča, V., Doubková, A., Kachlík, D., Stingl, J., Džupa, V., Grill, R., Nam, Y. S., Paik, D. J., Shin, C. S., Kim, S. J., Kim, D. G., Jin, C. S., Kim, D. I., Lee, U. Y., Kwak, D. S., Lee, J. H., Han, C. H., Carpino, A., Rago, V., Romeo, F., Carani, C., Andò, S., Arican, R. Y., Coskun, N., Sarikcioglu, L., Sindel, M., Arican, Y. R., Altun, U., Ozsoy, U., Oguz, N., Yildirim, F. B., Nakajima, K., Duygulu, E., Aydin, H., Gurer, E. Inanc, Ozkan, O., Tuzuner, S., Özsoy, U., Çubukçu, S., Demirel, B. M., Akkin, S. M., Marur, T., Weiglein, A. H., Maghiar, T. T., Borza, C., Bumbu, A., Bumbu, G., Polle, G., Auquit-Auckbur, I., Dujardin, F., Biga, N., Olivier, E., Defives, T., Ghazali, S., Anastasi, G., Rizzo, G., Favaloro, A., Miliardi, D., Giacobbe, O., Santoro, G., Trimarchi, F., Cutroneo, G., Govsa, F., Bilge, O., Ozer, M. A., Erdogmus, S., Grizzi, F., Pelillo, F., Mori, M., Franceschini, B., Portinaro, N., Godlewski, G., Viala, M., Rouanet, J. P., Prat, D., Rahmé, Z. S., Prudhomme, M., Eken, E., Kwiatkowska, M., Liegmann, J., Chmielewski, R., Grimmond, J., Kwiatkowski, M., Schintler, M. V., Windisch, G., Wittgruber, G., Prandl, E. C., Prodinger, P., Anderhuber, F., Scharnagl, E., Gerbino, A., Buscemi, M., Leone, A., Mandracchia, R., Peri, G., Lipari, D., Farina-Lipari, E., Valentino, B., D’Arpa, S., Cordova, A., Bucchieri, F., Ribbene, A., David, S., Palma, A., Davies, D. E., Haitchi, H. M., Holgate, S. T., La Rocca, G., Anzalone, R., Campanella, C., Rappa, F., Bartolotta, T., Cappello, F., Bellafiore, M., Sivverini, G., Palumbo, D., Macaluso, F., Farina, F., Di Felice, V., Montalbano, A., Ardizzone, N., Marcianò, V., Zummo, G., Tanyeli, E., Üzel, M., Carini, F., Scardina, G. A., Varia, P., Valenza, V., Messina, P., Meiring, J. H., Schumann, C., Whitmore, I., Greyling, L. M., Hamel, O., Hamel, A., Robert, R., Garçon, M., Lagier, S., Blin, Y., Armstrong, O., Rogez, J. M., Le Borgne, J., Ifrim, C. Feng, Maghiar, A., Botea, M., Ifrim, M., Pop, O., Sandor, M., Behdadipour, Z., Saberi, M., Esfandiary, E., Gentile, C., Marconi, A., Livrea, M. A., Uzan, G., D’Alessio, P., Ridola, C. G., Grassi, N., Pantuso, G., Bottino, A., Cacace, E., Li Petri, S., Di Gaudio, F., Guercio, G., Latteri, M. A., Nobile, D., Cipolla, C., Caruso, G., Salvaggio, G., Lo Cascio, A., Fatta, G., Lagalla, R., Campisi, A., Verderame, F., Martegani, A., Cardinale, A. E., and Luedinghausen, M. V.

Published
2005
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20. Large expert-curated database for benchmarking document similarity detection in biomedical literature search

Author

Brown, P. Zhou, Y. Tan, A.-C. El-Esawi, M.A. Liehr, T. Blanck, O. Gladue, D.P. Almeida, G.M.F. Cernava, T. Sorzano, C.O. Yeung, A.W.K. Engel, M.S. Chandrasekaran, A.R. Muth, T. Staege, M.S. Daulatabad, S.V. Widera, D. Zhang, J. Meule, A. Honjo, K. Pourret, O. Yin, C.-C. Zhang, Z. Cascella, M. Flegel, W.A. Goodyear, C.S. van Raaij, M.J. Bukowy-Bieryllo, Z. Campana, L.G. Kurniawan, N.A. Lalaouna, D. Hüttner, F.J. Ammerman, B.A. Ehret, F. Cobine, P.A. Tan, E.-C. Han, H. Xia, W. McCrum, C. Dings, R.P.M. Marinello, F. Nilsson, H. Nixon, B. Voskarides, K. Yang, L. Costa, V.D. Bengtsson-Palme, J. Bradshaw, W. Grimm, D.G. Kumar, N. Martis, E. Prieto, D. Sabnis, S.C. Amer, S.E.D.R. Liew, A.W.C. Perco, P. Rahimi, F. Riva, G. Zhang, C. Devkota, H.P. Ogami, K. Basharat, Z. Fierz, W. Siebers, R. Tan, K.H. Boehme, K.A. Brenneisen, P. Brown, J.A.L. Dalrymple, B.P. Harvey, D.J. Ng, G. Werten, S. Bleackley, M. Dai, Z. Dhariwal, R. Gelfer, Y. Hartmann, M.D. Miotla, P. Tamaian, R. Govender, P. Gurney-Champion, O.J. Kauppila, J.H. Zhang, X. Echeverría, N. Subhash, S. Sallmon, H. Tofani, M. Bae, T. Bosch, O. Cuív, P.O. Danchin, A. Diouf, B. Eerola, T. Evangelou, E. Filipp, F. Klump, H. Kurgan, L. Smith, S.S. Terrier, O. Tuttle, N. Ascher, D.B. Janga, S.C. Schulte, L.N. Becker, D. Browngardt, C. Bush, S.J. Gaullier, G. Ide, K. Meseko, C. Werner, G.D.A. Zaucha, J. Al-Farha, A.A. Greenwald, N.F. Popoola, S.I. Rahman, S. Xu, J. Yang, S.Y. Hiroi, N. Alper, O.M. Baker, C.I. Bitzer, M. Chacko, G. Debrabant, B. Dixon, R. Forano, E. Gilliham, M. Kelly, S. Klempnauer, K.-H. Lidbury, B.A. Lin, M.Z. Lynch, I. Ma, W. Maibach, E.W. Mather, D.E. Nandakumar, K.S. Ohgami, R.S. Parchi, P. Tressoldi, P. Xue, Y. Armitage, C. Barraud, P. Chatzitheochari, S. Coelho, L.P. Diao, J. Doxey, A.C. Gobet, A. Hu, P. Kaiser, S. Mitchell, K.M. Salama, M.F. Shabalin, I.G. Song, H. Stevanovic, D. Yadollahpour, A. Zeng, E. Zinke, K. Alimba, C.G. Beyene, T.J. Cao, Z. Chan, S.S. Gatchell, M. Kleppe, A. Piotrowski, M. Torga, G. Woldesemayat, A.A. Cosacak, M.I. Haston, S. Ross, S.A. Williams, R. Wong, A. Abramowitz, M.K. Effiong, A. Lee, S. Abid, M.B. Agarabi, C. Alaux, C. Albrecht, D.R. Atkins, G.J. Beck, C.R. Bonvin, A.M.J.J. Bourke, E. Brand, T. Braun, R.J. Bull, J.A. Cardoso, P. Carter, D. Delahay, R.M. Ducommun, B. Duijf, P.H.G. Epp, T. Eskelinen, E.-L. Fallah, M. Farber, D.B. Fernandez-Triana, J. Feyerabend, F. Florio, T. Friebe, M. Furuta, S. Gabrielsen, M. Gruber, J. Grybos, M. Han, Q. Heinrich, M. Helanterä, H. Huber, M. Jeltsch, A. Jiang, F. Josse, C. Jurman, G. Kamiya, H. de Keersmaecker, K. Kristiansson, E. de Leeuw, F.-E. Li, J. Liang, S. Lopez-Escamez, J.A. Lopez-Ruiz, F.J. Marchbank, K.J. Marschalek, R. Martín, C.S. Miele, A.E. Montagutelli, X. Morcillo, E. Nicoletti, R. Niehof, M. O'Toole, R. Ohtomo, T. Oster, H. Palma, J.-A. Paterson, R. Peifer, M. Portilla, M. Portillo, M.C. Pritchard, A.L. Pusch, S. Raghava, G.P.S. Roberts, N.J. Ross, K. Schuele, B. Sergeant, K. Shen, J. Stella, A. Sukocheva, O. Uversky, V.N. Vanneste, S. Villet, M.H. Viveiros, M. Vorholt, J.A. Weinstock, C. Yamato, M. Zabetakis, I. Zhao, X. Ziegler, A. Aizat, W.M. Atlas, L. Bridges, K.M. Chakraborty, S. Deschodt, M. Domingues, H.S. Esfahlani, S.S. Falk, S. Guisado, J.L. Kane, N.C. Kueberuwa, G. Lau, C.L. Liang, D. Liu, E. Luu, A.M. Ma, C. Ma, L. Moyer, R. Norris, A.D. Panthee, S. Parsons, J.R. Peng, Y. Pinto, I.M. Reschke, C.R. Sillanpää, E. Stewart, C.J. Uhle, F. Yang, H. Zhou, K. Zhu, S. Ashry, M. Bergsland, N. Berthold, M. Chen, C.-E. Colella, V. Cuypers, M. Eskew, E.A. Fan, X. Gajda, M. Gonzálezlez-Prendes, R. Goodin, A. Graham, E.B. Groen, E.J.N. Gutiérrez-Sacristán, A. Habes, M. Heffler, E. Higginbottom, D.B. Janzen, T. Jayaraman, J. Jibb, L.A. Jongen, S. Kinyanjui, T. Koleva-Kolarova, R.G. Li, Z. Liu, Y.-P. Lund, B.A. Lussier, A.A. Ma, L. Mier, P. Moore, M.D. Nagler, K. Orme, M.W. Pearson, J.A. Prajapati, A.S. Saito, Y. Tröder, S.E. Uchendu, F. Verloh, N. Voutchkova, D.D. Abu-Zaid, A. Bakkach, J. Baumert, P. Dono, M. Hanson, J. Herbelet, S. Hobbs, E. Kulkarni, A. Kumar, N. Liu, S. Loft, N.D. Reddan, T. Senghore, T. Vindin, H. Xu, H. Bannon, R. Chen, B. Cheung, J.T.K. Cooper, J. Esnakula, A.K. Feghali, K.A. Ghelardi, E. Gnasso, A. Horbar, J. Lai, H.M. Li, J. Ma, L. Ma, R. Pan, Z. Peres, M.A. Pranata, R. Seow, E. Sydes, M. Testoni, I. Westermair, A.L. Yang, Y. Afnan, M. Albiol, J. Albuquerque, L.G. Amir, S. Amiya, E. Amorim, R.M. An, Q. Andersen, S.U. Aplin, J.D. Argyropoulos, C. Asmann, Y.W. Assaeed, A.M. Atanasov, A.G. Atchison, D.A. Avery, S.V. Avillach, P. Baade, P.D. Backman, L. Badie, C. Baldi, A. Ball, E. Bardot, O. Barnett, A.G. Basner, M. Batra, J. Bazanova, O.M. Beale, A. Beddoe, T. Bell, M.L. Berezikov, E. Berners-Price, S. Bernhardt, P. Berry, E. Bessa, T.B. Billington, C. Birch, J. Blakely, R.D. Blaskovich, M.A.T. Blum, R. Boelaert, M. Bogdanos, D. Bosch, C. Bourgoin, T. Bouvard, D. Boykin, L.M. Bradley, G. Braun, D. Brownlie, J. Brühl, A. Burt, A. Butler, L.M. Byrareddy, S.N. Byrne, H.J. Cabantous, S. Calatayud, S. Candal, E. Carlson, K. Casillas, S. Castelvetro, V. Caswell, P.T. Cavalli, G. Cerovsky, V. Chagoyen, M. Chen, C.-S. Chen, D.F. Chen, H. Chen, H. Chen, J.-T. Chen, Y. Cheng, C. Cheng, J. Chinapaw, M. Chinopoulos, C. Cho, W.C.S. Chong, L. Chowdhury, D. Chwalibog, A. Ciresi, A. Cockcroft, S. Conesa, A. Cook, P.A. Cooper, D.N. Coqueret, O. Corea, E.M. Costa, A. Costa, E. Coupland, C. Crawford, S.Y. Cruz, A.D. Cui, H. Cui, Q. Culver, D.C. D'Angiulli, A. Dahms, T.E.S. Daigle, F. Dalgleish, R. Danielsen, H.E. Darras, S. Davidson, S.M. Day, D.A. Degirmenci, V. Demaison, L. Devriendt, K. Ding, J. Dogan, Y. Dong, X.C. Donner, C.F. Dressick, W. Drevon, C.A. Duan, H. Ducho, C. Dumaz, N. Dwarakanath, B.S. Ebell, M.H. Eisenhardt, S. Elkum, N. Engel, N. Erickson, T.B. Fairhead, M. Faville, M.J. Fejzo, M.S. Festa, F. Feteira, A. Flood-Page, P. Forsayeth, J. Fox, S.A. Franks, S.J. Frentiu, F.D. Frilander, M.J. Fu, X. Fujita, S. Galea, I. Galluzzi, L. Gani, F. Ganpule, A.P. García-Alix, A. Gedye, K. Giordano, M. Giunta, C. Gleeson, P.A. Goarant, C. Gong, H. Gora, D. Gough, M.J. Goyal, R. Graham, K.E. Grande-Pérez, A. Graves, P.M. Greidanus, H. Grice, D. Grunau, C. Gumulya, Y. Guo, Y. Gurevich, V.V. Gusev, O. Hacker, E. Hage, S.R. Hagen, G. Hahn, S. Haller, D.M. Hammerschmidt, S. Han, J. Han, R. Handfield, M. Hapuarachchi, H.C. Harder, T. Hardingham, J.E. Heck, M. Heers, M. Hew, K.F. Higuchi, Y. Hilaire, C.St. Hilton, R. Hodzic, E. Hone, A. Hongoh, Y. Hu, G. Huber, H.P. Hueso, L.E. Huirne, J. Hurt, L. Idborg, H. Ikeo, K. Ingley, E. Jakeman, P.M. Jensen, A. Jia, H. Jia, H. Jia, S. Jiang, J. Jiang, X. Jin, Y. Jo, D. Johnson, A.M. Johnston, M. Jonscher, K.R. Jorens, P.G. Jorgensen, J.O.L. Joubert, J.W. Jung, S.-H. Junior, A.M. Kahan, T. Kamboj, S.K. Kang, Y.-K. Karamanos, Y. Karp, N.A. Kelly, R. Kenna, R. Kennedy, J. Kersten, B. Khalaf, R.A. Khalid, J.M. Khatlani, T. Khider, T. Kijanka, G.S. King, S.R.B. Kluz, T. Knox, P. Kobayashi, T. Koch, K.-W. Kohonen-Corish, M.R.J. Kong, X. Konkle-Parker, D. Korpela, K.M. Kostrikis, L.G. Kraiczy, P. Kratz, H. Krause, G. Krebsbach, P.H. Kristensen, S.R. Kumari, P. Kunimatsu, A. Kurdak, H. Kwon, Y.D. Lachat, C. Lagisz, M. Laky, B. Lammerding, J. Lange, M. Larrosa, M. Laslett, A.L. Laverman, G.D. Leclair, E.E. Lee, K.-W. Lee, M.-Y. Lee, M.-S. Li, G. Li, J. Lieb, K. Lim, Y.Y. Lindsey, M.L. Line, P.-D. Liu, D. Liu, F. Liu, H. Liu, H. Lloyd, V.K. Lo, T.-W. Locci, E. Loidl, J. Lorenzen, J. Lorkowski, S. Lovell, N.H. Lu, H. Lu, W. Lu, Z. Luengo, G.S. Lundh, L.-G. Lysy, P.A. Mabb, A. Mack, H.G. Mackey, D.A. Mahdavi, S.R. Maher, P. Maher, T. Maity, S.N. Malgrange, B. Mamoulakis, C. Mangoni, A.A. Manke, T. Manstead, A.S.R. Mantalaris, A. Marsal, J. Marschall, H.-U. Martin, F.L. Martinez-Raga, J. Martinez-Salas, E. Mathieu, D. Matsui, Y. Maza, E. McCutcheon, J.E. McKay, G.J. McMillan, B. McMillan, N. Meads, C. Medina, L. Merrick, B.A. Metzger, D.W. Meunier, F.A. Michaelis, M. Micheau, O. Mihara, H. Mintz, E.M. Mizukami, T. Moalic, Y. Mohapatra, D.P. Monteiro, A. Montes, M. Moran, J.V. Morozov, S.Y. Mort, M. Murai, N. Murphy, D.J. Murphy, S.K. Murray, S.A. Naganawa, S. Nammi, S. Nasios, G. Natoli, R.M. Nguyen, F. Nicol, C. van Nieuwerburgh, F. Nilsen, E.B. Nobile, C.J. O'Mahony, M. Ohlsson, S. Olatunbosun, O. Olofsson, P. Ortiz, A. Ostrikov, K. Otto, S. Outeiro, T.F. Ouyang, S. Paganoni, S. Page, A. Palm, C. Paradies, Y. Parsons, M.H. Parsons, N. Pascal, P. Paul, E. Peckham, M. Pedemonte, N. Pellizzon, M.A. Petrelli, M. Pichugin, A. Pinto, C.J.C. Plevris, J.N. Pollesello, P. Polz, M. Ponti, G. Porcelli, P. Prince, M. Quinn, G.P. Quinn, T.J. Ramula, S. Rappsilber, J. Rehfeldt, F. Reiling, J.H. Remacle, C. Rezaei, M. Riddick, E.W. Ritter, U. Roach, N.W. Roberts, D.D. Robles, G. Rodrigues, T. Rodriguez, C. Roislien, J. Roobol, M.J. Rowe, A. Ruepp, A. van Ruitenbeek, J. Rust, P. Saad, S. Sack, G.H. Santos, M. Saudemont, A. Sava, G. Schrading, S. Schramm, A. Schreiber, M. Schuler, S. Schymkowitz, J. Sczyrba, A. Seib, K.L. Shi, H.-P. Shimada, T. Shin, J.-S. Shortt, C. Silveyra, P. Skinner, D. Small, I. Smeets, P.A.M. So, P.-W. Solano, F. Sonenshine, D.E. Song, J. Southall, T. Speakman, J.R. Srinivasan, M.V. Stabile, L.P. Stasiak, A. Steadman, K.J. Stein, N. Stephens, A.W. Stewart, D.I. Stine, K. Storlazzi, C. Stoynova, N.V. Strzalka, W. Suarez, O.M. Sultana, T. Sumant, A.V. Summers, M.J. Sun, G. Tacon, P. Tanaka, K. Tang, H. Tanino, Y. Targett-Adams, P. Tayebi, M. Tayyem, R. Tebbe, C.C. Telfer, E.E. Tempel, W. Teodorczyk-Injeyan, J.A. Thijs, G. Thorne, S. Thrift, A.G. Tiffon, C. Tinnefeld, P. Tjahjono, D.H. Tolle, F. Toth, E. Del Tredici, A.L. Tsapas, A. Tsirigotis, K. Turak, A. Tzotzos, G. Udo, E.E. Utsumi, T. Vaidyanathan, S. Vaillant, M. Valsesia, A. Vandenbroucke, R.E. Veiga, F.H. Vendrell, M. Vesk, P.A. Vickers, P. Victor, V.M. Villemur, R. Vohl, M.-C. Voolstra, C.R. Vuillemin, A. Wakelin, S. Waldron, L. Walsh, L.J. Wang, A.Y. Wang, F. Wang, Y. Watanabe, Y. Weigert, A. Wen, J.-C. Wham, C. White, E.P. Wiener, J. Wilharm, G. Wilkinson, S. Willmann, R. Wilson, C. Wirth, B. Wojan, T.R. Wolff, M. Wong, B.M. Wu, T.-W. Wuerbel, H. Xiao, X. Xu, D. Xu, J.W. Xu, J. Xue, B. Yalcin, S. Yan, H. Yang, E.-C. Yang, S. Yang, W. Ye, Y. Ye, Z.-Q. Yli-Kauhaluoma, J. Yoneyama, H. Yu, Y. Yuan, G.-C. Yuh, C.-H. Zaccolo, M. Zeng, C. Zevnik, B. Zhang, C. Zhang, L. Zhang, Y. Zhang, Y. Zhang, Z. Zhang, Z.-Y. Zhao, Y. Zhou, M. Zuberbier, T. Aanei, C.M. Ahmad, R. Al-Lawama, M. Alanio, A. Allardyce, J. Alonso-Caneiro, D. Atack, J.M. Baier, D. Bansal, A. Benezeth, Y. Berbesque, C. Berrevoet, F. Biedermann, P.H.W. Bijleveld, E. Bittner, F. Blombach, F. van den Bos, W. Boudreau, S.A. Bramoweth, A.D. Braubach, O. Cai, Y. Campbell, M. Cao, Z. Catry, T. Chen, X. Cheng, S. Chung, H.-J. Chávez-Fumagalli, M.A. Conway, A. Costa, B.M. Cyr, N. Dean, L.T. Denzel, M.S. Dlamini, S.V. 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Miller, J.J. Minde, D.-P.M. Minges, A. Mishra, E. Mishra, V.R. Moores, C. Morrice, N. Moskalensky, A.E. Navarin, N. Negera, E. Nolet, P. Nordberg, A. Nordén, R. Nowicki, J.P. Olova, N. Olszewski, P. Onzima, R. Pan, C.-L. Park, C. Park, D.I. Park, S. Patil, C.D. Pedro, S.A. Perry, S.R. Peter, J. Peterson, B.M. Pezzuolo, A. Pozdnyakov, I. Qian, S. Qin, L. Rafe, A. Raote, I. Raza, A. Rebl, H. Refai, O. Regan, T. Richa, T. Richardson, M.F. Robinson, K.R. Rossoni, L. Rouet, R. Safaei, S. Schneeberger, P.H.H. Schwotzer, D. Sebastian, A. Selinski, J. Seltmann, S. Sha, F. Shalev, N. Shang, J.-L. Singer, J. Singh, M. Smith, T. Solomon-Moore, E. Song, L. Soraggi, S. Stanley, R. Steckhan, N. Strobl, F. Subissi, L. Supriyanto, I. Surve, C.R. Suzuki, T. Syme, C. Sörelius, K. Tang, Y. Tantawy, M. Tennakoon, S. Teseo, S. Toelzer, C. Tomov, N. Tovar, M. Tran, L. Tripathi, S. Tuladhar, A.M. Ukubuiwe, A.C. Ung, C.O.L. Valgepea, K. Vatanparast, H. Vidal, A. Wang, F. Wang, Q. Watari, R. Webster, R. 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Zaritsky, A. Zhang, Y. Zhao, H. Zuckerman, H. Lyu, R. Pullan, W. RELISH Consortium

Abstract

Document recommendation systems for locating relevant literature have mostly relied on methods developed a decade ago. This is largely due to the lack of a large offline gold-standard benchmark of relevant documents that cover a variety of research fields such that newly developed literature search techniques can be compared, improved and translated into practice. To overcome this bottleneck, we have established the RElevant LIterature SearcH consortium consisting of more than 1500 scientists from 84 countries, who have collectively annotated the relevance of over 180 000 PubMed-listed articles with regard to their respective seed (input) article/s. The majority of annotations were contributed by highly experienced, original authors of the seed articles. The collected data cover 76% of all unique PubMed Medical Subject Headings descriptors. No systematic biases were observed across different experience levels, research fields or time spent on annotations. More importantly, annotations of the same document pairs contributed by different scientists were highly concordant. We further show that the three representative baseline methods used to generate recommended articles for evaluation (Okapi Best Matching 25, Term Frequency-Inverse Document Frequency and PubMed Related Articles) had similar overall performances. Additionally, we found that these methods each tend to produce distinct collections of recommended articles, suggesting that a hybrid method may be required to completely capture all relevant articles. The established database server located at https://relishdb.ict.griffith.edu.au is freely available for the downloading of annotation data and the blind testing of new methods. We expect that this benchmark will be useful for stimulating the development of new powerful techniques for title and title/abstract-based search engines for relevant articles in biomedical science. © The Author(s) 2019. Published by Oxford University Press.

Published
2019

21. Large expert-curated database for benchmarking document similarity detection in biomedical literature search

Author

Brown, P., Zhou, Y., Tan, A. -C., El-Esawi, M. A., Liehr, T., Blanck, O., Gladue, D. P., Almeida, G. M. F., Cernava, T., Sorzano, C. O., Yeung, A. W. K., Engel, M. S., Chandrasekaran, A. R., Muth, T., Staege, M. S., Daulatabad, S. V., Widera, D., Zhang, J., Meule, A., Honjo, K., Pourret, O., Yin, C. -C., Zhang, Z., Cascella, M., Flegel, W. A., Goodyear, C. S., van Raaij, M. J., Bukowy-Bieryllo, Z., Campana, L. G., Kurniawan, N. A., Lalaouna, D., Huttner, F. J., Ammerman, B. A., Ehret, F., Cobine, P. A., Tan, E. -C., Han, H., Xia, W., Mccrum, C., Dings, R. P. M., Marinello, F., Nilsson, H., Nixon, B., Voskarides, K., Yang, L., Costa, V. D., Bengtsson-Palme, J., Bradshaw, W., Grimm, D. G., Kumar, N., Martis, E., Prieto, D., Sabnis, S. C., Amer, S. E. D. R., Liew, A. W. C., Perco, P., Rahimi, F., Riva, G., Zhang, C., Devkota, H. P., Ogami, K., Basharat, Z., Fierz, W., Siebers, R., Tan, K. H., Boehme, K. A., Brenneisen, P., Brown, J. A. L., Dalrymple, B. P., Harvey, D. J., Ng, G., Werten, S., Bleackley, M., Dai, Z., Dhariwal, R., Gelfer, Y., Hartmann, M. D., Miotla, P., Tamaian, R., Govender, P., Gurney-Champion, O. J., Kauppila, J. H., Zhang, X., Echeverria, N., Subhash, S., Sallmon, H., Tofani, M., Bae, T., Bosch, O., Cuiv, P. O., Danchin, A., Diouf, B., Eerola, T., Evangelou, E., Filipp, F., Klump, H., Kurgan, L., Smith, S. S., Terrier, O., Tuttle, N., Ascher, D. B., Janga, S. C., Schulte, L. N., Becker, D., Browngardt, C., Bush, S. J., Gaullier, G., Ide, K., Meseko, C., Werner, G. D. A., Zaucha, J., Al-Farha, A. A., Greenwald, N. F., Popoola, S. I., Rahman, S., Xu, J., Yang, S. Y., Hiroi, N., Alper, O. M., Baker, C. I., Bitzer, M., Chacko, G., Debrabant, B., Dixon, R., Forano, E., Gilliham, M., Kelly, S., Klempnauer, K. -H., Lidbury, B. A., Lin, M. Z., Lynch, I., Ma, W., Maibach, E. W., Mather, D. E., Nandakumar, K. S., Ohgami, R. S., Parchi, P., Tressoldi, P., Xue, Y., Armitage, C., Barraud, P., Chatzitheochari, S., Coelho, L. 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Y., Huang, A., Hulse-Kemp, A. M., Jean-Quartier, C., Jeon, S. -M., Jia, Y., Jutzeler, C., Kalatzis, P., Karim, M., Karsay, K., Keitel, A., Kempe, A., Keown, J. R., Khoo, C. M., Khwaja, N., Kievit, R. A., Kosanic, S., Koutoukidis, D. A., Kramer, P., Kumar, D., Kirag, N., Lanza, G., Le, T. D., Leem, J. W., Leightley, D., Leite, A., Lercher, L., Li, Y., Lim, R., Lima, L. R. A., Lin, L., Ling, T., Liu, Y., Liu, Z., Lu, Y., Lum, F. M., Luo, H., Machhi, J., Macleod, A., Macwan, I., Madala, H. R., Madani, N., de Maio, N., Makowiecki, K., Mallinson, D. J., Margelyte, R., Maria, C., Markonis, Y., Marsili, L., Mavoa, S., Mcwilliams, L., Megersa, M., Souto-Maior, C., Menichetti, J., Mercieca-Bebber, R., Miller, J. J., Minde, D. -P. M., Minges, A., Mishra, E., Mishra, V. R., Moores, C., Morrice, N., Moskalensky, A. E., Navarin, N., Negera, E., Nolet, P., Nordberg, A., Norden, R., Nowicki, J. P., Olova, N., Olszewski, P., Onzima, R., Pan, C. -L., Park, C., Park, D. I., Park, S., Patil, C. D., Pedro, S. A., Perry, S. R., Peter, J., Peterson, B. M., Pezzuolo, A., Pozdnyakov, I., Qian, S., Qin, L., Rafe, A., Raote, I., Raza, A., Rebl, H., Refai, O., Regan, T., Richa, T., Richardson, M. F., Robinson, K. R., Rossoni, L., Rouet, R., Safaei, S., Schneeberger, P. H. H., Schwotzer, D., Sebastian, A., Selinski, J., Seltmann, S., Sha, F., Shalev, N., Shang, J. -L., Singer, J., Singh, M., Smith, T., Solomon-Moore, E., Song, L., Soraggi, S., Stanley, R., Steckhan, N., Strobl, F., Subissi, L., Supriyanto, I., Surve, C. R., Suzuki, T., Syme, C., Sorelius, K., Tang, Y., Tantawy, M., Tennakoon, S., Teseo, S., Toelzer, C., Tomov, N., Tovar, M., Tran, L., Tripathi, S., Tuladhar, A. M., Ukubuiwe, A. C., Ung, C. O. L., Valgepea, K., Vatanparast, H., Vidal, A., Wang, Q., Watari, R., Webster, R., Wei, J., Wibowo, D., Wingenbach, T. S. H., Xavier, R. M., Xiao, S., Xiong, P., Xu, S., Yao, R., Yao, W., Yin, Q., Zaitsu, M., Zeineb, Z., Zhan, X. -Y., Zhang, R., Zhang, W., Zheng, S., Zhou, B., Ahmad, H., Akinwumi, S. A., Albery, G. F., Alhowimel, A., Ali, J., Alshehri, M., Alsuhaibani, M., Anikin, A., Azubuike, S. O., Bach-Mortensen, A., Baltiansky, L., Bartas, M., Belachew, K. Y., Bhardwaj, V., Binder, K., Bland, N. S., Boah, M., Bullen, B., Calabro', Giovanna Elisa, Callahan, T. J., Cao, B., Chalmers, K., Chang, W., Che, Z., Chen, A. T. Y., Chen, Z., Choi, Y., Chowdhury, M. A. K., Christensen, M. R., Cooke, R. S. C., Cottini, M., Covington, N. V., Cunningham, C., Delarocque, J., Devos, L., Dhar, A. R., Ding, K. -F., Dong, K., Dong, Z., Dreyer, N., Ekstrand, C., Fardet, T., Feleke, B. E., Feurer, T., Freitas, A., Gao, T., Gebremedhin, Giganti, F., Grabowski, P., Guerra-Mora, J. R., Guo, C., Guo, X., Gupta, H., He, S., Heijne, M., Heinemann, S., Hogrebe, A., Huang, Z., Iskander-Rizk, S., Iyer, L. M., Jahan, Y., James, A. S., Joel, E., Joffroy, B., Jegousse, C., Kambondo, G., Karnati, P., Kaya, C., Ke, A., Kelly, D., Kickert, R., Kidibule, P. E., Kieselmann, J. P., Kim, H. J., Kitazawa, T., Lamberts, A., Liang, H., Linn, S. N., Litfin, T., Liusuo, W., Lygirou, V., Mahato, A. K., Mai, Z. -M., Major, R. W., Mali, S., Mallis, P., Mao, W., Marvin-Dowle, K., Mason, L. D., Merideth, B., Merino-Plaza, M. J., Merlaen, B., Messina, R., Mishra, A. K., Muhammad, J., Musinguzi, C., Nanou, A., Naqash, A., Nguyen, J. T., Nguyen, T. T. H., Ni, D., Nida, Notcovich, S., Ohst, B., Ollivier, Q. R., Osses, D. F., Peng, X., Plantinga, A., Pulia, M., Rafiq, M., Raman, A., Raucher-Chene, Rawski, R., Ray, A., Razak, L. A., Rudolf, K., Rusch, P., Sadoine, M. L., Schmidt, A., Schurr, R., Searles, S., Sharma, S., Sheehan, B., Shi, C., Shohayeb, B., Sommerlad, A., Strehlow, J., Sun, X., Sundar, R., Taherzadeh, G., Tahir, N. D. M., Tang, J., Testa, J., Tian, Z., Tingting, Q., Verheijen, G. P., Vickstrom, C., Wang, T., Wang, X., Wang, Z., Wei, P., Wilson, A., Wyart, Yassine, A. -A., Yousefzadeh, A., Zare, A., Zeng, Z., Zhang, H., Zhou, J., Zhu, D., Adamo, V., Adeyemo, A. A., Aggelidou, M., Al-Owaifeer, A. M., Al-Riyami, A. Z., Alzghari, S. K., Andersen, V., Angus, K., Asaduzzaman, M., Asady, H., Ato, D., Bai, X., Baines, R. L., Ballantyne, M., Ban, B., Beck, J., Ben-Nafa, W., Black, E., Blancher, A., Blankstein, R., Bodagh, N., Borges, P., Brooks, A., Brox-Ponce, J., Brunetti, A., Canham, C. D., Carninci, P., Carvajal, R., Chang, S. C., Chao, J., Chatterjee, P., Chen, L., Chhatriwalla, A. K., Chikowe, I., Chuang, T. -J., Collevatti, R. G., Cornejo, D. A. V., Cuenda, A., Dao, M., Dauga, D., Deng, Z., Devkota, K., Doan, L. V., Elewa, Y. H. A., Fan, D., Faruk, M., Feifei, S., Ferguson, T. S., Fleres, F., Foster, E. J., Foster, S., Furer, T., Gao, Y., Garcia-Rivera, E. J., Gazdar, A., George, R. B., Ghosh, S., Gianchecchi, E., Gleason, J. M., Hackshaw, A., Hall, A., Hall, R., Harper, P., Hogg, W. E., Huang, G., Hunter, K. E., Ijzerman, A. P., Jesus, C., Jian, G., Lewis, J. S., Kanj, S. S., Kaur, H., Kheir, F., Kichatova, V. S., Kiyani, M., Klein, R., Kovesi, T., Kraschnewski, J. L., Kumar, A. P., Labutin, D., Lazo-Langner, A., Leclercq, G., Li, M., Li, Q., Li, T., Liao, W. -T., Liao, Z. -Y., Lin, J., Lizer, J., Lobreglio, G., Lowies, C., Lu, C., Majeed, H., Martin, A., Martinez-Sobrido, L., Meresh, E., Middelveen, M., Mohebbi, A., Mota, J., Mozaheb, Z., Muyaya, L., Nandhakumar, A., Ng, S. H. X., Obeidat, M., Oh, D. -H., Owais, M., Pace-Asciak, P., Panwar, A., Patterson, C., Penagos-Tabaree, F., Pianosi, P. T., Pinzi, V., Pridans, C., Psaroulaki, A., Pujala, R. K., Pulido-Arjona, L., Qi, P. -F., Rahman, P., Rai, N. K., Rassaf, T., Refardt, J., Ricciardi, Walter, Riess, O., Rovas, A., Sacks, F. M., Saleh, S., Sampson, C., Schmutz, A., Sepanski, R., Sharma, N., Spearman, P., Subramaniapillai, M., Swali, R., Tan, C. M., Tellechea, J. I., Thomas, L. -M., Tong, X., Vavvas, D. G., Veys, R., Vitriol, V., Wang, H. -D., Waugh, J., Webb, S. A., Williams, B. A., Workman, A. D., Xiang, T., Xie, L. -X., Xu, T., Yang, C., Yoon, J. G., Yuan, C. M., Zaritsky, A., Zhao, H., Zuckerman, H., Lyu, R., Pullan, W., Calabro G. E. (ORCID:0000-0003-0259-3797), and Ricciardi W. (ORCID:0000-0002-5655-688X)

Abstract

Document recommendation systems for locating relevant literature have mostly relied on methods developed a decade ago. This is largely due to the lack of a large offline gold-standard benchmark of relevant documents that cover a variety of research fields such that newly developed literature search techniques can be compared, improved and translated into practice. To overcome this bottleneck, we have established the RElevant LIterature SearcH consortium consisting of more than 1500 scientists from 84 countries, who have collectively annotated the relevance of over 180 000 PubMed-listed articles with regard to their respective seed (input) article/s. The majority of annotations were contributed by highly experienced, original authors of the seed articles. The collected data cover 76% of all unique PubMed Medical Subject Headings descriptors. No systematic biases were observed across different experience levels, research fields or time spent on annotations. More importantly, annotations of the same document pairs contributed by different scientists were highly concordant. We further show that the three representative baseline methods used to generate recommended articles for evaluation (Okapi Best Matching 25, Term Frequency-Inverse Document Frequency and PubMed Related Articles) had similar overall performances. Additionally, we found that these methods each tend to produce distinct collections of recommended articles, suggesting that a hybrid method may be required to completely capture all relevant articles. The established database server located at https://relishdb.ict.griffith.edu.au is freely available for the downloading of annotation data and the blind testing of new methods. We expect that this benchmark will be useful for stimulating the development of new powerful techniques for title and title/abstract-based search engines for relevant articles in biomedical science.

Published
2019

22. Effect of residual strains on the static strength of dissimilar single lap adhesive joints.

Author

Safaei, S., Ayatollahi, M. R., Akhavan-Safar, A., Moazzami, M., and da Silva, L. F. M.

Subjects
*ADHESIVE joints, *LAP joints, *CARBON fiber-reinforced plastics, *DIGITAL image correlation, *THERMOCYCLING, *FINITE element method
Abstract

Adhesive joints usually experience different thermal conditions not only during their service life but even also when the joints are stored, and no external force is applied. One of the main concerns for such a condition is the residual strains/stresses induced into the adhesive layer due to the cyclic ambient temperature. In this research, the effects of residual strains on the static strength of dissimilar single lap adhesive joints (SLJ) are experimentally investigated. The thermal cycles were applied in an aluminum/carbon fiber-reinforced polymer (Al/CFRP) adhesively bonded SLJ with different adhesive thicknesses. Residual strains due to the differential thermal contraction of the two materials were measured inside the adhesive layer using the digital image correlation (DIC) technique. It was shown that for the studied conditions, the residual strains increase by thermal cycles, leading to a decrease in residual static strength of the joints. A 2D finite element thermal analysis was also performed and the numerical data were compared with the experimental results. [ABSTRACT FROM AUTHOR]

Published
2021
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23. Investigating on the possibility of increasing production in the Vahdat’s Dam in Eest Azarbaijan-Iran

Author

Pourgholami moghaddam, Akbar, Safaei, S., Yousefzad, E., Khodaparast, S.H., Abbasi, K., Babaei, H., Zahmatkesh, Y.A., Sabkara, J., Khatibhaghighi, S., Abedini, A., Norouzi, H., Fallahi, M., Madadi, F., Sedaghatkish, A., Sayyadrahim, M., Tajaddod, J., Mohsenpour, H., Danesh, A., Samadzadeh, M., Razmjoo kohan, S., Soleimani, H., Mahisefat, F., and Afsharchi, H.

Subjects
Cyprinus carpio, Hypophthalmichthys molitrix, Carassius auratus, Aquaculture, Hemiculter leucisculus
Abstract

The Lake Vahdat’s dam ( Kordkandi reservoir ) is located in 75 kilometers eastern of Tabriz in the East of Azerbaijan province With 37°59’ and 46°55’of latitude and attitude ,respectively. The purpose of the Dam is, storage of 6 million m3 of Ojan chai river for aquaculture use in the region. This study was carried out to investigate the possibility of increasing production in the Vahdat’s Dam and some biotic and abiotic factors of lake, such as physico-chemical properties of water, planktons, bentics, icthiology and characteristics of lake's bed were focused. Due to the area of the lake and proximity of the stations to each other, the entrance and estuary of the river as one station and lake as the second station were designated. In the case of phytoplankton, 42 genera were identified from 5 phylom, with 59% Cyanophyta and 21.5% for chlorophylls. For zooplankton, the highest frequency and variety related to the Rotatoria were 50.9% in the spring , which fed by fish and their larvae due to Omega-3 fatty acide. After Rotatoria, Ciliaphora were the most frequent. For Bentics, two sampling steps were carried out in the winter of 2007 and spring of 2008. The high biomass of Tubificidae was showed 0.034 gr ) 84.35/ m3)and 0.42 gr (143.7 /m2) in the winter of 2007 and spring of 2008, respectively. For Ictiology study, the high percentage frequency of fish related to Carassius auratus 42% and Hypophthalmichthys molitrix 38%. The biodiversity of fishes in the lake were confirmed by 12.5 % Alburnus hohenackeri , 87.5 % Carassius gibelio, Carassius auratus, Cyprinus carpio, Hemiculter leucisculus, Hypophthalmichthys molitrix, Hypophthalmichthys nobilis and Ctenopharyngodon idella. One of the most important environmental factors for aquaculture is temperature condition.Now, warm water fish were farmed in the behind of the Dam. The optimal temperature for these fish should be 15-30 ° C. According to the synoptic station of Bostanabad, the temperature of the study area of the Wahdat’s Dam is more than 15 ° C in the four months of the year (from June to September) which is suitable for aquaculture of Cyprinidae. The ice freeze days of the Bostanabad is about 124.6 days , anually. Therefore, the production of warm water fish has been faced with extreme temperature limitation in this lake and only in the short time of the year (mid-spring to end of summer) favorble condition exist for warm water fish farming. Based on the average area of the lake, the production capacity of Cilver Carp and Big head is estimated to be 2.34 and 1.73 tons,respectively.Therefore, assuming of average weight ( 15-20 gr) of fingerlings, 10000 and 7500 number of fingerling shoud be needed for silver carp and big head,repectively.accurding to decresing of variety of bentices founa,increasing of carp production or any other bentic feeder species is needed to manually feeding.In addition to the favorable chemical conditions of water for aquaculture and due to the limited volume of water during summer and suitable temprature of water in spring and fall can farm the fish in the top of the dam. In this regard (HDPEG) cages was established with 750 m3 and 800-1000 number of fish per cge ( 60% cilver carp, 20% big head, 20% carp)with 4.5 ton potential of production. The suitable dimensions of cage are 25-30 diameter, 5 height.There are ten cages fed by artificial food and natural production. Of course there is tourism potential opportunity which can think about that in this area. Iranian Fisheries Science Research Institute Published

Published
2018

31. Observation of topological crystalline insulator surface states on (111)-oriented Pb1-xSnxSe films

Author

Polley, C. M., Dziawa, P., Reszka, A., Szczerbakow, A., Minikayev, R., Domagala, J. Z., Safaei, S., Kacman, P., Buczko, R., Adell, J., Hårdensson Berntsen, Magnus, Wojek, Bastian M., Tjernberg, Oscar, Kowalski, B. J., Story, T., Balasubramanian, T., Polley, C. M., Dziawa, P., Reszka, A., Szczerbakow, A., Minikayev, R., Domagala, J. Z., Safaei, S., Kacman, P., Buczko, R., Adell, J., Hårdensson Berntsen, Magnus, Wojek, Bastian M., Tjernberg, Oscar, Kowalski, B. J., Story, T., and Balasubramanian, T.

Abstract

We present angle-resolved photoemission spectroscopy measurements of the surface states on in-situ grown (111) oriented films of Pb1-xSnxSe, a three-dimensional topological crystalline insulator. We observe surface states with Dirac-like dispersion at (Gamma) over bar and (M) over bar in the surface Brillouin zone, supporting recent theoretical predictions for this family of materials. We study the parallel dispersion isotropy and Dirac-point binding energy of the surface states, and perform tight-binding calculations to support our findings. The relative simplicity of the growth technique is encouraging, and suggests a clear path for future investigations into the role of strain, vicinality, and alternative surface orientations in (Pb,Sn)Se solid solutions., QC 20150623

Published
2014
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32. Observation of topological crystalline insulator surface states on (111)-oriented Pb1−xSnxSe films

Author

Polley, C. M., primary, Dziawa, P., additional, Reszka, A., additional, Szczerbakow, A., additional, Minikayev, R., additional, Domagala, J. Z., additional, Safaei, S., additional, Kacman, P., additional, Buczko, R., additional, Adell, J., additional, Berntsen, M. H., additional, Wojek, B. M., additional, Tjernberg, O., additional, Kowalski, B. J., additional, Story, T., additional, and Balasubramanian, T., additional

Published
2014
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33. Spin-polarized (001) surface states of the topological crystalline insulator Pb0.73Sn0.27Se

Author

Wojek, Bastian M., Buczko, R., Safaei, S., Dziawa, P., Kowalski, B. J., Hårdensson Berntsen, Magnus, Balasubramanian, T., Leandersson, M., Szczerbakow, A., Kacman, P., Story, T., Tjernberg, Oscar, Wojek, Bastian M., Buczko, R., Safaei, S., Dziawa, P., Kowalski, B. J., Hårdensson Berntsen, Magnus, Balasubramanian, T., Leandersson, M., Szczerbakow, A., Kacman, P., Story, T., and Tjernberg, Oscar

Abstract

We study the nature of (001) surface states in Pb0.73Sn0.27Se in the newly discovered topological-crystalline-insulator (TCI) phase as well as the corresponding topologically trivial state above the band-gap-inversion temperature. Our calculations predict not only metallic surface states with a nontrivial chiral spin structure for the TCI case, but also nonmetallic (gapped) surface states with nonzero spin polarization when the system is a normal insulator. For both phases, angle- and spin-resolved photoelectron spectroscopy measurements provide conclusive evidence for the formation of these (001) surface states in Pb0.73Sn0.27Se, as well as for their chiral spin structure., QC 20150623

Published
2013
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34. Bistable behavior of a two-mode Bose-Einstein condensate in an optical cavity

Author

Müstecaplıoğlu, Özgür Esat (ORCID 0000-0002-9134-3951 & YÖK ID 1674), Safaei, S.; Tanatar, B., College of Sciences, Department of Physics, Müstecaplıoğlu, Özgür Esat (ORCID 0000-0002-9134-3951 & YÖK ID 1674), Safaei, S.; Tanatar, B., College of Sciences, and Department of Physics

Abstract

We consider a two-component Bose-Einstein condensate in a one-dimensional optical cavity. Specifically, the condensate atoms are taken to be in two degenerate modes due to their internal hyperfine spin degrees of freedom and they are coupled to the cavity field and an external transverse laser field in a Raman scheme. A parallel laser also excites the cavity mode. When the pump laser is far detuned from its resonance atomic transition frequency, an effective nonlinear optical model of the cavity-condensate system is developed under the discrete mode approximation (DMA), while matter-field coupling has been considered beyond the rotating wave approximation. By analytical and numerical solutions of the nonlinear dynamical equations, we examine the mean cavity field and population difference (magnetization) of the condensate modes. The stationary solutions of both the mean cavity field and normalized magnetization demonstrate bistable behavior under certain conditions for the laser pump intensity and matter-field coupling strength., Scientific and Technological Research Council of Turkey (TÜBİTAK)

Published
2013

35. Raman superradiance and spin lattice of ultracold atoms in optical cavities

Author

Müstecaplıoğlu, Özgür Esat (ORCID 0000-0002-9134-3951 & YÖK ID 1674), Safaei, S.; Tanatar, B., College of Sciences, Department of Physics, Müstecaplıoğlu, Özgür Esat (ORCID 0000-0002-9134-3951 & YÖK ID 1674), Safaei, S.; Tanatar, B., College of Sciences, and Department of Physics

Abstract

We investigate the synthesis of a hyperfine spin lattice in an atomic Bose-Einstein condensate, with two hyperfine spin components, inside a one-dimensional high-finesse optical cavity, using off-resonant superradiant Raman scattering. Spatio-temporal evolution of the relative population of the hyperfine spin modes is examined numerically by solving the coupled cavity-condensate mean-field equations in the dispersive regime. We find, analytically and numerically, that beyond a certain threshold of the transverse laser pump, Raman superradiance and self-organization of the hyperfine spin components occur simultaneously and as a result a magnetic lattice is formed. The effects of an extra laser pump parallel to the cavity axis and the time dependence of the pump strength on the synthesis of a sharper lattice are also addressed., Scientific and Technological Research Council of Turkey (TÜBİTAK); Turkish Academy of Sciences (TÜBA); Bilkent University

Published
2013

41. Scheduling of Unrelated Parallel Machines using Two Multi Objective Genetic Algorithms with Sequence-Dependent Setup Times and Precedent Constraints.

Author

Safaei, S., Naderi, R., Sohrabi, A., and Hatami, A.

Subjects
GENETIC algorithms, PRODUCTION scheduling, DATA envelopment analysis, MULTIPLE criteria decision making, TOPSIS method
Abstract

This paper considers the problem of scheduling N jobs on M unrelated parallel machines with sequence-dependent setup times. To better comply with industrial situations, jobs have varying due dates and ready times and there are some precedence relations between them. Furthermore sequence-dependent setup times and anticipatory setups are included in the proposed model. Our objective is to determine a schedule that minimizes makespan and number of tardy jobs. The problem is NP-hard, so for obtaining an optimal solution, in reasonable computational time, we propose two multi objective genetic algorithms (MOGA). To evaluate the proposed algorithms, random test problems are produced in medium and large sizes with tight due dates. After setting the parameters, the performances of these algorithms are evaluated using the concept of data envelopment analysis (DEA), distance method, and a number of non-dominated solutions. [ABSTRACT FROM AUTHOR]

Published
2015

42. Training in Using Earplugs or Using Earplugs with a Higher than Necessary Noise Reduction Rating? A Randomized Clinical Trial.

Author

Salmani Nodoushan, M., Mehrparvar, A. H., Torab Jahromi, M., Safaei, S., and Mollasadeghi, A.

Subjects
NOISE-induced deafness, PERSONNEL management, RANDOMIZED controlled trials, DISEASE prevalence, HEARING protection, DESCRIPTIVE statistics
Abstract

Background: Noise-induced hearing loss (NIHL) is one of the most common occupational diseases and the second most common cause of workers' claims for occupational injuries. Objective: Due to high prevalence of NIHL and several reports of improper use of hearing protective devices (HPDs), we conducted this study to compare the effect of face-to-face training in effective use of earplugs with appropriate NRR to overprotection of workers by using earplugs with higher than necessary noise reduction rating (NRR). Methods: In a randomized clinical trial, 150 workers referred to occupational medicine clinic were randomly allocated to three arms—a group wearing earplugs with an NRR of 25 with no training in appropriate use of the device; a group wearing earplugs with an NRR of 25 with training; another group wearing earplugs with an NRR of 30, with no training. Hearing threshold was measured in the study groups by real ear attenuation at threshold (REAT) method. This trial is registered with Australian New Zealand clinical trials Registry, number ACTRN00363175. Results: The mean±SD age of the participants was 28±5 (range: 19-39) years. 42% of participants were female. The mean noise attenuation in the group with training was 13.88 dB, significantly higher than those observed in other groups. The highest attenuation was observed in high frequencies (4, 6, and 8 kHz) in the group with training. Conclusion: Training in appropriate use of earplugs significantly affects the efficacy of earplugs—even more than using an earplug with higher NRR. [ABSTRACT FROM AUTHOR]

Published
2014

46. Training in using earplugs or using earplugs with a higher than necessary noise reduction rating? a randomized clinical trial

Author

Salmani Nodoushan M, Amir Houshang Mehrparvar, Torab Jahromi M, Safaei S, and Mollasadeghi A

Subjects
Adult, Male, Inservice Training, Australia, Hearing loss, Ambulatory Care Facilities, Education, Occupational Diseases, lcsh:RC963-969, Young Adult, Audiometry, Hearing Loss, Noise-Induced, Hearing, Occupational injuries, lcsh:Industrial medicine. Industrial hygiene, Noise, Occupational, Humans, Female, Original Article, Ear Protective Devices, Randomized clinical trial, Noise, noise-induced, Occupational Health, New Zealand
Abstract

Background: Noise-induced hearing loss (NIHL) is one of the most common occupational diseases and the second most common cause of workers' claims for occupational injuries. Objective: Due to high prevalence of NIHL and several reports of improper use of hearing protective devices (HPDs), we conducted this study to compare the effect of face-to-face training in effective use of earplugs with appropriate NRR to overprotection of workers by using earplugs with higher than necessary noise reduction rating (NRR). Methods: In a randomized clinical trial, 150 workers referred to occupational medicine clinic were randomly allocated to three arms—a group wearing earplugs with an NRR of 25 with no training in appropriate use of the device; a group wearing earplugs with an NRR of 25 with training; another group wearing earplugs with an NRR of 30, with no training. Hearing threshold was measured in the study groups by real ear attenuation at threshold (REAT) method. This trial is registered with Australian New Zealand clinical trials Registry, number ACTRN00363175. Results: The mean±SD age of the participants was 28±5 (range: 19–39) years. 42% of participants were female. The mean noise attenuation in the group with training was 13.88 dB, significantly higher than those observed in other groups. The highest attenuation was observed in high frequencies (4, 6, and 8 kHz) in the group with training. Conclusion: Training in appropriate use of earplugs significantly affects the efficacy of earplugs—even more than using an earplug with higher NRR.

47. IL7R and RAG1/2 genes mutations/polymorphisms in patients SCID

Author

Safaei, S., Pourpak, Z., Moin, M., and Massoud Houshmand

Subjects
IL7R, lcsh:R, lcsh:Medicine, hemic and immune systems, chemical and pharmacologic phenomena, RAG1, RAG2, Immunodeficiency Disorder, Severe Combined
Abstract

SCID disorder is major failure of the immune system, usually genetic. The aim of this study was on mutations detection of RAG1, RAG2, and IL7RG genes in SCID cases. Mutation detection was performed by PCR sequencing. Our results indicated that 13 mutations were found through cases which include 4 mutations in IL7R gene (T661I, I138V, T56A, C57W), 7 mutations in RAG1 (W896X, W204R, M324V, T731I, M1006V, K820R, and R249H), and 2 mutations in RAG2 gene (R229W, ΔT251).

48. Health-related quality of life and health utility values in beta thalassemia major patients receiving different types of iron chelators in Iran

Author

Seyedifar, M., Dorkoosh, F. A., Hamidieh, A. A., Naderi, M., Karami, H., mehran karimi, Fadaiyrayeny, M., Musavi, M., Safaei, S., Ahmadian-Attari, M. M., Hadjibabaie, M., Cheraghali, A. M., and Sari, A. A.

Subjects
Quality of life, Iron chelators, Thalassemia, Original Article, Iran, lcsh:Neoplasms. Tumors. Oncology. Including cancer and carcinogens, lcsh:RC254-282, Health utility
Abstract

Background: Thalassemia is a chronic, inherited blood disorder, which in its most severe form, causes life-threatening anemia. Thalassemia patients not only engage with difficulties of blood transfusion and iron chelating therapy but also have some social challenges and health threatening factors. There are some reports on quality of life in thalassemia patients around the world from southeast of Asia to Italy in Europe and United States. In this study, we tried to evaluate and compare Health Related Quality of life (HRQoL) and the health utility in beta thalassemia major patients receiving different types of iron chelators and living in different socio-economical situations. Subjects and Methods: EQ-5D-3L accompanied by a Visual Analogue Scale (VAS) questionnaire was used. The respondents were patients with beta thalassemia major that were at least 12 years old selected from 3 provinces of Sistan-Blouchestan, Fars and Mazandaran. Comorbidities including heart complication, Diabetes Mellitus and Hepatitis and also types of iron chelators (oral, injection, combination of both) were also asked. Cross tab and ANOVA analysis conducted to evaluate each dimension score and health utility differences between provinces, iron chelation methods, comorbidities, age group and gender. Results: 528 patients answered the questionnaires. The health utility of patients that received oral iron chelator were 0.87 ± .01 for oral iron chelators versus 0.81 ± .01 for injection dosage form (p

49. Detection of six novel mutations in WASP gene in fifteen Iranian Wiskott-Aldrich patients

Author

Safaei, S., Mohammad Reza Fazlollahi, Houshmand, M., Hamidieh, A. A., Bemanian, M. H., Alavi, S., Mousavi, F., Pourpak, Z., and Moin, M.

Subjects
Male, congenital, hereditary, and neonatal diseases and abnormalities, Wiskott-Aldrich syndrome, DNA Mutational Analysis, lcsh:R, lcsh:Medicine, Exons, macromolecular substances, Iran, Polymerase Chain Reaction, Thrombocytopenia, Case-Control Studies, hemic and lymphatic diseases, Mutation, Humans, Genetic Predisposition to Disease, Wiskott-Aldrich Syndrome Protein, Mutations
Abstract

Wiskott-Aldrich syndrome (WAS) is a life-threatening X-linked recessive immunodeficiency disease described as a clinical triad of thrombocytopenia, eczema, and recurrent infections, caused by mutations of the WAS protein (WASP) gene. The milder form of this disease is X-Linked thrombocytopenia (XLT) that presents only as platelet abnormalities. Mutation analysis for 15 boys with Wiskott-Aldrich syndrome was performed. Five previously reported mutations and six novel mutations including G8X, R41X, D283E, P412fsX446, E464X, and AfsX358 were detected.

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