Topic 03 -- Abstracts with Biological Entities (English) - 75 Topics / Sub-Topic Model 08 - 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 Keegan_2016 Estimating finite-population reproductive numbers in heterogeneous populations Keegan, Lindsay T.; Dushoff, Jonathan 2016 2016-05-21 PMC N PMC7094132 26891919.0 10.1016/j.jtbi.2016.01.022 ao2w4v71 0.980925 Li_C_2018, Gong_2013, Wallinga_2006, Welch_2011, O'Dea_2010 Clancy_2015, Wallinga_2006, White_2013, Nishiura_2009
2 Hartfield_2013 Introducing the Outbreak Threshold in Epidemiology Hartfield, Matthew; Alizon, Samuel 2013 2013-06-06 COMM-USE N PMC3680036 23785276.0 10.1371/journal.ppat.1003277 g7rf1cdi 0.841591 Li_C_2018, Lauro_2020 Meehan_2020, Kucharski_2015
3 Trapman_2016 Inferring R(0) in emerging epidemics—the effect of common population structure is small Trapman, Pieter; Ball, Frank; Dhersin, Jean-Stéphane; Tran, Viet Chi; Wallinga, Jacco; Britton, Tom 2016 2016-08-23 None N PMC5014060 27581480.0 10.1098/rsif.2016.0288 tl0wbrh3 0.820502 O'Dea_2010, Li_C_2018 Safi_2011, Kretzschmar_2020, Kucharski_2015
4 Smieszek_2009 Models of epidemics: when contact repetition and clustering should be included Smieszek, Timo; Fiebig, Lena; Scholz, Roland W 2009 2009-06-29 COMM-USE N PMC2709892 19563624.0 10.1186/1742-4682-6-11 kkh04kv8 0.800984 Welch_2011, Li_C_2018, Bifolchi_2013, O'Dea_2010 Kretzschmar_2020, House_2010, Safi_2011
5 Kiss_2007 The effect of network mixing patterns on epidemic dynamics and the efficacy of disease contact tracing Kiss, Istvan Z; Green, Darren M; Kao, Rowland R 2007 2007-12-04 COMM-USE N PMC2386895 18055417.0 10.1098/rsif.2007.1272 iy4c7404 0.766974 Bifolchi_2013, Welch_2011, Li_C_2018, Giardina_2017 House_2010, Kiss_2005, Kan_J_2017
6 Waxman_2019 Sub- or supercritical transmissibilities in a finite disease outbreak: Symmetry in outbreak properties of a disease conditioned on extinction Waxman, David; Nouvellet, Pierre 2019 2019-04-21 PMC N PMC6408326 30711456.0 10.1016/j.jtbi.2019.01.033 61d63itm 0.696371 Li_C_2018, Welch_2011, Gong_2013, Bifolchi_2013 Chen_2019, Safi_2011, Kucharski_2015, Meehan_2020
7 Sherborne_2015 Dynamics of Multi-stage Infections on Networks Sherborne, N.; Blyuss, K. B.; Kiss, I. Z. 2015 2015-09-24 COMM-USE N PMC4651987 26403422.0 10.1007/s11538-015-0109-1 fsqbgyaw 0.688057 Li_C_2018, Bifolchi_2013, Kenah_2007, O'Dea_2010 Raja_Sekhara_Rao_2015, Denphedtnong_2013, Safi_2011, Real_2007
8 Trigger_2020 Initial stage of the COVID-19 infection process in human population Sergey A Trigger 2020 2020-04-17 BioRxiv Y 10.1101/2020.04.13.20063701 qo8aksfj 0.676773 Ma_J_2020, Sadun_2020, Li_C_2018
9 Nishiura_2009 Two Critical Issues in Quantitative Modeling of Communicable Diseases: Inference of Unobservables and Dependent Happening Nishiura, Hiroshi; Kakehashi, Masayuki; Inaba, Hisashi 2009 2009-01-01 PMC N PMC7120684 10.1007/978-90-481-2313-1_3 hjmprklx 0.659801 Thompson_2019, Safi_2011, Real_2007
10 James_2006 An event-based model of superspreading in epidemics James, Alex; Pitchford, Jonathan W; Plank, Michael J 2006 2006-12-05 PMC N PMC2197209 17255000.0 10.1098/rspb.2006.0219 qfo5sw0t 0.656016 Bifolchi_2013, Li_C_2018, Welch_2011 Kretzschmar_2004, Edholm_2018, Lloyd-Smith_2005, Yong_2016
11 House_2010 The Impact of Contact Tracing in Clustered Populations House, Thomas; Keeling, Matt J. 2010 2010-03-26 COMM-USE N PMC2845652 20361048.0 10.1371/journal.pcbi.1000721 vexwisnz 0.644900 Bocharov_2018, O'Dea_2010, Bifolchi_2013, Leach_2010 Kretzschmar_2020, Armbruster_2007, Eames_2003
12 Eames_2003 Contact tracing and disease control. Eames, Ken T D; Keeling, Matt J 2003 2003-12-22 PMC N PMC1691540 14728778.0 10.1098/rspb.2003.2554 1tklz3jf 0.642118 Bifolchi_2013, Welch_2011, Pacheco_2017, O'Dea_2010 Kretzschmar_2020, House_2010, Armbruster_2007
13 Armbruster_2007 Contact tracing to control infectious disease: when enough is enough Armbruster, Benjamin; Brandeau, Margaret L. 2007 2007-10-03 PMC N PMC3428220 18074967.0 10.1007/s10729-007-9027-6 r3tmfweq 0.632279 House_2010, Kretzschmar_2020, Klinkenberg_2006
14 Klinkenberg_2006 The Effectiveness of Contact Tracing in Emerging Epidemics Klinkenberg, Don; Fraser, Christophe; Heesterbeek, Hans 2006 2006-12-20 COMM-USE N PMC1762362 17183638.0 10.1371/journal.pone.0000012 1n0rg5vd 0.629532 O'Dea_2010 Kretzschmar_2020, House_2010, Armbruster_2007
15 Tuckwell_2007 Some properties of a simple stochastic epidemic model of SIR type Tuckwell, Henry C.; Williams, Ruth J. 2007 2007-07-31 PMC N PMC7094774 17173939.0 10.1016/j.mbs.2006.09.018 z473e3tv 0.614066 Li_C_2018, Gong_2013, Welch_2011, Bifolchi_2013 Clancy_2015, Tuckwell_2007, Kenah_2007, Sherborne_2015
16 Drake_2005 Limits to Forecasting Precision for Outbreaks of Directly Transmitted Diseases Drake, John M 2005 2005-11-22 COMM-USE N PMC1288026 16435887.0 10.1371/journal.pmed.0030003 bhlnwu69 0.609253 Li_C_2018, Wu_Q_2014, Sherborne_2015, Gong_2013 Safi_2011, Raja_Sekhara_Rao_2015, Chen_2018
17 Ferguson_2005 Mathematical prediction in infection Ferguson, Neil M 2005 2005-03-01 PMC N 10.1383/medc.33.3.1.61124 0njpw3zz 0.598417 Ferguson_2009, Safi_2011, Voinson_2018
18 Kretzschmar_2020 Effectiveness of isolation and contact tracing for containment and slowing down a COVID-19 epidemic: a modelling study Mirjam E Kretzschmar; Ganna Rozhnova; Michiel E van Boven 2020 2020-03-13 BioRxiv Y 10.1101/2020.03.10.20033738 kgkcgpmq 0.597958 Li_C_2018, Wu_Q_2014, Xu_F_2019, Mondor_2012 Kucharski_2015
19 Ferguson_2009 Mathematical prediction in infection Ferguson, Neil M. 2009 2009-10-31 PMC N PMC7108383 10.1016/j.mpmed.2009.07.004 v5pt752o 0.585585 Ferguson_2005, Safi_2011, Voinson_2018
20 Kiss_2005 Disease contact tracing in random and clustered networks Kiss, Istvan Z; Green, Darren M; Kao, Rowland R 2005 2005-06-21 PMC N PMC1560336 16006334.0 10.1098/rspb.2005.3092 nxdangcb 0.585011 Li_C_2018, Welch_2011, Pacheco_2017, Bifolchi_2013 Chen_2007, House_2010, Eames_2003
21 Xia_C_2013 Effects of delayed recovery and nonuniform transmission on the spreading of diseases in complex networks Xia, Cheng-yi; Wang, Zhen; Sanz, Joaquin; Meloni, Sandro; Moreno, Yamir 2013 2013-04-01 PMC N PMC7126830 10.1016/j.physa.2012.11.043 q27jszcj 0.582406 Li_C_2018, Wu_Q_2014, Li_K_2011, O'Dea_2010 Denphedtnong_2013, Kretzschmar_2020, Shang_2013, Raja_Sekhara_Rao_2015
22 Tomie_2020 Relations of parameters for describing the epidemic of COVID―19 by the Kermack―McKendrick model Toshihisa Tomie 2020 2020-03-03 BioRxiv N 10.1101/2020.02.26.20027797 m0d72ntg 0.575594 Li_C_2018, Wu_Q_2014, Ma_J_2020, Sadun_2020 Imran_2018, Victor_2020, Safi_2011, Kretzschmar_2020
23 Park_2020 The time scale of asymptomatic transmission affects estimates of epidemic potential in the COVID-19 outbreak Sang Woo Park; Daniel M Cornforth; Jonathan Dushoff; Joshua S Weitz 2020 2020-03-13 BioRxiv Y 10.1101/2020.03.09.20033514 50zrnau8 0.573241 Li_C_2018, O'Dea_2010, Welch_2011, Wu_Q_2014, Sadun_2020 Kucharski_2015, Kretzschmar_2020, Aguilar_2020
24 Pellis_2009 Threshold parameters for a model of epidemic spread among households and workplaces Pellis, L.; Ferguson, N. M.; Fraser, C. 2009 2009-02-25 PMC N PMC2827443 19324683.0 10.1098/rsif.2008.0493 t8qzfdsy 0.561077 Li_C_2018, Bocharov_2018, O'Dea_2010 Safi_2011, Kretzschmar_2004, Kucharski_2015, Imran_2018
25 Kiss_2005 Infectious disease control using contact tracing in random and scale-free networks Kiss, Istvan Z; Green, Darren M; Kao, Rowland R 2005 2005-08-26 PMC N PMC1618487 16849217.0 10.1098/rsif.2005.0079 d124sl6p 0.557541 Welch_2011, Li_C_2018, Gong_2013 Kiss_2005, Chen_2007, Yang_2020
26 Kong_2018 Modeling the Heterogeneity of Dengue Transmission in a City Kong, Lingcai; Wang, Jinfeng; Li, Zhongjie; Lai, Shengjie; Liu, Qiyong; Wu, Haixia; Yang, Weizhong 2018 2018-05-31 COMM-USE N PMC6025315 29857503.0 10.3390/ijerph15061128 3cnp3snn 0.542423 Li_C_2018, Wu_Q_2014 Imran_2018, Akhmetzhanov_2019
27 Dibble_2016 Waiting time to infectious disease emergence Dibble, Christopher J.; O'Dea, Eamon B.; Park, Andrew W.; Drake, John M. 2016 2016-10-23 None N PMC5095216 27798277.0 10.1098/rsif.2016.0540 3o09lrxk 0.538066 Bifolchi_2013, Li_C_2018, Bocharov_2018, O'Dea_2010 Raja_Sekhara_Rao_2015, Safi_2011, Chen_2019, Sirijampa_2018
28 Marescot_2020 Keeping the kids at home can limit the persistence of contagious pathogens in social animals Lucile Marescot; Mathias Franz; Sarah Benhaiem; Heribert Hofer; Marion East; Stephanie Kramer-Schadt 2020 2020-04-13 BioRxiv N 10.1101/2020.04.11.036806 njundv6l 0.525158 Li_C_2018
29 Sippl-Swezey_2014 Conflicts of Interest during Contact Investigations: A Game-Theoretic Analysis Sippl-Swezey, Nicolas; Enanoria, Wayne T.; Porco, Travis C. 2014 2014-04-14 COMM-USE N PMC4052784 24982688.0 10.1155/2014/952381 1zu3kquc 0.522967 House_2010, Zhang_2011
30 André_2005 The effect of disease life history on the evolutionary emergence of novel pathogens André, Jean-Baptiste; Day, Troy 2005 2005-08-09 PMC N PMC1559879 16191602.0 10.1098/rspb.2005.3170 bjmvnmcc 0.520337 O'Dea_2010
31 Kwok_2018 Temporal variation of human encounters and the number of locations in which they occur: a longitudinal study of Hong Kong residents Kwok, Kin On; Cowling, Ben; Wei, Vivian; Riley, Steven; Read, Jonathan M. 2018 2018-01-24 COMM-USE N PMC5805989 29367241.0 10.1098/rsif.2017.0838 ub9im4il 0.518362 Li_C_2018, Pacheco_2017, Welch_2011 Stein_2014, Chen_2007
32 Hébert-Dufresne_2020 Beyond R0: the importance of contact tracing when predicting epidemics Laurent Hébert-Dufresne; Benjamin M. Althouse; Samuel V. Scarpino; Antoine Allard 2020 2020-02-12 BioRxiv Y 10.1101/2020.02.10.20021725 zbqbogwu 0.518296 Li_C_2018, O'Dea_2010 Kucharski_2015, Hilton_2020, Safi_2011, Kretzschmar_2020
33 Drake_2016 A Model for Coupled Outbreaks Contained by Behavior Change Drake, John M.; Park, Andrew W. 2016 2016-07-28 PMC N PMC7123051 10.1007/978-3-319-40413-4_3 rgoy7whx 0.514056 Li_C_2018, O'Dea_2010, Bifolchi_2013, Li_K_2011 Safi_2011, Chen_2019, Cheng_2017, Denphedtnong_2013
34 Tennant_2018 Robustness of the reproductive number estimates in vector-borne disease systems Tennant, Warren; Recker, Mario 2018 2018-12-17 None N PMC6312349 30557351.0 10.1371/journal.pntd.0006999 5wn7l61e 0.513303 Bocharov_2018, Bifolchi_2013, O'Dea_2010, Chowell_2017 Kucharski_2015, Heffernan_2005, Safi_2011, Imran_2018
35 Baker_2020 Susceptible supply limits the role of climate in the COVID-19 pandemic Rachel E. Baker; Wenchang Yang; Gabriel A. Vecchi; C. Jessica E. Metcalf; Bryan T Grenfell 2020 2020-04-07 BioRxiv Y 10.1101/2020.04.03.20052787 zxx7tikz 0.510644 Li_C_2018
36 Mukwembi_2011 Effects of density of infected population to the spreading of HIV epidemic in communities Mukwembi, Simon 2011 2011-10-15 PMC N PMC7126770 10.1016/j.physa.2011.06.006 ljibm6ga 0.505315 Li_C_2018, Pacheco_2017, O'Dea_2010, Bifolchi_2013 Shang_2013, Kan_J_2017, Sherborne_2015, Di_Giamberardino_2020
37 Kretzschmar_2004 Ring Vaccination and Smallpox Control Kretzschmar, Mirjam; van den Hof, Susan; Wallinga, Jacco; van Wijngaarden, Jan 2004 2004-05-23 PMC N PMC3323203 15200816.0 10.3201/eid1005.030419 qwq46b8a 0.503953 Wu_Q_2014 Kucharski_2015, Safi_2011, Ohkusa_2005
38 Alexander_2009 A comparative evaluation of modelling strategies for the effect of treatment and host interactions on the spread of drug resistance Alexander, Murray E.; Dietrich, Sarah M.; Hua, Yi; Moghadas, Seyed M. 2009 2009-07-21 PMC N PMC7127136 19344730.0 10.1016/j.jtbi.2009.03.029 vmnqlcyh 0.480352 Li_C_2018, Wu_Q_2014, O'Dea_2010, Welch_2011 Robinson_2013
39 Kim_Y_2018 Agent-Based Modeling for Super-Spreading Events: A Case Study of MERS-CoV Transmission Dynamics in the Republic of Korea Kim, Yunhwan; Ryu, Hohyung; Lee, Sunmi 2018 2018-10-26 COMM-USE N PMC6265857 30373151.0 10.3390/ijerph15112369 2wc1bxi1 0.476564 Li_C_2018, Bifolchi_2013, Bocharov_2018 Kretzschmar_2020, Yang_2020, Small_2005
40 Stein_2014 Comparison of Contact Patterns Relevant for Transmission of Respiratory Pathogens in Thailand and the Netherlands Using Respondent-Driven Sampling Stein, Mart L.; van Steenbergen, Jim E.; Buskens, Vincent; van der Heijden, Peter G. M.; Chanyasanha, Charnchudhi; Tipayamongkholgul, Mathuros; Thorson, Anna E.; Bengtsson, Linus; Lu, Xin; Kretzschmar, Mirjam E. E. 2014 2014-11-25 COMM-USE N PMC4244136 25423343.0 10.1371/journal.pone.0113711 gin0b4ra 0.466136 Li_C_2018, Giardina_2017, Welch_2011 Chen_2007, Yang_2020
41 Clancy_2015 Generality of endemic prevalence formulae Clancy, Damian 2015 2015-11-30 PMC N PMC7094683 26321688.0 10.1016/j.mbs.2015.08.011 gmpsniqt 0.462971 Pekalp_2019, Gong_2013, Welch_2011 Safi_2011, Tennant_2018, Feng_2018, Meehan_2020
42 Han_D_2016 An evolutionary vaccination game in the modified activity driven network by considering the closeness Han, Dun; Sun, Mei 2016 2016-02-01 PMC N PMC7134395 10.1016/j.physa.2015.09.073 u7glxpum 0.461000 Li_C_2018, Wu_Q_2014, Welch_2011 Wells_2011, Huang_2020, Ma_J_2013, Chen_2018
43 Ma_J_2006 Generality of the Final Size Formula for an Epidemic of a Newly Invading Infectious Disease Ma, Junling; Earn, David J. D. 2006 2006-04-08 PMC N PMC7088645 16794950.0 10.1007/s11538-005-9047-7 7gd3hjc3 0.460565 O'Dea_2010, Li_C_2018, Welch_2011, Zheng_2020 Clancy_2015, Safi_2011, Kretzschmar_2020
44 Doeschl-Wilson_2011 Implications of Host Genetic Variation on the Risk and Prevalence of Infectious Diseases Transmitted Through the Environment Doeschl-Wilson, Andrea B.; Davidson, R.; Conington, J.; Roughsedge, T.; Hutchings, M. R.; Villanueva, B. 2011 2011-07-23 PMC N PMC3176547 21527777.0 10.1534/genetics.110.125625 4w9lbkz0 0.459164 Li_C_2018, Siva-Jothy_2019 Siva-Jothy_2019
45 Tildesley_2009 Is R(0) a good predictor of final epidemic size: Foot-and-Mouth Disease in the UK Tildesley, Michael J.; Keeling, Matt J. 2009 2009-06-01 PMC N PMC2895684 19269297.0 10.1016/j.jtbi.2009.02.019 pcpzmqzr 0.443488 Li_C_2018, Wu_Q_2014, Giardina_2017, O'Dea_2010, Welch_2011 Safi_2011, Chis_Ster_2007, O’Dea_2015, White_2013
46 Nishiura_2012 Estimating the transmission potential of supercritical processes based on the final size distribution of minor outbreaks Nishiura, Hiroshi; Yan, Ping; Sleeman, Candace K.; Mode, Charles J. 2012 2012-02-07 None N PMC3249525 22079419.0 10.1016/j.jtbi.2011.10.039 il12z4yh 0.442772 Li_C_2018, Kenah_2012, Lloyd_2009, Kenah_2007, Welch_2011 Safi_2011, Kucharski_2015, Clancy_2015, Nishiura_2006
47 Lachiany_2016 Effects of distribution of infection rate on epidemic models Lachiany, Menachem; Louzoun, Yoram 2016 2016-08-11 PMC N PMC7088461 27627337.0 10.1103/physreve.94.022409 jhokn5bu 0.438951 Raja_Sekhara_Rao_2015, Denphedtnong_2013, Safi_2011, Sherborne_2015
48 Prem_2017 Projecting social contact matrices in 152 countries using contact surveys and demographic data Prem, Kiesha; Cook, Alex R.; Jit, Mark 2017 2017-09-12 COMM-USE N PMC5609774 28898249.0 10.1371/journal.pcbi.1005697 4d9sm2y2 0.438684 Chen_2007, Stein_2014, Yang_2020
49 Lloyd-Smith_2005 Superspreading and the effect of individual variation on disease emergence Lloyd-Smith, J. O.; Schreiber, S. J.; Kopp, P. E.; Getz, W. M. 2005 2005-01-01 None N PMC7094981 16292310.0 10.1038/nature04153 4zy3f8m8 0.437240 Li_C_2018, O'Dea_2010 Kucharski_2015, Safi_2011
50 Yan_P_2008 Distribution Theory, Stochastic Processes and Infectious Disease Modelling Yan, Ping 2008 2008-01-01 PMC N PMC7122172 10.1007/978-3-540-78911-6_10 o9kb7irj 0.424852 Bocharov_2018, Zheng_2020 Sherborne_2015, Safi_2011, Raja_Sekhara_Rao_2015, Chen_2019
51 Kraemer_2015 Big city, small world: Density, contact rates, and transmission of dengue across Pakistan. Moritz U. G. Kraemer; T. Alex Perkins; Derek A.T. Cummings; Rubeena Zakar; Simon I. Hay; David L. Smith; Robert C. Reiner 2015 2015-04-27 BioRxiv N 10.1101/018481 8ilzm51q 0.419419 O'Dea_2010, Bifolchi_2013, Li_C_2018, Welch_2011, Bocharov_2018 Kraemer_2015, Kretzschmar_2020
52 Chen_2014 Highly dynamic animal contact network and implications on disease transmission Chen, Shi; White, Brad J.; Sanderson, Michael W.; Amrine, David E.; Ilany, Amiyaal; Lanzas, Cristina 2014 2014-03-26 NONCOMM N PMC3966050 24667241.0 10.1038/srep04472 1pp7k1k6 0.418625 Bifolchi_2013, Welch_2011, Li_C_2018, Giardina_2017, O'Dea_2010 Yang_2020, Van_Segbroeck_2010, Real_2007
53 Li_C_2018 Modeling and analysis of epidemic spreading on community networks with heterogeneity Li, Chanchan; Jiang, Guo-ping; Song, Yurong; Xia, Lingling; Li, Yinwei; Song, Bo 2018 2018-09-30 PMC N PMC7127304 10.1016/j.jpdc.2018.04.009 h1i29kcq 0.414456 Welch_2011, Wu_Q_2014, Kenah_2007, Gong_2013 Gong_2014, Chanchan_2016, Shang_2013, Kan_J_2017
54 Wendelboe_2010 The Benefits of Transmission Dynamics Models in Understanding Emerging Infectious Diseases Wendelboe, Aaron M.; Grafe, Carl; Carabin, Hélène 2010 2010-09-30 PMC N PMC7093843 20697262.0 10.1097/maj.0b013e3181e937ca 3r0kzn4y 0.411502 Bifolchi_2013, Chowell_2017 Real_2007, Remais_2010, Kucharski_2015, Safi_2011
55 Tuckwell_2007 Dynamical modeling of viral spread in spatially distributed populations: stochastic origins of oscillations and density dependence Tuckwell, Henry C.; Toubiana, Laurent 2007 2007-10-31 PMC N PMC7115796 17324498.0 10.1016/j.biosystems.2006.12.006 9wxa6jcl 0.410862 Li_C_2018, Welch_2011, Bifolchi_2013, Pacheco_2017 Roy_M_2006, Feng_2018
56 Welch_2011 Is Network Clustering Detectable in Transmission Trees? Welch, David 2011 2011-06-03 COMM-USE N PMC3127449 21731813.0 10.3390/v3060659 tlluxd11 0.409824 Bifolchi_2013, Giardina_2017, Li_C_2018 Giardina_2017, Chen_2014, Strona_2018
57 Shi_T_2019 Effects of asymptomatic infection on the dynamical interplay between behavior and disease transmission in multiplex networks Shi, Tianyu; Long, Ting; Pan, Yaohui; Zhang, Wensi; Dong, Chao; Yin, Qiuju 2019 2019-12-15 PMC N PMC7125818 10.1016/j.physa.2019.04.266 51n89hvc 0.408165 Li_C_2018, Welch_2011, Pacheco_2017 Kan_J_2017, Hsu_S_2007, Denphedtnong_2013
58 Ejima_2013 The Impact of Model Building on the Transmission Dynamics under Vaccination: Observable (Symptom-Based) versus Unobservable (Contagiousness-Dependent) Approaches Ejima, Keisuke; Aihara, Kazuyuki; Nishiura, Hiroshi 2013 2013-04-12 COMM-USE N PMC3625221 23593507.0 10.1371/journal.pone.0062062 xjfdin77 0.407073 Bocharov_2018, Bifolchi_2013, Chowell_2017, Wu_Q_2014, O'Dea_2010 Raja_Sekhara_Rao_2015, Wells_2011, Nishiura_2009
59 Ahmed_2007 On fractional order differential equations model for nonlocal epidemics Ahmed, E.; Elgazzar, A.S. 2007 2007-06-15 PMC N PMC7125871 10.1016/j.physa.2007.01.010 dmtb3icf 0.396434 Hassouna_2018, Fan_K_2020, Sirijampa_2018, Yuan_2018
60 Bansal_2007 When individual behaviour matters: homogeneous and network models in epidemiology Bansal, Shweta; Grenfell, Bryan T; Meyers, Lauren Ancel 2007 2007-07-19 PMC N PMC2394553 17640863.0 10.1098/rsif.2007.1100 2uj161bb 0.395561 Bifolchi_2013, O'Dea_2010, Welch_2011 Chen_2014, Kong_2016, Feng_2018, Bioglio_2016
61 Hsu_S_2007 On the Role of Asymptomatic Infection in Transmission Dynamics of Infectious Diseases Hsu, Sze-Bi; Hsieh, Ying-Hen 2007 2007-08-15 PMC N PMC7089371 17701259.0 10.1007/s11538-007-9245-6 ramd5lit 0.390727 Li_C_2018, Welch_2011, Bifolchi_2013, Wu_Q_2014 Raja_Sekhara_Rao_2015, Safi_2011, Kucharski_2015, Voinson_2018
62 Hotchkiss_2006 Pathogen Transmission and Clinic Scheduling Hotchkiss, John R.; Strike, David G.; Crooke, Philip S. 2006 2006-01-23 PMC N PMC3291384 16494737.0 10.3201/eid1201.050349 a6ahq3nj 0.390493
63 Zhang_2011 Risk estimation of infectious diseases determines the effectiveness of the control strategy Zhang, Haifeng; Zhang, Jie; Li, Ping; Small, Michael; Wang, Binghong 2011 2011-05-15 PMC N PMC7114255 10.1016/j.physd.2011.02.001 g5l93qld 0.383840 Denphedtnong_2013, Raja_Sekhara_Rao_2015, Herrera-Diestra_2019, Pharaon_2018
64 Kong_2016 Modeling Heterogeneity in Direct Infectious Disease Transmission in a Compartmental Model Kong, Lingcai; Wang, Jinfeng; Han, Weiguo; Cao, Zhidong 2016 2016-02-24 COMM-USE N PMC4808916 26927140.0 10.3390/ijerph13030253 bm9z8gss 0.380405 Bifolchi_2013, Li_C_2018, Welch_2011, Chowell_2017, O'Dea_2010 Safi_2011, Kong_2018, Real_2007, Raja_Sekhara_Rao_2015
65 Tang_2020 Stochastic discrete epidemic modeling of COVID-19 transmission in the Province of Shaanxi incorporating public health intervention and case importation Sanyi Tang; Biao Tang; Nicola Luigi Bragazzi; Fan Xia; Tangjuan Li; Sha He; Pengyu Ren; Xia Wang; Zhihang Peng; Yanni Xiao; Jianhong Wu 2020 2020-02-29 BioRxiv Y 10.1101/2020.02.25.20027615 aoqyx8mk 0.379911 Li_C_2018, Wu_Q_2014 Peng_2020
66 Safi_2011 Qualitative study of a quarantine/isolation model with multiple disease stages Safi, Mohammad A.; Gumel, Abba B. 2011 2011-11-01 PMC N PMC7112307 10.1016/j.amc.2011.07.007 ge871ypq 0.375509 Li_C_2018, Welch_2011, Sadun_2020, Wu_Q_2014, O'Dea_2010 Safi_2013, Imran_2018, Kucharski_2015
67 Sadun_2020 Effects of latency on estimates of the COVID-19 replication number Lorenzo A Sadun 2020 2020-04-10 BioRxiv Y 10.1101/2020.04.07.20056960 wvj3kse0 0.371571 Li_C_2018, O'Dea_2010 Kretzschmar_2020
68 O'Dea_2010 Contact Heterogeneity and Phylodynamics: How Contact Networks Shape Parasite Evolutionary Trees O'Dea, Eamon B.; Wilke, Claus O. 2010 2010-12-01 COMM-USE N PMC2995904 21151699.0 10.1155/2011/238743 i7navmbn 0.369207 Bocharov_2018, Giardina_2017 Giardina_2017
69 Van_Segbroeck_2010 Adaptive Contact Networks Change Effective Disease Infectiousness and Dynamics Van Segbroeck, Sven; Santos, Francisco C.; Pacheco, Jorge M. 2010 2010-08-19 None N PMC2924249 20808884.0 10.1371/journal.pcbi.1000895 yc8rjjyf 0.369122 Li_C_2018, Pacheco_2017, Bifolchi_2013, O'Dea_2010 Pacheco_2017, Kan_J_2017, Yang_2020
70 Kubiak_2010 Insights into the Evolution and Emergence of a Novel Infectious Disease Kubiak, Ruben J.; Arinaminpathy, Nimalan; McLean, Angela R. 2010 2010-09-30 COMM-USE N PMC2947978 20941384.0 10.1371/journal.pcbi.1000947 3n05cb49 0.366578 Li_C_2018, O'Dea_2010, Welch_2011, Bifolchi_2013 Kucharski_2015
71 Hochberg_2020 Importance of suppression and mitigation measures in managing COVID-19 outbreaks Michael E. Hochberg 2020 2020-04-02 BioRxiv Y 10.1101/2020.03.31.20048835 4fkb1udl 0.363083 Wu_Q_2014, Li_C_2018, Welch_2011 Kretzschmar_2020, Kretzschmar_2004, Safi_2011, Kucharski_2015
72 Huang_2008 A new SEIR epidemic model with applications to the theory of eradication and control of diseases, and to the calculation of R 0 Huang, Sen-Zhong 2008 2008-09-30 PMC N 10.1016/j.mbs.2008.06.005 rqkj65wc 0.362992 Bifolchi_2013, Lloyd_2009, Chowell_2017, Kenah_2012 Safi_2011, Shi_P_2020, Raja_Sekhara_Rao_2015
73 Zhao_2020 Modelling the effective reproduction number of vector-borne diseases: the yellow fever outbreak in Luanda, Angola 2015–2016 as an example Zhao, Shi; Musa, Salihu S.; Hebert, Jay T.; Cao, Peihua; Ran, Jinjun; Meng, Jiayi; He, Daihai; Qin, Jing 2020 2020-02-27 COMM-USE N PMC7049463 32149023.0 10.7717/peerj.8601 lw434j5u 0.361512 Imran_2018
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75 Isdory_2015 The Impact of Human Mobility on HIV Transmission in Kenya Isdory, Augustino; Mureithi, Eunice W.; Sumpter, David J. T. 2015 2015-11-24 None N PMC4657931 26599277.0 10.1371/journal.pone.0142805 wy4ayluv 0.358129 Li_C_2018, O'Dea_2010, Welch_2011 Wang_2012, Stein_2014
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77 Chen_2019 Modelling the outbreak of infectious disease following mutation from a non-transmissible strain Chen, C.Y.; Ward, J.P.; Xie, W.B. 2019 2019-04-30 PMC N PMC7157483 30165060.0 10.1016/j.tpb.2018.08.002 6ev4ed6z 0.352721 Bifolchi_2013, Li_C_2018, Bocharov_2018, Wu_Q_2014, O'Dea_2010 Safi_2011, Kretzschmar_2020, Voinson_2018, Ng_T_2003
78 Stack_2013 Inferring population-level contact heterogeneity from common epidemic data Stack, J. Conrad; Bansal, Shweta; Kumar, V. S. Anil; Grenfell, Bryan 2013 2013-01-06 COMM-USE N PMC3565785 23034353.0 10.1098/rsif.2012.0578 b8eulbpy 0.350691 Bocharov_2018, O'Dea_2010, Lemey_2009, Li_C_2018 White_2013, Kretzschmar_2020, Real_2007
79 Heffernan_2005 Perspectives on the basic reproductive ratio Heffernan, J.M; Smith, R.J; Wahl, L.M 2005 2005-06-07 PMC N PMC1578275 16849186.0 10.1098/rsif.2005.0042 m3699mub 0.347509 Tennant_2018, Kucharski_2015, Hilton_2020, Li_J_2011
80 Neher_2020 Potential impact of seasonal forcing on a SARS-CoV-2 pandemic Richard A Neher; Robert Dyrdak; Valentin Druelle; Emma B Hodcroft; Jan Albert 2020 2020-02-17 BioRxiv Y 10.1101/2020.02.13.20022806 3p2dl8yf 0.346745 Li_C_2018
81 Falcón-Lezama_2016 Day-to-Day Population Movement and the Management of Dengue Epidemics Falcón-Lezama, Jorge A.; Martínez-Vega, Ruth A.; Kuri-Morales, Pablo A.; Ramos-Castañeda, José; Adams, Ben 2016 2016-10-04 COMM-USE N PMC5069346 27704330.0 10.1007/s11538-016-0209-6 a2jsorm2 0.345657 Imran_2018, Chin_2019, Akhmetzhanov_2019
82 Fouchet_2009 Using Dynamic Stochastic Modelling to Estimate Population Risk Factors in Infectious Disease: The Example of FIV in 15 Cat Populations Fouchet, David; Leblanc, Guillaume; Sauvage, Frank; Guiserix, Micheline; Poulet, Hervé; Pontier, Dominique 2009 2009-10-16 COMM-USE N PMC2770169 19888418.0 10.1371/journal.pone.0007377 nn09hh29 0.345387 Li_C_2018, O'Dea_2010, Welch_2011, Giardina_2017 Akhmetzhanov_2019
83 Kenah_2008 Generation interval contraction and epidemic data analysis Kenah, Eben; Lipsitch, Marc; Robins, James M. 2008 2008-05-01 PMC N PMC2365921 18394654.0 10.1016/j.mbs.2008.02.007 fdmbqeaj 0.340903 Li_C_2018, Wu_Q_2014, O'Dea_2010 Torneri_2019, Ferguson_2009, Kretzschmar_2020, Ferguson_2005
84 Edholm_2018 Searching for Superspreaders: Identifying Epidemic Patterns Associated with Superspreading Events in Stochastic Models Edholm, Christina J.; Emerenini, Blessing O.; Murillo, Anarina L.; Saucedo, Omar; Shakiba, Nika; Wang, Xueying; Allen, Linda J. S.; Peace, Angela 2018 2018-10-25 PMC N PMC7123311 10.1007/978-3-319-98083-6_1 1tkevj8v 0.340406 Li_C_2018, Bifolchi_2013 Safi_2011, Kucharski_2015, Kretzschmar_2020
85 Brienen_2010 The Effect of Mask Use on the Spread of Influenza During a Pandemic Brienen, Nicole C. J.; Timen, Aura; Wallinga, Jacco; Van Steenbergen, Jim E.; Teunis, Peter F. M. 2010 2010-05-20 PMC N PMC7169241 20497389.0 10.1111/j.1539-6924.2010.01428.x mfb2or98 0.339972 Wu_Q_2014
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90 Hochberg_2020 Countries should aim to lower the reproduction number R close to 1.0 for the short-term mitigation of COVID-19 outbreaks Michael E. Hochberg 2020 2020-04-17 BioRxiv Y 10.1101/2020.04.14.20065268 f36smzln 0.323447
91 Xu_Z_2014 Long-Distance Travel Behaviours Accelerate and Aggravate the Large-Scale Spatial Spreading of Infectious Diseases Xu, Zhijing; Zu, Zhenghu; Zheng, Tao; Zhang, Wendou; Xu, Qing; Liu, Jinjie 2014 2014-01-08 COMM-USE N PMC3910471 24511324.0 10.1155/2014/295028 kjmz9c0n 0.322834 Li_C_2018, Welch_2011, Pacheco_2017, O'Dea_2010, Bifolchi_2013 Ruan_2015, Denphedtnong_2013, Apolloni_2013
92 Gao_X_2016 Building Ventilation as an Effective Disease Intervention Strategy in a Dense Indoor Contact Network in an Ideal City Gao, Xiaolei; Wei, Jianjian; Lei, Hao; Xu, Pengcheng; Cowling, Benjamin J.; Li, Yuguo 2016 2016-09-09 None N PMC5017609 27611368.0 10.1371/journal.pone.0162481 zl6su36n 0.322531 Li_C_2018, Bifolchi_2013
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94 Bongolan_2020 Age-stratified Infection Probabilities Combined with Quarantine-Modified SEIR Model in the Needs Assessments for COVID-19 Vena Pearl Bongolan; Jose Marie Antonio Minoza; Romulo de Castro; Jesus Emmanuel Sevilleja 2020 2020-04-11 BioRxiv Y 10.1101/2020.04.08.20057851 o8aexv4p 0.321350 Kenah_2012, Li_C_2018, Griette_2020, Welch_2011 Safi_2011, Hilton_2020
95 Bolzoni_2017 Time-optimal control strategies in SIR epidemic models Bolzoni, Luca; Bonacini, Elena; Soresina, Cinzia; Groppi, Maria 2017 2017-10-31 PMC N PMC7094293 28801246.0 10.1016/j.mbs.2017.07.011 4dzqzwx0 0.321121 Li_C_2018, Wu_Q_2014, Lauro_2020 Iacoviello_2013, Chen_2018, Yan_X_2008, Raja_Sekhara_Rao_2015
96 Andrews_2016 The impacts of simultaneous disease intervention decisions on epidemic outcomes Andrews, Michael A.; Bauch, Chris T. 2016 2016-04-21 PMC N PMC7094134 26829313.0 10.1016/j.jtbi.2016.01.027 1152vpv5 0.319611 Li_C_2018, Wu_Q_2014 Raja_Sekhara_Rao_2015, Pharaon_2018, Pharaon_2018
97 Torneri_2020 A prospect on the use of antiviral drugs to control local outbreaks of COVID-19 Andrea Torneri; Pieter Jules Karel Libin; Joris Vanderlocht; Anne-Mieke Vandamme; Johan Neyts; Niel Hens 2020 2020-03-20 BioRxiv Y 10.1101/2020.03.19.20038182 9sr5b44k 0.318124 Wu_Q_2014, Mondor_2012, Li_C_2018
98 Yu_B_2010 Gryphon: A Hybrid Agent-Based Modeling and Simulation Platform for Infectious Diseases Yu, Bin; Wang, Jijun; McGowan, Michael; Vaidyanathan, Ganesh; Younger, Kristofer 2010 2010-01-01 PMC N PMC7122863 10.1007/978-3-642-12079-4_26 q3gj4raw 0.317409 Bocharov_2018, Chowell_2017, O'Dea_2010 Gomez_2020, Nadeau_2014, Chen_2019
99 Heffernan_2006 Improving estimates of the basic reproductive ratio: Using both the mean and the dispersal of transition times Heffernan, J.M.; Wahl, L.M. 2006 2006-09-30 PMC N PMC7126117 16712889.0 10.1016/j.tpb.2006.03.003 rqqke40c 0.315203 Lloyd_2009, Bocharov_2018, Li_C_2018, O'Dea_2010 Tennant_2018, Heffernan_2005, Kucharski_2015, Clancy_2015
100 Herrera-Diestra_2019 Local risk perception enhances epidemic control Herrera-Diestra, José L.; Meyers, Lauren Ancel 2019 2019-12-03 COMM-USE N PMC6890219 31794551.0 10.1371/journal.pone.0225576 9c0zrp7p 0.313725 Maharaj_2012
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102 Blanchong_2006 TB-infected deer are more closely related than non-infected deer Blanchong, Julie A; Scribner, Kim T; Kravchenko, Alexandra N; Winterstein, Scott R 2006 2006-10-24 PMC N PMC2373800 17443977.0 10.1098/rsbl.2006.0547 bynmuc3g 0.303904
103 Bombardt_2006 Congruent epidemic models for unstructured and structured populations: Analytical reconstruction of a 2003 SARS outbreak Bombardt, John N. 2006 2006-10-31 PMC N PMC7094332 16904134.0 10.1016/j.mbs.2006.05.004 a9fds45e 0.303767 Bifolchi_2013, Kenah_2007, Duan_2015, Grassly_2008, Li_K_2011 Safi_2011, Colizza_2007
104 Blumberg_2013 Inference of R (0) and Transmission Heterogeneity from the Size Distribution of Stuttering Chains Blumberg, Seth; Lloyd-Smith, James O. 2013 2013-05-02 COMM-USE N PMC3642075 23658504.0 10.1371/journal.pcbi.1002993 yv9zv5u4 0.301836 Safi_2011, Blumberg_2014, Kretzschmar_2020, Kucharski_2015
105 Mohamad_Mohsin_2014 Outbreak detection model based on danger theory Mohamad Mohsin, Mohamad Farhan; Abu Bakar, Azuraliza; Hamdan, Abdul Razak 2014 2014-11-30 PMC N 10.1016/j.asoc.2014.08.030 dze1vp3a 0.300835 Bocharov_2018, Li_C_2018, Li_K_2011, Lloyd_2009