Topic 04 -- Abstracts with Biological Entities (English) - 75 Topics / Sub-Topic Model 37 - 15 Topics

cite ad title authors publish year publish time dataset abstract mentions covid pmcid pubmed id doi cord uid topic weight Similarity scispacy Similarity specter
1 Wille_2019 Virome heterogeneity and connectivity in waterfowl and shorebird communities Wille, Michelle; Shi, Mang; Klaassen, Marcel; Hurt, Aeron C.; Holmes, Edward C. 2019 2019-06-25 None N PMC6775988 31239538.0 10.1038/s41396-019-0458-0 9flgtv0z 0.951861 Wille_2019
2 Holtz_2014 Geographic variation in the eukaryotic virome of human diarrhea Holtz, Lori R.; Cao, Song; Zhao, Guoyan; Bauer, Irma K.; Denno, Donna M.; Klein, Eileen J.; Antonio, Martin; Stine, O. Colin; Snelling, Thomas L.; Kirkwood, Carl D.; Wang, David 2014 2014-11-30 None N PMC4254309 25262473.0 10.1016/j.virol.2014.09.012 e8ljkv2y 0.939346
3 Wille_2019 Virome heterogeneity and connectivity in waterfowl and shorebird communities Michelle Wille; Mang Shi; Marcel Klaassen; Aeron C. Hurt; Edward C. Holmes 2019 2019-01-29 BioRxiv N 10.1101/528174 yzjh6ot3 0.926524 Wille_2019
4 Gu_X_2018 Geospatial distribution of viromes in tropical freshwater ecosystems Gu, Xiaoqiong; Tay, Qi Xiang Martin; Te, Shu Harn; Saeidi, Nazanin; Goh, Shin Giek; Kushmaro, Ariel; Thompson, Janelle R.; Gin, Karina Yew-Hoong 2018 2018-06-15 PMC N PMC7112100 29550725.0 10.1016/j.watres.2018.03.017 355q6k6k 0.924753
5 Moreno_2017 Characterisation of the canine faecal virome in healthy dogs and dogs with acute diarrhoea using shotgun metagenomics Moreno, Paloma S.; Wagner, Josef; Mansfield, Caroline S.; Stevens, Matthew; Gilkerson, James R.; Kirkwood, Carl D. 2017 2017-06-01 COMM-USE N PMC5453527 28570584.0 10.1371/journal.pone.0178433 pue5q5wp 0.882208
6 Sachsenröder_2014 The General Composition of the Faecal Virome of Pigs Depends on Age, but Not on Feeding with a Probiotic Bacterium Sachsenröder, Jana; Twardziok, Sven O.; Scheuch, Matthias; Johne, Reimar 2014 2014-02-19 COMM-USE N PMC3929612 24586429.0 10.1371/journal.pone.0088888 yjaiybwf 0.881674
7 Zhao_2018 Metagenomic Analysis of the Jinding Duck Fecal Virome Zhao, Lili; Niu, Yinjie; Lu, Taofeng; Yin, Haichang; Zhang, Yuanyuan; Xu, Lijing; Wang, Yiping; Chen, Hongyan 2018 2018-01-24 PMC N PMC7080049 29368024.0 10.1007/s00284-018-1430-3 r03hisns 0.868071
8 Woo_P_2014 Metagenomic analysis of viromes of dromedary camel fecal samples reveals large number and high diversity of circoviruses and picobirnaviruses Woo, Patrick C.Y.; Lau, Susanna K.P.; Teng, Jade L.L.; Tsang, Alan K.L.; Joseph, Marina; Wong, Emily Y.M.; Tang, Ying; Sivakumar, Saritha; Bai, Ru; Wernery, Renate; Wernery, Ulrich; Yuen, Kwok-Yung 2014 2014-12-31 PMC N PMC7112128 25461537.0 10.1016/j.virol.2014.09.020 81t59up3 0.840721 Conceição-Neto_2015, Lee_D_2019
9 Devaney_2016 A metagenomic comparison of endemic viruses from broiler chickens with runting-stunting syndrome and from normal birds Devaney, Ryan; Trudgett, James; Trudgett, Alan; Meharg, Caroline; Smyth, Victoria 2016 2016-10-04 PMC N PMC7113909 27215546.0 10.1080/03079457.2016.1193123 wbkfjz8r 0.801950
10 Zhang_2005 RNA Viral Community in Human Feces: Prevalence of Plant Pathogenic Viruses Zhang, Tao; Breitbart, Mya; Lee, Wah Heng; Run, Jin-Quan; Wei, Chia Lin; Soh, Shirlena Wee Ling; Hibberd, Martin L; Liu, Edison T; Rohwer, Forest; Ruan, Yijun 2005 2005-12-20 COMM-USE N PMC1310650 16336043.0 10.1371/journal.pbio.0040003 rxbcuseq 0.799476
11 Chong_2018 Characterisation of the faecal virome of captive and wild Tasmanian devils using virus-like particles metagenomics and meta-transcriptomics Rowena Chong; Mang Shi; Catherine E Grueber; Edward C Holmes; Carolyn Hogg; Katherine Belov; Vanessa R Barrs 2018 2018-10-15 BioRxiv N 10.1101/443457 4uahwkp8 0.798407 Chong_2019, Conceição-Neto_2015
12 Fontenele_2019 Single Stranded DNA Viruses Associated with Capybara Faeces Sampled in Brazil Fontenele, Rafaela S.; Lacorte, Cristiano; Lamas, Natalia S.; Schmidlin, Kara; Varsani, Arvind; Ribeiro, Simone G. 2019 2019-08-02 COMM-USE N PMC6723397 31382446.0 10.3390/v11080710 4e3wgv4e 0.787945 Lee_D_2019
13 Conceição-Neto_2015 Fecal virome analysis of three carnivores reveals a novel nodavirus and multiple gemycircularviruses Conceição-Neto, Nádia; Zeller, Mark; Heylen, Elisabeth; Lefrère, Hanne; Mesquita, João Rodrigo; Matthijnssens, Jelle 2015 2015-05-20 COMM-USE N PMC4459443 25986582.0 10.1186/s12985-015-0305-5 7x5dckk7 0.784424 Lee_D_2019
14 Li_Y_2017 Identification of diverse viruses in upper respiratory samples in dromedary camels from United Arab Emirates Li, Yan; Khalafalla, Abdelmalik Ibrahim; Paden, Clinton R.; Yusof, Mohammed F.; Eltahir, Yassir M.; Al Hammadi, Zulaikha M.; Tao, Ying; Queen, Krista; Hosani, Farida Al; Gerber, Susan I.; Hall, Aron J.; Al Muhairi, Salama; Tong, Suxiang 2017 2017-09-13 COMM-USE N PMC5597213 28902913.0 10.1371/journal.pone.0184718 udlf9t1t 0.770085
15 Brisebois_2018 Human viral pathogens are pervasive in wastewater treatment center aerosols Brisebois, Evelyne; Veillette, Marc; Dion-Dupont, Vanessa; Lavoie, Jacques; Corbeil, Jacques; Culley, Alexander; Duchaine, Caroline 2018 2018-05-31 PMC N PMC7128102 29778173.0 10.1016/j.jes.2017.07.015 jgrl4okd 0.732394
16 Cortey_2019 High levels of unreported intraspecific diversity among RNA viruses in faeces of neonatal piglets with diarrhoea Cortey, Martí; Díaz, Ivan; Vidal, Anna; Martín-Valls, Gerard; Franzo, Giovanni; Gómez de Nova, Pedro José; Darwich, Laila; Puente, Héctor; Carvajal, Ana; Martín, Marga; Mateu, Enric 2019 2019-12-05 COMM-USE N PMC6896758 31805938.0 10.1186/s12917-019-2204-2 aaxvlktp 0.720040
17 Xie_X_2018 Prevalence of fecal viruses and bacteriophage in Canadian farmed mink (Neovison vison) Xie, Xiao‐Ting; Kropinski, Andrew M.; Tapscott, Brian; Weese, J. Scott; Turner, Patricia V. 2018 2018-04-10 COMM-USE N PMC6341152 29635866.0 10.1002/mbo3.622 qcpcr7uv 0.717172 Taboada_2016
18 Caddy_2018 New viruses associated with canine gastroenteritis Caddy, S.L. 2018 2018-02-28 PMC N PMC7110870 29428093.0 10.1016/j.tvjl.2017.12.009 sp45lrz5 0.712056
19 Day_J_2015 Comparative Analysis of the Intestinal Bacterial and RNA Viral Communities from Sentinel Birds Placed on Selected Broiler Chicken Farms Day, J. Michael; Oakley, Brian B.; Seal, Bruce S.; Zsak, Laszlo 2015 2015-01-30 COMM-USE N PMC4311960 25635690.0 10.1371/journal.pone.0117210 xgnisa56 0.700418
20 Vibin_2018 Metagenomics detection and characterisation of viruses in faecal samples from Australian wild birds Vibin, Jessy; Chamings, Anthony; Collier, Fiona; Klaassen, Marcel; Nelson, Tiffanie M.; Alexandersen, Soren 2018 2018-06-06 None N PMC5989203 29875375.0 10.1038/s41598-018-26851-1 l2n0xvmd 0.681177 Dacheux_2014
21 Chong_2019 Fecal Viral Diversity of Captive and Wild Tasmanian Devils Characterized Using Virion-Enriched Metagenomics and Metatranscriptomics Chong, Rowena; Shi, Mang; Grueber, Catherine E.; Holmes, Edward C.; Hogg, Carolyn J.; Belov, Katherine; Barrs, Vanessa R. 2019 2019-05-15 COMM-USE N PMC6532096 30867308.0 10.1128/jvi.00205-19 t1anr8gd 0.680285 Grewelle_2020, Roux_2019 Chong_2018, Conceição-Neto_2015
22 Liu_P_2019 Viral Metagenomics Revealed Sendai Virus and Coronavirus Infection of Malayan Pangolins (Manis javanica) Liu, Ping; Chen, Wu; Chen, Jin-Ping 2019 2019-10-24 COMM-USE N PMC6893680 31652964.0 10.3390/v11110979 wrmfxkoa 0.668080 Grewelle_2020
23 Zhang_2014 What is for dinner? Viral metagenomics of US store bought beef, pork, and chicken Zhang, Wen; Li, Linlin; Deng, Xutao; Kapusinszky, Beatrix; Delwart, Eric 2014 2014-11-30 PMC N 25217712.0 10.1016/j.virol.2014.08.025 udo5x2nx 0.668033
24 Fawaz_2016 Duck gut viral metagenome analysis captures snapshot of viral diversity Fawaz, Mohammed; Vijayakumar, Periyasamy; Mishra, Anamika; Gandhale, Pradeep N.; Dutta, Rupam; Kamble, Nitin M.; Sudhakar, Shashi B.; Roychoudhary, Parimal; Kumar, Himanshu; Kulkarni, Diwakar D.; Raut, Ashwin Ashok 2016 2016-06-09 COMM-USE N PMC4899906 27284287.0 10.1186/s13099-016-0113-5 54s1fae3 0.642180 Dacheux_2014
25 Shah_2014 Comparison of tissue sample processing methods for harvesting the viral metagenome and a snapshot of the RNA viral community in a turkey gut Shah, Jigna D.; Baller, Joshua; Zhang, Ying; Silverstein, Kevin; Xing, Zheng; Cardona, Carol J. 2014 2014-12-01 PMC N 25181646.0 10.1016/j.jviromet.2014.08.011 rh1ad6bv 0.641105 Smits_2014
26 Li_W_2020 Virome diversity analysis reveals novel enteroviruses and a human picobirnavirus in stool samples from African green monkeys with diarrhea Li, Wenjuan; Qiang, Xin; Qin, Si; Huang, Yong; Hu, Yan; Bai, Bingke; Hou, Jun; Gao, Rong; Zhang, Xianglilan; Mi, Zhiqiang; Fan, Hang; Ye, Huahu; Tong, Yigang; Mao, Panyong 2020 2020-08-31 PMC N 32165243.0 10.1016/j.meegid.2020.104279 5q7wdamu 0.605542
27 Wang_2018 The fecal virome of red-crowned cranes Wang, Yan; Yang, Shixing; Liu, Dawei; Zhou, Chenglin; Li, Wang; Lin, Yuan; Wang, Xiaochun; Shen, Quan; Wang, Hua; Li, Chuang; Zong, Minghui; Ding, Yuzhu; Song, Qianben; Deng, Xutao; Qi, Dunwu; Zhang, Wen; Delwart, Eric 2018 2018-09-17 PMC N PMC7086969 30225519.0 10.1007/s00705-018-4037-x db45qdjl 0.573767
28 Calusinska_2016 Analysis of dsDNA and RNA viromes in methanogenic digesters reveals novel viral genetic diversity Calusinska, Magdalena; Marynowska, Martyna; Goux, Xavier; Lentzen, Esther; Delfosse, Philippe 2016 2016-01-18 NONCOMM N PMC7163765 26568175.0 10.1111/1462-2920.13127 au5aqr02 0.567575 Francis_2016, Koonin_2015
29 Hewson_2011 Description of viral assemblages associated with the Gorgonia ventalina holobiont Hewson, I.; Brown, J. M.; Burge, C. A.; Couch, C. S.; LaBarre, B. A.; Mouchka, M. E.; Naito, M.; Harvell, C. D. 2011 2011-12-29 PMC N PMC7087884 10.1007/s00338-011-0864-x cy049zbi 0.558430
30 Dumarest_2015 Viral diversity in swine intestinal mucus used for the manufacture of heparin as analyzed by high-throughput sequencing Dumarest, Marine; Muth, Erika; Cheval, Justine; Gratigny, Marlène; Hébert, Charles; Gagnieur, Léa; Eloit, Marc 2015 2015-01-31 PMC N 25466699.0 10.1016/j.biologicals.2014.10.004 dkqi22z0 0.545821
31 Sachsenröder_2012 Simultaneous Identification of DNA and RNA Viruses Present in Pig Faeces Using Process-Controlled Deep Sequencing Sachsenröder, Jana; Twardziok, Sven; Hammerl, Jens A.; Janczyk, Pawel; Wrede, Paul; Hertwig, Stefan; Johne, Reimar 2012 2012-04-13 COMM-USE N PMC3326065 22514648.0 10.1371/journal.pone.0034631 jwbuwa9k 0.528648
32 He_B_2013 Virome Profiling of Bats from Myanmar by Metagenomic Analysis of Tissue Samples Reveals More Novel Mammalian Viruses He, Biao; Li, Zuosheng; Yang, Fanli; Zheng, Junfeng; Feng, Ye; Guo, Huancheng; Li, Yingying; Wang, Yiyin; Su, Nan; Zhang, Fuqiang; Fan, Quanshui; Tu, Changchun 2013 2013-04-22 COMM-USE N PMC3632529 23630620.0 10.1371/journal.pone.0061950 04d0koah 0.520149 Lee_D_2019
33 Dacheux_2014 A Preliminary Study of Viral Metagenomics of French Bat Species in Contact with Humans: Identification of New Mammalian Viruses Dacheux, Laurent; Cervantes-Gonzalez, Minerva; Guigon, Ghislaine; Thiberge, Jean-Michel; Vandenbogaert, Mathias; Maufrais, Corinne; Caro, Valérie; Bourhy, Hervé 2014 2014-01-29 None N PMC3906132 24489870.0 10.1371/journal.pone.0087194 g3rfwhwr 0.479204
34 Qin_S_2018 Viral communities associated with porcine respiratory disease complex in intensive commercial farms in Sichuan province, China Qin, Sinan; Ruan, Wenqiang; Yue, Hua; Tang, Cheng; Zhou, Kelei; Zhang, Bin 2018 2018-09-06 COMM-USE N PMC6127300 30190594.0 10.1038/s41598-018-31554-8 i7fkaohw 0.468178
35 Linsuwanon_2015 The Fecal Virome of Children with Hand, Foot, and Mouth Disease that Tested PCR Negative for Pathogenic Enteroviruses Linsuwanon, Piyada; Poovorawan, Yong; Li, Linlin; Deng, Xutao; Vongpunsawad, Sompong; Delwart, Eric 2015 2015-08-19 COMM-USE N PMC4545796 26288145.0 10.1371/journal.pone.0135573 84hxim2n 0.437807
36 Geldenhuys_2018 A metagenomic viral discovery approach identifies potential zoonotic and novel mammalian viruses in Neoromicia bats within South Africa Geldenhuys, Marike; Mortlock, Marinda; Weyer, Jacqueline; Bezuidt, Oliver; Seamark, Ernest C. J.; Kearney, Teresa; Gleasner, Cheryl; Erkkila, Tracy H.; Cui, Helen; Markotter, Wanda 2018 2018-03-26 COMM-USE N PMC5868816 29579103.0 10.1371/journal.pone.0194527 uf7usvuu 0.431995 Lee_D_2019, Dacheux_2014
37 Mihalov-Kovács_2014 The fecal virome of domesticated animals Mihalov-Kovács, Eszter; Fehér, Enikő; Martella, Vito; Bányai, Krisztián; Farkas, Szilvia L. 2014 2014-02-01 PMC N PMC4188178 25674581.0 10.1007/s13337-014-0192-1 k0fw3vr3 0.401890 Knutson_2017
38 Lojkić_2016 Faecal virome of red foxes from peri-urban areas Lojkić, Ivana; Biđin, Marina; Prpić, Jelena; Šimić, Ivana; Krešić, Nina; Bedeković, Tomislav 2016 2016-04-30 PMC N PMC7112549 27012914.0 10.1016/j.cimid.2016.01.005 neqj85xf 0.397137 Lee_D_2019
39 Knutson_2017 A porcine enterovirus G associated with enteric disease contains a novel papain-like cysteine protease Knutson, Todd P.; Velayudhan, Binu T.; Marthaler, Douglas G. 2017 2017-06-08 COMM-USE N PMC5656790 28590234.0 10.1099/jgv.0.000799 og2vsgjn 0.374273 Langelier_2017, Smits_2014, Deng_2015, Cheng_2013
40 Soffer_2013 Potential role of viruses in white plague coral disease Soffer, Nitzan; Brandt, Marilyn E; Correa, Adrienne MS; Smith, Tyler B; Thurber, Rebecca Vega 2013 2013-08-15 PMC N PMC3906806 23949663.0 10.1038/ismej.2013.137 pgqsezq2 0.365584
41 Lian_2014 Novel Circovirus from Mink, China Lian, Hai; Liu, Ye; Li, Nan; Wang, Yuying; Zhang, Shoufeng; Hu, Rongliang 2014 2014-09-23 PMC N PMC4178405 25148585.0 10.3201/eid2009.140015 w9vnk3i6 0.354978
42 Swanson_2010 Phylogenetic and gene-centric metagenomics of the canine intestinal microbiome reveals similarities with humans and mice Swanson, Kelly S; Dowd, Scot E; Suchodolski, Jan S; Middelbos, Ingmar S; Vester, Brittany M; Barry, Kathleen A; Nelson, Karen E; Torralba, Manolito; Henrissat, Bernard; Coutinho, Pedro M; Cann, Isaac KO; White, Bryan A; Fahey, George C 2010 2010-10-21 PMC N PMC3105739 20962874.0 10.1038/ismej.2010.162 nmmkkvaq 0.349637 Francis_2016
43 Manara_2019 Microbial genomes from non-human primate gut metagenomes expand the primate-associated bacterial tree of life with over 1000 novel species Manara, Serena; Asnicar, Francesco; Beghini, Francesco; Bazzani, Davide; Cumbo, Fabio; Zolfo, Moreno; Nigro, Eleonora; Karcher, Nicolai; Manghi, Paolo; Metzger, Marisa Isabell; Pasolli, Edoardo; Segata, Nicola 2019 2019-12-28 COMM-USE N PMC6935492 31883524.0 10.1186/s13059-019-1923-9 ehcu68cg 0.348306 Delwart_2012, Roux_2019 Li_H_2019
44 Wittekindt_2010 Nodeomics: Pathogen Detection in Vertebrate Lymph Nodes Using Meta-Transcriptomics Wittekindt, Nicola E.; Padhi, Abinash; Schuster, Stephan C.; Qi, Ji; Zhao, Fangqing; Tomsho, Lynn P.; Kasson, Lindsay R.; Packard, Michael; Cross, Paul; Poss, Mary 2010 2010-10-18 COMM-USE N PMC2956653 20976145.0 10.1371/journal.pone.0013432 v4jochbe 0.341429
45 Wang_2016 Metagenomic analysis of viral genetic diversity in respiratory samples from children with severe acute respiratory infection in China Wang, Y.; Zhu, N.; Li, Y.; Lu, R.; Wang, H.; Liu, G.; Zou, X.; Xie, Z.; Tan, W. 2016 2016-05-31 PMC N 26802214.0 10.1016/j.cmi.2016.01.006 p0cxsrzb 0.335644 Zhang_2020
46 Kraberger_2019 Novel smacoviruses identified in the faeces of two wild felids: North American bobcat and African lion Kraberger, Simona; Serieys, Laurel; Fountain-Jones, Nicolas; Packer, Craig; Riley, Seth; Varsani, Arvind 2019 2019-06-22 PMC N PMC7086625 31240485.0 10.1007/s00705-019-04329-3 4ipimv1a 0.314143 Lee_D_2019
47 Rosario_2015 Novel circular single-stranded DNA viruses identified in marine invertebrates reveal high sequence diversity and consistent predicted intrinsic disorder patterns within putative structural proteins Rosario, Karyna; Schenck, Ryan O.; Harbeitner, Rachel C.; Lawler, Stephanie N.; Breitbart, Mya 2015 2015-07-10 COMM-USE N PMC4498126 26217327.0 10.3389/fmicb.2015.00696 9o3ivbc2 0.305061 Mushegian_2018 Cook_2013, Lima_2015
48 Kwok_2020 Virus Metagenomics in Farm Animals: A Systematic Review Kwok, Kirsty T. T.; Nieuwenhuijse, David F.; Phan, My V. T.; Koopmans, Marion P. G. 2020 2020-01-16 None N PMC7019290 31963174.0 10.3390/v12010107 47e37xl0 0.304401 Dacheux_2014