Topic 01 -- Abstracts with Biological Entities (English) - 75 Topics / Sub-Topic Model 35 - 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 Cong_2013 Transcriptome analysis of chicken kidney tissues following coronavirus avian infectious bronchitis virus infection Cong, Feng; Liu, Xiaoli; Han, Zongxi; Shao, Yuhao; Kong, Xiangang; Liu, Shengwang 2013 2013-10-30 COMM-USE N PMC3870970 24168272.0 10.1186/1471-2164-14-743 trhkv18o 0.925330 Trobaugh_2017, Haasnoot_2010 Cao_Z_2011
2 Barber_2013 Identification of avian RIG-I responsive genes during influenza infection Barber, Megan RW; Aldridge, Jerry R; Fleming-Canepa, Ximena; Wang, Yong-Dong; Webster, Robert G; Magor, Katharine E 2013 2013-05-01 PMC N PMC3565471 23220072.0 10.1016/j.molimm.2012.10.038 ql7tq62p 0.837497 Vanderven_2012
3 Miao_2015 Transcriptional Profiling of Host Gene Expression in Chicken Embryo Fibroblasts Infected with Reticuloendotheliosis Virus Strain HA1101 Miao, Ji; Bao, Yanqing; Ye, Jianqiang; Shao, Hongxia; Qian, Kun; Qin, Aijian 2015 2015-05-14 COMM-USE N PMC4431687 25973612.0 10.1371/journal.pone.0126992 7zw2kue9 0.812626 Trobaugh_2017, Haasnoot_2010, Herbert_2016
4 Zhang_2006 Signature patterns revealed by microarray analyses of mice infected with influenza virus A and Streptococcus pneumoniae Zhang, Hong; Su, Yan A.; Hu, Peisheng; Yang, Jun; Zheng, Biyu; Wu, Peter; Peng, Jingzhong; Tang, Yanlin; Zhang, Lin 2006 2006-07-31 PMC N PMC7110625 16797204.0 10.1016/j.micinf.2006.04.018 78xll47t 0.809218 Trobaugh_2017, Haasnoot_2010, Herbert_2016
5 Dar_A_2005 Transcriptional analysis of avian embryonic tissues following infection with avian infectious bronchitis virus Dar, Arshud; Munir, Shirin; Vishwanathan, Satya; Manuja, Anju; Griebel, Philip; Tikoo, Suresh; Townsend, Hugh; Potter, Andrew; Kapur, Vivek; Babiuk, Lorne A. 2005 2005-06-30 PMC N PMC7114260 15845254.0 10.1016/j.virusres.2005.01.006 71trm8pq 0.799950 Trobaugh_2017, Herbert_2016
6 Vanderven_2012 Avian influenza rapidly induces antiviral genes in duck lung and intestine Vanderven, Hillary A.; Petkau, Kristina; Ryan-Jean, Kieran E. E.; Aldridge, Jerry R.; Webster, Robert G.; Magor, Katharine E. 2012 2012-07-01 PMC N PMC3358531 22534314.0 10.1016/j.molimm.2012.03.034 dh2hxqsv 0.745408 Barber_2013 Barber_2013
7 Chang_2011 Next-Generation Sequencing Reveals HIV-1-Mediated Suppression of T Cell Activation and RNA Processing and Regulation of Noncoding RNA Expression in a CD4(+) T Cell Line Chang, Stewart T.; Sova, Pavel; Peng, Xinxia; Weiss, Jeffrey; Law, G. Lynn; Palermo, Robert E.; Katze, Michael G. 2011 2011-09-20 NONCOMM N PMC3175625 21933919.0 10.1128/mbio.00134-11 zyzgk2z3 0.725176 Trobaugh_2017, Herbert_2016
8 Chasman_2016 Integrating Transcriptomic and Proteomic Data Using Predictive Regulatory Network Models of Host Response to Pathogens Chasman, Deborah; Walters, Kevin B.; Lopes, Tiago J. S.; Eisfeld, Amie J.; Kawaoka, Yoshihiro; Roy, Sushmita 2016 2016-07-12 COMM-USE N PMC4942116 27403523.0 10.1371/journal.pcbi.1005013 zlqh436d 0.722880 Trobaugh_2017, Haasnoot_2010 Trypsteen_2016
9 Liu_X_2015 The Porcine MicroRNA Transcriptome Response to Transmissible Gastroenteritis Virus Infection Liu, Xiao; Zhu, Ling; Liao, Shan; Xu, Zhiwen; Zhou, Yuancheng 2015 2015-03-17 COMM-USE N PMC4363316 25781021.0 10.1371/journal.pone.0120377 su6mcaf1 0.707495 Trobaugh_2017, Haasnoot_2010, Herbert_2016 Liu_X_2018, Liui_2020
10 Yu_G_2018 Comparative Transcriptomic Analysis of Immune-Related Gene Expression in Duck Embryo Fibroblasts Following Duck Tembusu Virus Infection Yu, Guanliu; Lin, Yun; Tang, Yi; Diao, Youxiang 2018 2018-08-08 COMM-USE N PMC6121397 30096804.0 10.3390/ijms19082328 254pm5cr 0.694492
11 Xiaoyang_2013 Global analysis of differential expressed genes in ECV304 Endothelial-like cells infected with human cytomegalovirus Xiaoyang, Mo; Haiquan, Z; Huanying, Z; Changwen, K; Wenling, Z; Yanyang, Tu; Yongsheng, Z 2013 2013-09-05 PMC N PMC3824489 24235919.0 10.4314/ahs.v13i2.6 73j6vpol 0.693508 Trobaugh_2017, Haasnoot_2010, Herbert_2016 Zhang_2014, Liu_W_2018, Zhang_2016, Wang_2009
12 Zhang_2014 Differential expressed genes in ECV304 Endothelial-like Cells infected with Human Cytomegalovirus Zhang, Yali; Ma, Wenli; Mo, Xiaoyang; Zhao, Haiquan; Zheng, Huanying; Ke, Changwen; Zheng, Wenling; Tu, Yanyang; Zhang, Yongsheng 2014 2014-01-23 PMC N PMC4056481 24940306.0 10.4314/ahs.v13i4.2 8lurg2tx 0.686317 Trobaugh_2017, Haasnoot_2010, Herbert_2016 Xiaoyang_2013, Zhang_2016, Wang_2009
13 Lederer_2006 Distinct cellular responses differentiating alcohol- and hepatitis C virus-induced liver cirrhosis Lederer, Sharon L; Walters, Kathie-Anne; Proll, Sean; Paeper, Bryan; Robinzon, Shahar; Boix, Loreto; Fausto, Nelson; Bruix, Jordi; Katze, Michael G 2006 2006-11-22 COMM-USE N PMC1676004 17121680.0 10.1186/1743-422x-3-98 phkoh08y 0.681751 Trobaugh_2017, Haasnoot_2010, Herbert_2016
14 Chen_2019 Profile analysis of circRNAs induced by porcine endemic diarrhea virus infection in porcine intestinal epithelial cells Chen, Jianing; Wang, Haiwen; Jin, Li; Wang, Liyuan; Huang, Xin; Chen, Wenwen; Yan, Miaomiao; Liu, Guangliang 2019 2019-01-15 None N PMC7112103 30530223.0 10.1016/j.virol.2018.11.014 j7pde2la 0.677538 Trobaugh_2017, Haasnoot_2010 Liui_2020
15 Josset_2014 Annotation of long non-coding RNAs expressed in Collaborative Cross founder mice in response to respiratory virus infection reveals a new class of interferon-stimulated transcripts Josset, Laurence; Tchitchek, Nicolas; Gralinski, Lisa E; Ferris, Martin T; Eisfeld, Amie J; Green, Richard R; Thomas, Matthew J; Tisoncik-Go, Jennifer; Schroth, Gary P; Kawaoka, Yoshihiro; Pardo-Manuel de Villena, Fernando; Baric, Ralph S; Heise, Mark T; Peng, Xinxia; Katze, Michael G 2014 2014-06-12 None N PMC4179962 24922324.0 10.4161/rna.29442 qwwmf4p1 0.662318 Trobaugh_2017, Haasnoot_2010, Herbert_2016, Atianand_2014 Trypsteen_2016, Liu_W_2018, Peng_2011
16 Reza_Etemadi_2017 Gene expression patterns induced at different stages of rhinovirus infection in human alveolar epithelial cells Reza Etemadi, Mohammad; Ling, King-Hwa; Zainal Abidin, Shahidee; Chee, Hui-Yee; Sekawi, Zamberi 2017 2017-05-30 COMM-USE N PMC5448745 28558071.0 10.1371/journal.pone.0176947 w77jb4s8 0.657779 Trobaugh_2017, Haasnoot_2010 Ding_2012
17 Peng_2010 Unique Signatures of Long Noncoding RNA Expression in Response to Virus Infection and Altered Innate Immune Signaling Peng, Xinxia; Gralinski, Lisa; Armour, Christopher D.; Ferris, Martin T.; Thomas, Matthew J.; Proll, Sean; Bradel-Tretheway, Birgit G.; Korth, Marcus J.; Castle, John C.; Biery, Matthew C.; Bouzek, Heather K.; Haynor, David R.; Frieman, Matthew B.; Heise, Mark; Raymond, Christopher K.; Baric, Ralph S.; Katze, Michael G. 2010 2010-10-26 NONCOMM N PMC2962437 20978541.0 10.1128/mbio.00206-10 iftvp09u 0.649339 Trobaugh_2017, Herbert_2016, Haasnoot_2010
18 Ma_R_2014 Proteome Profile of Swine Testicular Cells Infected with Porcine Transmissible Gastroenteritis Coronavirus Ma, Ruili; Zhang, Yanming; Liu, Haiquan; Ning, Pengbo 2014 2014-10-21 COMM-USE N PMC4204940 25333634.0 10.1371/journal.pone.0110647 llnqzkqt 0.647317 Trobaugh_2017, Haasnoot_2010 Ding_2012
19 Liu_H_2017 Comparative transcriptome analysis reveals induction of apoptosis in chicken kidney cells associated with the virulence of nephropathogenic infectious bronchitis virus Liu, Hui; Yang, Xin; Zhang, Zhikun; Li, Jianan; Zou, Wencheng; Zeng, Fanya; Wang, Hongning 2017 2017-12-31 PMC N PMC7126322 29174688.0 10.1016/j.micpath.2017.11.031 6zc603yw 0.633841 Cong_2013, Cao_Z_2011
20 Juranic_Lisnic_2013 Dual Analysis of the Murine Cytomegalovirus and Host Cell Transcriptomes Reveal New Aspects of the Virus-Host Cell Interface Juranic Lisnic, Vanda; Babic Cac, Marina; Lisnic, Berislav; Trsan, Tihana; Mefferd, Adam; Das Mukhopadhyay, Chitrangada; Cook, Charles H.; Jonjic, Stipan; Trgovcich, Joanne 2013 2013-09-26 COMM-USE N PMC3784481 24086132.0 10.1371/journal.ppat.1003611 jvl63652 0.633695 Trobaugh_2017, Haasnoot_2010, Herbert_2016 Trypsteen_2016
21 Cho_W_2012 Genome-wide expression profiling shows transcriptional reprogramming in Fusarium graminearum by Fusarium graminearum virus 1-DK21 infection Cho, Won Kyong; Yu, Jisuk; Lee, Kyung-Mi; Son, Moonil; Min, Kyunghun; Lee, Yin-Won; Kim, Kook-Hyung 2012 2012-05-06 COMM-USE N PMC3478160 22559730.0 10.1186/1471-2164-13-173 kf9m4zho 0.614677 Trobaugh_2017, Haasnoot_2010, Herbert_2016 Thibivilliers_2009
22 GU_S_2014 Aberrant expression of long noncoding RNAs in chronic thromboembolic pulmonary hypertension GU, SONG; LI, GUANGHUI; ZHANG, XITAO; YAN, JUN; GAO, JIE; AN, XIANGGUANG; LIU, YAN; SU, PIXIONG 2014 2014-12-17 COMM-USE N PMC4337719 25522749.0 10.3892/mmr.2014.3102 vldknsrm 0.610797 Trobaugh_2017, Haasnoot_2010, Atianand_2014, Wang_2007, Trypsteen_2016 Trypsteen_2016, Liui_2020, Liu_W_2018, Li_Y_2017
23 Liui_2020 Comprehensive Genomic Characterization Analysis of lncRNAs in Cells With Porcine Delta Coronavirus Infection Liui, Junli; Wang, Fangfang; Du, Liuyang; Li, Juan; Yu, Tianqi; Jin, Yulan; Yan, Yan; Zhou, Jiyong; Gu, Jinyan 2020 2020-01-01 COMM-USE N PMC6999024 32063887.0 10.3389/fmicb.2019.03036 fmb5nyxu 0.607242 Trobaugh_2017, Haasnoot_2010, Zhang_2013, Atianand_2014 Tang_2019, Trypsteen_2016, Chen_2019, Liu_X_2015
24 Lee_J_2012 Genome-wide host responses against infectious laryngotracheitis virus vaccine infection in chicken embryo lung cells Lee, Jeongyoon; Bottje, Walter G; Kong, Byung-Whi 2012 2012-04-24 COMM-USE N PMC3353197 22530940.0 10.1186/1471-2164-13-143 u1uvnlk2 0.602073
25 Nam_G_2018 Gene expression profiles alteration after infection of virus, bacteria, and parasite in the Olive flounder (Paralichthys olivaceus) Nam, Gyu-Hwi; Mishra, Anshuman; Gim, Jeong-An; Lee, Hee-Eun; Jo, Ara; Yoon, Dahye; Kim, Ahran; Kim, Woo-Jin; Ahn, Kung; Kim, Do-Hyung; Kim, Suhkmann; Cha, Hee-Jae; Choi, Yung Hyun; Park, Chan-Il; Kim, Heui-Soo 2018 2018-12-24 COMM-USE N PMC6305387 30584247.0 10.1038/s41598-018-36342-y 82573enr 0.600030 Trobaugh_2017, Haasnoot_2010 Xing_2019, Harun_2013
26 VanLeuven_2017 Lung epithelial cells have virus-specific and shared gene expression responses to infection by diverse respiratory viruses VanLeuven, James T.; Ridenhour, Benjamin J.; Gonzalez, Andres J.; Miller, Craig R.; Miura, Tanya A. 2017 2017-06-02 COMM-USE N PMC5456070 28575086.0 10.1371/journal.pone.0178408 b831y105 0.596598 Trobaugh_2017 VanLeuven_2016
27 Gardiner_2013 Gene expression analysis reveals schizophrenia-associated dysregulation of immune pathways in peripheral blood mononuclear cells Gardiner, Erin J.; Cairns, Murray J.; Liu, Bing; Beveridge, Natalie J.; Carr, Vaughan; Kelly, Brian; Scott, Rodney J.; Tooney, Paul A. 2013 2013-04-30 PMC N PMC7094548 23218666.0 10.1016/j.jpsychires.2012.11.007 qnwgiqfn 0.576121 Wang_2007, Trobaugh_2017, Haasnoot_2010, Yu_H_2007 Liu_W_2018
28 VanLeuven_2016 Lung epithelial cells have virus-specific and shared gene expression responses to infection by diverse respiratory viruses James T. VanLeuven; Benjamin J. Ridenhour; Craig R. Miller; Tanya A. Miura 2016 2016-12-02 BioRxiv N 10.1101/090936 iedh762s 0.567393 Trobaugh_2017 VanLeuven_2017
29 Ebenezer_2019 Genetic deletion of Sphk2 confers protection against Pseudomonas aeruginosa mediated differential expression of genes related to virulent infection and inflammation in mouse lung Ebenezer, David L.; Fu, Panfeng; Krishnan, Yashaswin; Maienschein-Cline, Mark; Hu, Hong; Jung, Segun; Madduri, Ravi; Arbieva, Zarema; Harijith, Anantha; Natarajan, Viswanathan 2019 2019-12-16 COMM-USE N PMC6916461 31842752.0 10.1186/s12864-019-6367-9 4ctnup7c 0.567117 Trobaugh_2017, Haasnoot_2010, Herbert_2016
30 Wang_2019 Identification of DNA methylation regulated novel host genes relevant to inhibition of virus replication in porcine PK15 cell using double stranded RNA mimics and DNA methyltransferase inhibitor Wang, Xiaoshuo; Ao, Hong; Song, Minyan; Bai, Lijing; He, Weiyong; Wang, Chuduan; Yu, Ying 2019 2019-12-31 None N PMC7125705 30315899.0 10.1016/j.ygeno.2018.09.020 cwlo3qpg 0.567057 Trobaugh_2017, Haasnoot_2010, Herbert_2016 Trypsteen_2016, Zhong_2017
31 Cao_Z_2011 Proteomic analysis of chicken embryonic trachea and kidney tissues after infection in ovo by avian infectious bronchitis coronavirus Cao, Zhongzan; Han, Zongxi; Shao, Yuhao; Geng, Heyuan; Kong, Xiangang; Liu, Shengwang 2011 2011-03-08 COMM-USE N PMC3060854 21385394.0 10.1186/1477-5956-9-11 6io780dm 0.565679 Trobaugh_2017 Ding_2012
32 Peng_2011 Integrative Deep Sequencing of the Mouse Lung Transcriptome Reveals Differential Expression of Diverse Classes of Small RNAs in Response to Respiratory Virus Infection Peng, Xinxia; Gralinski, Lisa; Ferris, Martin T.; Frieman, Matthew B.; Thomas, Matthew J.; Proll, Sean; Korth, Marcus J.; Tisoncik, Jennifer R.; Heise, Mark; Luo, Shujun; Schroth, Gary P.; Tumpey, Terrence M.; Li, Chengjun; Kawaoka, Yoshihiro; Baric, Ralph S.; Katze, Michael G. 2011 2011-11-15 NONCOMM N PMC3221602 22086488.0 10.1128/mbio.00198-11 hzh5tyoo 0.565065 Trobaugh_2017, Herbert_2016, Haasnoot_2010
33 Chen_2009 Understanding Haemophilus parasuis infection in porcine spleen through a transcriptomics approach Chen, Hongbo; Li, Changchun; Fang, Mingdi; Zhu, Mengjin; Li, Xinyun; Zhou, Rui; Li, Kui; Zhao, Shuhong 2009 2009-02-05 COMM-USE N PMC2660370 19196461.0 10.1186/1471-2164-10-64 kyw4ptr2 0.562962 Haasnoot_2010, Trobaugh_2017, Wang_2007, Atianand_2014, Juranic_Lisnic_2013
34 Song_2015 Transmissible Gastroenteritis Virus (TGEV) Infection Alters the Expression of Cellular MicroRNA Species That Affect Transcription of TGEV Gene 7 Song, Xiangjun; Zhao, Xiaomin; Huang, Yong; Xiang, Hailing; Zhang, Wenlong; Tong, Dewen 2015 2015-06-07 PMC N PMC4495409 26157346.0 10.7150/ijbs.11585 5vj3oasa 0.560052 Trobaugh_2017, Haasnoot_2010, Herbert_2016
35 Reghunathan_2005 Expression profile of immune response genes in patients with Severe Acute Respiratory Syndrome Reghunathan, Renji; Jayapal, Manikandan; Hsu, Li-Yang; Chng, Hiok-Hee; Tai, Dessmon; Leung, Bernard P; Melendez, Alirio J 2005 2005-01-18 COMM-USE Y PMC546205 15655079.0 10.1186/1471-2172-6-2 ic4d9dhk 0.559207 Trobaugh_2017, Haasnoot_2010, Herbert_2016 Hu_W_2012
36 Trypsteen_2016 Differential expression of lncRNAs during the HIV replication cycle: an underestimated layer in the HIV-host interplay Trypsteen, Wim; Mohammadi, Pejman; Van Hecke, Clarissa; Mestdagh, Pieter; Lefever, Steve; Saeys, Yvan; De Bleser, Pieter; Vandesompele, Jo; Ciuffi, Angela; Vandekerckhove, Linos; De Spiegelaere, Ward 2016 2016-10-26 None N PMC5080576 27782208.0 10.1038/srep36111 er3kkn9m 0.558385 Trobaugh_2017, Haasnoot_2010, Atianand_2014, Herbert_2016 Liu_W_2018
37 Tong_2017 Quantitative Analysis of Cellular Proteome Alterations in CDV-Infected Mink Lung Epithelial Cells Tong, Mingwei; Yi, Li; Sun, Na; Cheng, Yuening; Cao, Zhigang; Wang, Jianke; Li, Shuang; Lin, Peng; Sun, Yaru; Cheng, Shipeng 2017 2017-12-22 COMM-USE N PMC5743685 29312244.0 10.3389/fmicb.2017.02564 mu9jt1ul 0.557871 Trobaugh_2017 Ding_2012
38 Cong_2017 Global miRNA expression profiling of domestic cat livers following acute Toxoplasma gondii infection Cong, Wei; Zhang, Xiao-Xuan; He, Jun-Jun; Li, Fa-Cai; Elsheikha, Hany M.; Zhu, Xing-Quan 2017 2017-03-10 COMM-USE N PMC5421954 28424428.0 10.18632/oncotarget.16108 05tshufp 0.552093 Trobaugh_2017, Haasnoot_2010, Wang_2007, Atianand_2014, Herbert_2016 Xun_M_2015, Liui_2020, Liu_W_2018, Liu_X_2015
39 Ma_X_2019 Identification and analysis of long non-coding RNAs that are involved in inflammatory process in response to transmissible gastroenteritis virus infection Ma, Xuelian; Zhao, Xiaomin; Wang, Kaili; Tang, Xiaoyi; Guo, Jianxiong; Mi, Mi; Qi, Yanping; Chang, Lingling; Huang, Yong; Tong, Dewen 2019 2019-11-04 COMM-USE N PMC6829948 31684870.0 10.1186/s12864-019-6156-5 k62mtr9j 0.551268 Trobaugh_2017, Herbert_2016, Haasnoot_2010, Zhang_2013 Liui_2020, Liu_W_2018, Trypsteen_2016
40 Wang_2016 Comparative Transcriptome Analysis of Bombyx mori (Lepidoptera) Larval Midgut Response to BmNPV in Susceptible and Near-Isogenic Resistant Strains Wang, Xue-Yang; Yu, Hai-Zhong; Geng, Lei; Xu, Jia-Ping; Yu, Dong; Zhang, Shang-Zhi; Ma, Yan; Fei, Dong-Qiong 2016 2016-05-11 COMM-USE N PMC4864234 27168061.0 10.1371/journal.pone.0155341 z1b7pj3s 0.549648 Trobaugh_2017, Haasnoot_2010, Herbert_2016 Thibivilliers_2009
41 Chen_2019 Porcine endemic diarrhea virus infection regulates long noncoding RNA expression Chen, Jianing; Zhang, Chenyu; Zhang, Na; Liu, Guangliang 2019 2019-01-15 PMC N PMC7112091 30471453.0 10.1016/j.virol.2018.11.007 vourst8d 0.549577 Trobaugh_2017, Haasnoot_2010, Herbert_2016 Liui_2020, Trypsteen_2016, Liu_W_2018, Tang_2019
42 Sun_P_2019 Transcriptomic analysis of small intestinal mucosa from porcine epidemic diarrhea virus infected piglets Sun, Pei; Fahd, Qarih; Li, Yezhen; Sun, Yao; Li, Jie; Qaria, Majjid A.; He, Zhan Song; Fan, Yuzhen; Zhang, Qiang; Xu, Qianming; Yin, Zongjun; Xu, Xingang; Li, Yu 2019 2019-07-31 PMC N PMC7125762 31026494.0 10.1016/j.micpath.2019.04.033 ior76hux 0.548885 Trobaugh_2017, Haasnoot_2010, Juranic_Lisnic_2013, Liu_X_2015
43 Xun_M_2015 Differential expression of miRNAs in enterovirus 71-infected cells Xun, Meng; Ma, Chao-Feng; Du, Quan-Li; Ji, Yan-Hong; Xu, Ji-Ru 2015 2015-04-10 COMM-USE N PMC4416288 25889836.0 10.1186/s12985-015-0288-2 iumo7ioe 0.546027 Trobaugh_2017, Haasnoot_2010, Atianand_2014 Liu_X_2015
44 Zhao_2016 Distinct temporal changes in host cell lncRNA expression during the course of an adenovirus infection Zhao, Hongxing; Chen, Maoshan; Lind, Sara Bergström; Pettersson, Ulf 2016 2016-05-31 PMC N PMC7111612 27003248.0 10.1016/j.virol.2016.02.017 jx23qa3v 0.544085 Trobaugh_2017, Wang_2007, Haasnoot_2010, Herbert_2016, Atianand_2014 Trypsteen_2016, Liui_2020
45 Wang_2018 Transcriptomic insights into the early host-pathogen interaction of cat intestine with Toxoplasma gondii Wang, Meng; Zhang, Fu-Kai; Elsheikha, Hany M.; Zhang, Nian-Zhang; He, Jun-Jun; Luo, Jian-Xun; Zhu, Xing-Quan 2018 2018-11-14 COMM-USE N PMC6236892 30428922.0 10.1186/s13071-018-3179-8 s1v3wt0l 0.543965 Trobaugh_2017, Wang_2007, Yu_H_2007, Haasnoot_2010 Chen_2009
46 Niu_X_2017 Transcriptome analysis of avian reovirus-mediated changes in gene expression of normal chicken fibroblast DF-1 cells Niu, Xiaosai; Wang, Yuyang; Li, Min; Zhang, Xiaorong; Wu, Yantao 2017 2017-11-25 COMM-USE N PMC5702118 29178824.0 10.1186/s12864-017-4310-5 n952re94 0.543894 Trobaugh_2017, Haasnoot_2010, Wang_2007 Chen_2014
47 Cann_2016 Chapter 5 Expression Cann, Alan J. 2016 2016-12-31 PMC N 10.1016/b978-0-12-801946-7.00005-5 d47rpzcs 0.543411 Trobaugh_2017, Haasnoot_2010, Herbert_2016
48 Xu_C_2018 Potential mechanism and drug candidates for sepsis-induced acute lung injury Xu, Chenyuan; Guo, Zhengqiang; Zhao, Chuncheng; Zhang, Xufeng; Wang, Zheng 2018 2018-03-28 NONCOMM N PMC5952104 29805488.0 10.3892/etm.2018.6001 cc9gfl0t 0.529397 Haasnoot_2010, Wang_2007, Trobaugh_2017, Atianand_2014
49 Wang_2019 Global Mapping of H3K4 Trimethylation (H3K4me3) and Transcriptome Analysis Reveal Genes Involved in the Response to Epidemic Diarrhea Virus Infections in Pigs Wang, Haifei; Yang, Li; Qu, Huan; Feng, Haiyue; Wu, Shenglong; Bao, Wenbin 2019 2019-08-02 COMM-USE N PMC6719071 31382472.0 10.3390/ani9080523 b5r54vv0 0.527487 Trobaugh_2017, Haasnoot_2010, Bedadala_2007, Herbert_2016 Harun_2013
50 Lin_J_2019 Microarray analysis of infectious bronchitis virus infection of chicken primary dendritic cells Lin, Jian; Wang, Zhisheng; Wang, Jialu; Yang, Qian 2019 2019-07-08 COMM-USE N PMC6615177 31286855.0 10.1186/s12864-019-5940-6 meftw32x 0.523522 Trobaugh_2017, Haasnoot_2010, Herbert_2016
51 Carnero_2014 Type I Interferon Regulates the Expression of Long Non-Coding RNAs Carnero, Elena; Barriocanal, Marina; Segura, Victor; Guruceaga, Elizabeth; Prior, Celia; Börner, Kathleen; Grimm, Dirk; Fortes, Puri 2014 2014-11-06 COMM-USE N PMC4222131 25414701.0 10.3389/fimmu.2014.00548 h0q1m3ed 0.523211 Trobaugh_2017, Haasnoot_2010, Herbert_2016, Wang_2007 Valadkhan_2016
52 Valadkhan_2016 lncRNA-mediated regulation of the interferon response Valadkhan, Saba; Gunawardane, Lalith S. 2016 2016-01-02 None N PMC4744491 26474526.0 10.1016/j.virusres.2015.09.023 8f1quej1 0.523013 Trobaugh_2017, Herbert_2016, Haasnoot_2010
53 Jiang_2013 Reactomes of Porcine Alveolar Macrophages Infected with Porcine Reproductive and Respiratory Syndrome Virus Jiang, Zhihua; Zhou, Xiang; Michal, Jennifer J.; Wu, Xiao-Lin; Zhang, Lifan; Zhang, Ming; Ding, Bo; Liu, Bang; Manoranjan, Valipuram S.; Neill, John D.; Harhay, Gregory P.; Kehrli, Marcus E.; Miller, Laura C. 2013 2013-03-19 COMM-USE N PMC3602036 23527143.0 10.1371/journal.pone.0059229 ixzwk0f9 0.522837 Haasnoot_2010, Trobaugh_2017, Chasman_2016 Chen_2009
54 Houzet_2011 Genome-wide screening using RNAi (RNA interference) to study host factors in viral replication and pathogenesis Houzet, Laurent; Jeang, Kuan-Teh 2011 2011-08-01 PMC N PMC3415036 21727185.0 10.1258/ebm.2010.010272 bd34mx77 0.522743 Trobaugh_2017, Haasnoot_2010 Rothe_2010, Ma_Y_2007, Haddad_2011
55 Zeng_2018 Transcriptome Analysis Reveals Dynamic Gene Expression Profiles in Porcine Alveolar Macrophages in Response to the Chinese Highly Pathogenic Porcine Reproductive and Respiratory Syndrome Virus Zeng, Nanfang; Wang, Cong; Liu, Siyu; Miao, Qi; Zhou, Lei; Ge, Xinna; Han, Jun; Guo, Xin; Yang, Hanchun 2018 2018-04-29 COMM-USE N PMC5949201 29854728.0 10.1155/2018/1538127 pepenzvw 0.520299 Trobaugh_2017, Herbert_2016, Haasnoot_2010 Liui_2020
56 Zhang_2016 Transcriptome altered by latent human cytomegalovirus infection on THP-1 cells using RNA-seq Zhang, Qi; Lai, Mei-Mei; Lou, Yun-Yan; Guo, Bin-Han; Wang, Hui-Yan; Zheng, Xiao-Qun 2016 2016-12-05 None N PMC7126988 27623506.0 10.1016/j.gene.2016.09.014 nogoqyxl 0.517724 Trobaugh_2017, Haasnoot_2010, Zhang_2013, Herbert_2016, Wang_2007 Trypsteen_2016
57 Sun_D_2018 Bioinformatics Analysis of Genes and Pathways of CD11b(+)/Ly6C(intermediate) Macrophages after Renal Ischemia-Reperfusion Injury Sun, Dong; Wan, Xin; Pan, Bin-bin; Sun, Qing; Ji, Xiao-bing; Zhang, Feng; Zhang, Hao; Cao, Chang-chun 2018 2018-03-15 PMC N PMC7089064 30074154.0 10.1007/s11596-018-1848-7 potmzdfs 0.516975 Haasnoot_2010, Trobaugh_2017, Wang_2007, Atianand_2014
58 Liu_T_2018 Expression Profiles of mRNA and lncRNA in HCT-8 Cells Infected With Cryptosporidium parvum IId Subtype Liu, Ting-Li; Fan, Xian-Chen; Li, Yun-Hui; Yuan, Ya-Jie; Yin, Yan-Ling; Wang, Xue-Ting; Zhang, Long-Xian; Zhao, Guang-Hui 2018 2018-06-27 COMM-USE N PMC6036261 30013528.0 10.3389/fmicb.2018.01409 jhiap68j 0.516510 Trobaugh_2017, Haasnoot_2010, Wang_2007, Herbert_2016 Liui_2020, Trypsteen_2016, Liu_W_2018
59 Liu_X_2018 MicroRNA transcriptome analysis of porcine vital organ responses to immunosuppressive porcine cytomegalovirus infection Liu, Xiao; Wei, Haoche; Liao, Shan; Ye, Jianheng; Zhu, Ling; Xu, Zhiwen 2018 2018-01-18 COMM-USE N PMC5774105 29347945.0 10.1186/s12985-018-0922-x w6hb0y9o 0.514198 Trobaugh_2017, Haasnoot_2010, Herbert_2016 Liu_X_2015
60 Li_Y_2017 Microarray Analysis Identifies the Potential Role of Long Non-Coding RNA in Regulating Neuroinflammation during Japanese Encephalitis Virus Infection Li, Yunchuan; Zhang, Hao; Zhu, Bibo; Ashraf, Usama; Chen, Zheng; Xu, Qiuping; Zhou, Dengyuan; Zheng, Bohan; Song, Yunfeng; Chen, Huanchun; Ye, Jing; Cao, Shengbo 2017 2017-09-29 COMM-USE N PMC5626832 29033949.0 10.3389/fimmu.2017.01237 e6p3lrlf 0.506750 Trobaugh_2017, Haasnoot_2010, Herbert_2016, Atianand_2014 Trypsteen_2016, Liu_W_2018, Liui_2020
61 Han_K_2016 Quantitative Proteomic Analysis of Duck Ovarian Follicles Infected with Duck Tembusu Virus by Label-Free LC-MS Han, Kaikai; Zhao, Dongmin; Liu, Yuzhuo; Liu, Qingtao; Huang, Xinmei; Yang, Jing; An, Fengjiao; Li, Yin 2016 2016-03-31 COMM-USE N PMC4815560 27066001.0 10.3389/fmicb.2016.00463 gkpm5qf5 0.506285 Trobaugh_2017, Haasnoot_2010 Ding_2012, Cao_Z_2011
62 Du_J_2016 Proteomic analysis of sheep primary testicular cells infected with bluetongue virus Du, Junzheng; Xing, Shanshan; Tian, Zhancheng; Gao, Shandian; Xie, Junren; Chang, Huiyun; Liu, Guangyuan; Luo, Jianxun; Yin, Hong 2016 2016-04-13 PMC N PMC7168089 26989863.0 10.1002/pmic.201500275 slybrok6 0.503071 Trobaugh_2017, Haasnoot_2010
63 Liu_W_2018 Microarray analysis of long non-coding RNA expression profiles uncovers a Toxoplasma-induced negative regulation of host immune signaling Liu, Wenquan; Huang, Liyang; Wei, Qimei; Zhang, Yu; Zhang, Shengnan; Zhang, Wenting; Cai, Liya; Liang, Shaohui 2018 2018-03-12 COMM-USE N PMC5848448 29530077.0 10.1186/s13071-018-2697-8 o7f0q31t 0.499593 Trobaugh_2017, Herbert_2016, Haasnoot_2010 Trypsteen_2016, Liui_2020, Zhang_2016
64 Harun_2013 Transcriptional profiling of feline infectious peritonitis virus infection in CRFK cells and in PBMCs from FIP diagnosed cats Harun, Mohammad Syamsul Reza; Kuan, Choong Oi; Selvarajah, Gayathri Thevi; Wei, Tan Sheau; Arshad, Siti Suri; Bejo, Mohd Hair; Omar, Abdul Rahman 2013 2013-11-09 COMM-USE N PMC3829811 24209771.0 10.1186/1743-422x-10-329 365z3qxz 0.499574 Wang_2009 Mehrbod_2014
65 Chuammitri_2020 Detection and characterization of microRNA expression profiling and its target genes in response to canine parvovirus in Crandell Reese Feline Kidney cells Chuammitri, Phongsakorn; Vannamahaxay, Soulasack; Sornpet, Benjaporn; Pringproa, Kidsadagon; Patchanee, Prapas 2020 2020-02-12 COMM-USE N PMC7023829 32095352.0 10.7717/peerj.8522 wyzh31t0 0.497277 Trobaugh_2017, Haasnoot_2010, Atianand_2014, Zhang_2013 Zhang_2015, Hasan_2014
66 Magold_2009 Gene Expression Profiling in Cells with Enhanced γ-Secretase Activity Magold, Alexandra I.; Cacquevel, Matthias; Fraering, Patrick C. 2009 2009-09-18 COMM-USE N PMC2739295 19763259.0 10.1371/journal.pone.0006952 0p8lk12m 0.497252 Haasnoot_2010, Trobaugh_2017, Atianand_2014
67 Bai_H_2019 Allele-Specific Expression of CD4(+) T Cells in Response to Marek’s Disease Virus Infection Bai, Hao; He, Yanghua; Ding, Yi; Carrillo, José A.; Selvaraj, Ramesh K.; Zhang, Huanmin; Chen, Jilan; Song, Jiuzhou 2019 2019-09-17 COMM-USE N PMC6770979 31533276.0 10.3390/genes10090718 5p4ektzv 0.495559 Haasnoot_2010, Trobaugh_2017
68 Ramaiah_2016 Dysregulation of Long Non-coding RNA (lncRNA) Genes and Predicted lncRNA-Protein Interactions during Zika Virus Infection Arunachalam Ramaiah; Deisy Contreras; Vineela Gangalapudi; Masumi Sameer Padhye; Jie Tang; Vaithilingaraja Arumugaswami 2016 2016-07-01 BioRxiv N 10.1101/061788 2cerplno 0.494744 Trobaugh_2017, Haasnoot_2010, Herbert_2016, Atianand_2014 Trypsteen_2016, Liu_W_2018, Liui_2020
69 Bian_2019 iTRAQ-based high-throughput proteomics analysis reveals alterations of plasma proteins in patients infected with human bocavirus Bian, Junmei; Liang, Min; Ding, Shuxian; Wang, Liyan; Ni, Wenchang; Xiong, Shisi; Li, Wan; Bao, Xingxing; Gao, Xue; Wang, Rong 2019 2019-11-21 COMM-USE N PMC6872134 31751365.0 10.1371/journal.pone.0225261 635cq3z9 0.493990 Trobaugh_2017, Haasnoot_2010
70 Postler_2017 Identification and characterization of a long non-coding RNA up-regulated during HIV-1 infection Postler, Thomas S.; Pantry, Shara N.; Desrosiers, Ronald C.; Ghosh, Sankar 2017 2017-11-30 None N PMC5623643 28803142.0 10.1016/j.virol.2017.08.006 qwepi0we 0.493877 Trobaugh_2017, Haasnoot_2010, Wang_2007, Herbert_2016 Trypsteen_2016, Liu_W_2018
71 Crowe_2016 Changes in the Transcriptome of Human Astrocytes Accompanying Oxidative Stress-Induced Senescence Crowe, Elizabeth P.; Tuzer, Ferit; Gregory, Brian D.; Donahue, Greg; Gosai, Sager J.; Cohen, Justin; Leung, Yuk Y.; Yetkin, Emre; Nativio, Raffaella; Wang, Li-San; Sell, Christian; Bonini, Nancy M.; Berger, Shelley L.; Johnson, F. Brad; Torres, Claudio 2016 2016-08-31 COMM-USE N PMC5005348 27630559.0 10.3389/fnagi.2016.00208 lh2vanro 0.489442 Haasnoot_2010, Trobaugh_2017
72 Chang_2013 Next-Generation Sequencing of Small RNAs from HIV-Infected Cells Identifies Phased microRNA Expression Patterns and Candidate Novel microRNAs Differentially Expressed upon Infection Chang, Stewart T.; Thomas, Matthew J.; Sova, Pavel; Green, Richard R.; Palermo, Robert E.; Katze, Michael G. 2013 2013-02-05 NONCOMM N PMC3560529 23386435.0 10.1128/mbio.00549-12 t98g8z7i 0.483303 Trobaugh_2017, Haasnoot_2010, Herbert_2016 Trypsteen_2016
73 Du_J_2019 Transcriptome analysis of responses to bluetongue virus infection in Aedes albopictus cells Du, Junzheng; Gao, Shandian; Tian, Zhancheng; Guo, Yanni; Kang, Di; Xing, Shanshan; Zhang, Guorui; Liu, Guangyuan; Luo, Jianxun; Chang, Huiyun; Yin, Hong 2019 2019-06-10 COMM-USE N PMC6558886 31182015.0 10.1186/s12866-019-1498-3 v8q5bb44 0.483131 Trobaugh_2017
74 Sun_Y_2014 Transcriptome Analysis of the Initial Stage of Acute WSSV Infection Caused by Temperature Change Sun, Yumiao; Li, Fuhua; Sun, Zheng; Zhang, Xiaojun; Li, Shihao; Zhang, Chengsong; Xiang, Jianhai 2014 2014-03-04 COMM-USE N PMC3942461 24595043.0 10.1371/journal.pone.0090732 dxhhf0th 0.481122 Trobaugh_2017, Haasnoot_2010, Herbert_2016, Wang_2007 Thibivilliers_2009
75 Nair_2016 Gene-expression reversal of lncRNAs and associated mRNAs expression in active vs latent HIV infection Nair, Madhavan; Sagar, Vidya; Pilakka-Kanthikeel, Sudheesh 2016 2016-10-19 COMM-USE N PMC5069461 27756902.0 10.1038/srep34862 z4a0qyh3 0.480497 Trobaugh_2017, Haasnoot_2010, Herbert_2016, Atianand_2014 Trypsteen_2016, Liu_W_2018, Zhang_2016, Zhao_2016
76 Leong_2005 Transcriptomic and proteomic analyses of rhabdomyosarcoma cells reveal differential cellular gene expression in response to enterovirus 71 infection Leong, Wai Fook; Chow, Vincent T. K. 2005 2005-11-08 PMC N PMC7162300 16548883.0 10.1111/j.1462-5822.2005.00644.x w68wzqu0 0.474520 Trobaugh_2017, Haasnoot_2010, Herbert_2016
77 Miaskowski_2019 Perturbations in neuroinflammatory pathways are associated with paclitaxel-induced peripheral neuropathy in breast cancer survivors Miaskowski, Christine; Topp, Kimberly; Conley, Yvette P.; Paul, Steven M.; Melisko, Michelle; Schumacher, Mark; Chesney, Margaret; Abrams, Gary; Levine, Jon D.; Kober, Kord M. 2019 2019-10-15 PMC N PMC6788784 31401418.0 10.1016/j.jneuroim.2019.577019 yth2uoxm 0.471422 Haasnoot_2010
78 Smith_2006 Chapter 61 The cat with a cloudy eye Smith, Richard I E 2006 2006-12-31 PMC N 10.1016/b978-0-7020-2488-7.50066-1 mvz47x6u 0.471271
79 Roxby_2020 Detection of SARS-CoV-2 Among Residents and Staff Members of an Independent and Assisted Living Community for Older Adults — Seattle, Washington, 2020 Roxby, Alison C.; Greninger, Alexander L.; Hatfield, Kelly M.; Lynch, John B.; Dellit, Timothy H.; James, Allison; Taylor, Joanne; Page, Libby C.; Kimball, Anne; Arons, Melissa; Schieve, Laura A.; Munanga, Albert; Stone, Nimalie; Jernigan, John A.; Reddy, Sujan C.; Lewis, James; Cohen, Seth A.; Jerome, Keith R.; Duchin, Jeffrey S.; Neme, Santiago 2020 2020-04-10 COMM-USE N PMC7147909 32271726.0 10.15585/mmwr.mm6914e2 70inem5k 0.471271
80 Perlemuter_2008 Partie 13 Pédiatrie Perlemuter, Léon; Perlemuter, Gabriel 2008 2008-12-31 PMC N 10.1016/b978-2-294-70452-9.50013-5 vqsmj535 0.471271
81 Boltaña_2016 Long noncoding RNAs (lncRNAs) dynamics evidence immunomodulation during ISAV-Infected Atlantic salmon (Salmo salar) Boltaña, Sebastian; Valenzuela-Miranda, Diego; Aguilar, Andrea; Mackenzie, Simon; Gallardo-Escárate, Cristian 2016 2016-03-04 COMM-USE N PMC4778034 26939752.0 10.1038/srep22698 utjug06y 0.471079 Trobaugh_2017, Haasnoot_2010, Herbert_2016 Liui_2020, Trypsteen_2016, Liu_W_2018
82 Hu_W_2012 SARS-CoV Regulates Immune Function-Related Gene Expression in Human Monocytic Cells Hu, Wanchung; Yen, Yu-Ting; Singh, Sher; Kao, Chuan-Liang; Wu-Hsieh, Betty A. 2012 2012-08-01 PMC N PMC3413073 22876772.0 10.1089/vim.2011.0099 k72ims2f 0.468828 Trobaugh_2017
83 Hu_S_2020 MiR-10a-5p-Mediated Syndecan 1 Suppression Restricts Porcine Hemagglutinating Encephalomyelitis Virus Replication Hu, Shiyu; Li, Zi; Lan, Yungang; Guan, Jiyu; Zhao, Kui; Chu, Dianfeng; Fan, Gencheng; Guo, Yuguang; Gao, Feng; He, Wenqi 2020 2020-02-20 COMM-USE N PMC7044266 32153518.0 10.3389/fmicb.2020.00105 6vuim12a 0.467524 Trobaugh_2017, Herbert_2016, Haasnoot_2010
84 Xu_C_2016 A de novo transcriptome analysis shows that modulation of the JAK-STAT signaling pathway by salmonid alphavirus subtype 3 favors virus replication in macrophage/dendritic-like TO-cells Xu, Cheng; Evensen, Øystein; Munang’andu, Hetron Mweemba 2016 2016-05-23 COMM-USE N PMC4878077 27215196.0 10.1186/s12864-016-2739-6 kywhulpc 0.465519 Trobaugh_2017
85 Camp_2012 De-Novo Transcriptome Sequencing of a Normalized cDNA Pool from Influenza Infected Ferrets Camp, Jeremy V.; Svensson, Thomas L.; McBrayer, Alexis; Jonsson, Colleen B.; Liljeström, Peter; Bruder, Carl E. 2012 2012-05-11 COMM-USE N PMC3350496 22606336.0 10.1371/journal.pone.0037104 26wvtnvd 0.460471 Trobaugh_2017, Haasnoot_2010
86 Zhao_2010 Proteomic analysis of primary duck hepatocytes infected with duck hepatitis B virus Zhao, Yanfeng; Ben, Haijing; Qu, Su; Zhou, Xinwen; Yan, Liang; Xu, Bin; Zhou, Shuangcheng; Lou, Qiang; Ye, Rong; Zhou, Tianlun; Yang, Pengyuan; Qu, Di 2010 2010-06-07 COMM-USE N PMC2904733 20529248.0 10.1186/1477-5956-8-28 u6jy6w1m 0.459652 Trobaugh_2017
87 Kuchipudi_2012 18S rRNA is a reliable normalisation gene for real time PCR based on influenza virus infected cells Kuchipudi, Suresh V; Tellabati, Meenu; Nelli, Rahul K; White, Gavin A; Perez, Belinda Baquero; Sebastian, Sujith; Slomka, Marek J; Brookes, Sharon M; Brown, Ian H; Dunham, Stephen P; Chang, Kin-Chow 2012 2012-10-08 COMM-USE N PMC3499178 23043930.0 10.1186/1743-422x-9-230 oqnb4gks 0.459259 Yang_2013 Salem_2014
88 Zhang_2019 Global profiling of megalocytivirus-induced proteins in tongue sole (Cynoglossus semilaevis) spleen identifies cellular processes essential to viral infection Zhang, Jian; Sun, Li 2019 2019-03-31 PMC N PMC7102559 30428365.0 10.1016/j.dci.2018.11.006 wje65e92 0.456222 Trobaugh_2017, Herbert_2016 Ding_2012
89 Corley_2020 Comparative in vitro transcriptomic analyses of COVID-19 candidate therapy hydroxychloroquine suggest limited immunomodulatory evidence of SARS-CoV-2 host response genes. Michael Jay Corley; Christopher Sugai; Michael Schotsaert; Robert E. Schwartz; Lishomwa C Ndhlovu 2020 2020-04-14 BioRxiv Y 10.1101/2020.04.13.039263 30x26ip7 0.452550 Haasnoot_2010, Trobaugh_2017, Wang_2007
90 Cao_Z_2012 Proteomics analysis of differentially expressed proteins in chicken trachea and kidney after infection with the highly virulent and attenuated coronavirus infectious bronchitis virus in vivo Cao, Zhongzan; Han, Zongxi; Shao, Yuhao; Liu, Xiaoli; Sun, Junfeng; Yu, Demin; Kong, Xiangang; Liu, Shengwang 2012 2012-03-31 COMM-USE N PMC3342233 22463732.0 10.1186/1477-5956-10-24 mdky6rdx 0.452451 Trobaugh_2017 Cao_Z_2011, Ding_2012
91 Noh_H_2018 Network perturbation analysis of gene transcriptional profiles reveals protein targets and mechanism of action of drugs and influenza A viral infection Noh, Heeju; Shoemaker, Jason E; Gunawan, Rudiyanto 2018 2018-04-06 NONCOMM N PMC5887474 29325153.0 10.1093/nar/gkx1314 j80hnhpb 0.449714 Trobaugh_2017, Haasnoot_2010, Atianand_2014, Chasman_2016 Trypsteen_2016, Chasman_2016
92 Ying_2015 Transcriptome sequencing and development of an expression microarray platform for liver infection in adenovirus type 5-infected Syrian golden hamsters Ying, Baoling; Toth, Karoly; Spencer, Jacqueline F.; Aurora, Rajeev; Wold, William S.M. 2015 2015-11-30 PMC N PMC4619110 26319212.0 10.1016/j.virol.2015.07.024 zf7us6mu 0.447583 Trobaugh_2017, Haasnoot_2010
93 Zhang_2009 Cloning of IRAK1 and its upregulation in symptomatic mandarin fish infected with ISKNV Zhang, Chao-Zheng; Yin, Zhi-Xin; He, Wei; Chen, Wei-Jian; Luo, Yong-Wen; Lu, Qing-Xia; Weng, Shao-Ping; Yu, Xiao-Qiang; He, Jianguo 2009 2009-06-05 PMC N PMC7092954 19336221.0 10.1016/j.bbrc.2009.03.137 f6u7a5vq 0.446304
94 Sigdel_2016 Intragraft Antiviral-specific Gene Expression as a Distinctive Transcriptional Signature for Studies in Polyomavirus Associated Nephropathy Sigdel, Tara K.; Bestard, Oriol; Salomonis, Nathan; Hsieh, Szu-Chuan; Torras, Joan; Naesens, Maarten; Tran, Tim Q.; Roedder, Silke; Sarwal, Minnie M. 2016 2016-10-01 PMC N PMC5235336 27140517.0 10.1097/tp.0000000000001214 q4qrwbzg 0.445544 Trobaugh_2017, Haasnoot_2010, Wang_2007, Atianand_2014
95 Dinan_2019 Comparative Analysis of Gene Expression in Virulent and Attenuated Strains of Infectious Bronchitis Virus at Subcodon Resolution Dinan, Adam M.; Keep, Sarah; Bickerton, Erica; Britton, Paul; Firth, Andrew E.; Brierley, Ian 2019 2019-08-28 None N PMC6714804 31243124.0 10.1128/jvi.00714-19 xsuq2np8 0.445126 Trobaugh_2017
96 Dix_A_2017 Specific and Novel microRNAs Are Regulated as Response to Fungal Infection in Human Dendritic Cells Dix, Andreas; Czakai, Kristin; Leonhardt, Ines; Schäferhoff, Karin; Bonin, Michael; Guthke, Reinhard; Einsele, Hermann; Kurzai, Oliver; Löffler, Jürgen; Linde, Jörg 2017 2017-02-23 COMM-USE N PMC5322194 28280489.0 10.3389/fmicb.2017.00270 gz4ur4xb 0.443096 Haasnoot_2010, Trobaugh_2017, Herbert_2016, Atianand_2014
97 Zhao_2017 Time-series analysis in imatinib-resistant chronic myeloid leukemia K562-cells under different drug treatments Zhao, Yan-hong; Zhang, Xue-fang; Zhao, Yan-qiu; Bai, Fan; Qin, Fan; Sun, Jing; Dong, Ying 2017 2017-08-08 PMC N PMC7088819 28786057.0 10.1007/s11596-017-1781-1 0rr2y17d 0.443096 Wang_2007, Haasnoot_2010, Brake_2008, Trobaugh_2017
98 Feng_2019 A balanced game: chicken macrophage response to ALV-J infection Feng, Min; Xie, Tingting; Li, Yuanfang; Zhang, Nan; Lu, Qiuyuan; Zhou, Yaohong; Shi, Meiqing; Sun, Jingchen; Zhang, Xiquan 2019 2019-03-06 COMM-USE N PMC6404279 30841905.0 10.1186/s13567-019-0638-y ztqjo13e 0.442080 Barber_2013, Trobaugh_2017
99 Tang_2019 Analysis of long non-coding RNAs in neonatal piglets at different stages of porcine deltacoronavirus infection Tang, Xiaoyu; Lan, Tian; Wu, Ruiting; Zhou, Zhihai; Chen, Yuqi; Sun, Yuan; Zheng, Yaoyao; Ma, Jingyun 2019 2019-04-11 COMM-USE N PMC6458635 30971240.0 10.1186/s12917-019-1862-4 9qsukr5l 0.441029 Trobaugh_2017, Haasnoot_2010, Herbert_2016, Juranic_Lisnic_2013, Wang_2007 Liui_2020
100 Espitia_2014 Transcriptional profiling of the spleen in progressive visceral leishmaniasis reveals mixed expression of type 1 and type 2 cytokine-responsive genes Espitia, Claudia M; Saldarriaga, Omar A; Travi, Bruno L; Osorio, E Yaneth; Hernandez, Alvaro; Band, Mark; Patel, Mandakini J; Medina, Audrie A; Cappello, Michael; Pekosz, Andrew; Melby, Peter C 2014 2014-11-26 COMM-USE N PMC4253007 25424735.0 10.1186/s12865-014-0038-z 56dbkz6x 0.435605 Haasnoot_2010, Trobaugh_2017, Herbert_2016, Camp_2012
101 Zhang_2015 Long noncoding RNAs in innate immunity Zhang, Yuan; Cao, Xuetao 2015 2015-08-17 PMC N PMC4786632 26277893.0 10.1038/cmi.2015.68 msi73h64 0.433981 Atianand_2014, Trobaugh_2017 Trypsteen_2016
102 Yi_Z_2014 Identifcation of differentially expressed long non-coding RNAs in CD4+ T cells response to latent tuberculosis infection Yi, Zhengjun; Li, Jianhua; Gao, Kunshan; Fu, Yurong 2014 2014-12-31 PMC N PMC7112653 24975173.0 10.1016/j.jinf.2014.06.016 03c2il49 0.431301 Trobaugh_2017, Haasnoot_2010, Atianand_2014, Wang_2007 Trypsteen_2016, Liu_W_2018, Liui_2020, Zhang_2016
103 Huang_2018 Ubiquitin–Proteasome System Is Required for Efficient Replication of Singapore Grouper Iridovirus Huang, Xiaohong; Wei, Shina; Ni, Songwei; Huang, Youhua; Qin, Qiwei 2018 2018-11-26 COMM-USE N PMC6275174 30534113.0 10.3389/fmicb.2018.02798 nypzyx8x 0.430953 Trobaugh_2017
104 Zhang_2013 Identification of cellular proteome using two-dimensional difference gel electrophoresis in ST cells infected with transmissible gastroenteritis coronavirus Zhang, Xin; Shi, Hong-Yan; Chen, Jian-Fei; Shi, Da; Lang, Hong-Wu; Wang, Zhong-Tian; Feng, Li 2013 2013-07-16 COMM-USE N PMC3734006 23855489.0 10.1186/1477-5956-11-31 pml9r5nd 0.428493 Trobaugh_2017, Haasnoot_2010 Ding_2012
105 Mehrbod_2014 Transcriptome Analysis of Feline Infectious Peritonitis Virus Infection Mehrbod, Parvaneh; Harun, Mohammad Syamsul Reza; Shuid, Ahmad Naqib; Omar, Abdul Rahman 2014 2014-12-18 PMC N PMC7121011 25720485.0 10.1007/978-1-4939-2438-7_20 87eie5nx 0.425444 Harun_2013
106 Liu_S_2015 Comparative Analysis of Transcriptional Profiles of Adult Schistosoma japonicum from Different Laboratory Animals and the Natural Host, Water Buffalo Liu, Shuai; Zhou, Xiaosu; Piao, Xianyu; Wu, Chuang; Hou, Nan; Chen, Qijun 2015 2015-08-18 COMM-USE N PMC4540470 26285138.0 10.1371/journal.pntd.0003993 nv6943pm 0.421852 Haasnoot_2010, Trobaugh_2017, Etebari_2016
107 Sun_D_2015 Analysis of protein expression changes of the Vero E6 cells infected with classic PEDV strain CV777 by using quantitative proteomic technique Sun, Dongbo; Shi, Hongyan; Guo, Donghua; Chen, Jianfei; Shi, Da; Zhu, Qinghe; Zhang, Xin; Feng, Li 2015 2015-06-15 PMC N PMC7113725 25783682.0 10.1016/j.jviromet.2015.03.002 k568hlf4 0.420668 Trobaugh_2017, Haasnoot_2010 Ding_2012, Yang_2017, Wang_2009
108 Li_J_2017 Characterization of plasma proteins in children of different Mycobacterium tuberculosis infection status using label-free quantitative proteomics Li, Jieqiong; Sun, Lin; Xu, Fang; Xiao, Jing; Jiao, Weiwei; Qi, Hui; Shen, Chen; Shen, Adong 2017 2017-09-23 COMM-USE N PMC5732728 29262562.0 10.18632/oncotarget.21179 kky8j9oy 0.419740 Haasnoot_2010, Trobaugh_2017
109 Mu_X_2013 Comparative transcriptional analysis reveals distinct expression patterns of channel catfish genes after the first infection and re-infection with Aeromonas hydrophila Mu, Xingjiang; Pridgeon, Julia W.; Klesius, Phillip H. 2013 2013-11-30 PMC N PMC7111657 24036330.0 10.1016/j.fsi.2013.08.027 9f30s0gy 0.416672 Thibivilliers_2009, Olsvik_2008, Chen_2009
110 Zhong_2017 Host genes regulate transcription of sperm-introduced hepatitis B virus genes in embryo Zhong, Ying; Liu, Dong-Ling; Ahmed, Mohamed Morsi. M.; Li, Peng-Hao; Zhou, Xiao-Ling; Xie, Qing-Dong; Xu, Xiao-Qing; Han, Ting-Ting; Hou, Zhi-Wei; Zhong, Chen-Yao; Huang, Ji-Hua; Zeng, Fei; Huang, Tian-Hua 2017 2017-10-31 PMC N PMC7127588 28822827.0 10.1016/j.reprotox.2017.08.009 8r851j4t 0.415861 Trobaugh_2017, Wang_2007, Brake_2008 Haddad_2011
111 Jeon_2011 Network Clustering Revealed the Systemic Alterations of Mitochondrial Protein Expression Jeon, Jouhyun; Jeong, Jae Hoon; Baek, Je-Hyun; Koo, Hyun-Jung; Park, Wook-Ha; Yang, Jae-Seong; Yu, Myeong-Hee; Kim, Sanguk; Pak, Youngmi Kim 2011 2011-06-30 COMM-USE N PMC3127811 21738461.0 10.1371/journal.pcbi.1002093 9egy68c0 0.415404 Trobaugh_2017, Haasnoot_2010, Wang_2007 Trypsteen_2016
112 Chen_2014 Proteomics Analysis of the DF-1 Chicken Fibroblasts Infected with Avian Reovirus Strain S1133 Chen, Wen-Ting; Wu, Yi-Le; Chen, Ting; Cheng, Chao-Sheng; Chan, Hong-Lin; Chou, Hsiu-Chuan; Chen, Yi-Wen; Yin, Hsien-Sheng 2014 2014-03-25 COMM-USE N PMC3965424 24667214.0 10.1371/journal.pone.0092154 r3unya2l 0.413168 Trobaugh_2017, Haasnoot_2010, Herbert_2016 Ding_2012
113 Huo_D_2020 The regulation mechanism of lncRNAs and mRNAs in sea cucumbers under global climate changes: Defense against thermal and hypoxic stresses Huo, Da; Sun, Lina; Storey, Kenneth B.; Zhang, Libin; Liu, Shilin; Sun, Jingchun; Yang, Hongsheng 2020 2020-03-20 PMC N PMC7144348 31905562.0 10.1016/j.scitotenv.2019.136045 1roubx7a 0.408700 Haasnoot_2010, Trobaugh_2017, Atianand_2014, Wang_2007 Liui_2020, Trypsteen_2016
114 Wan_W_2019 A Subcellular Quantitative Proteomic Analysis of Herpes Simplex Virus Type 1-Infected HEK 293T Cells Wan, Weiwei; Wang, Liangjie; Chen, Xi; Zhu, Shenglin; Shang, Weijuan; Xiao, Gengfu; Zhang, Lei-Ke 2019 2019-11-20 COMM-USE N PMC6930547 31757042.0 10.3390/molecules24234215 r7m1x239 0.407964
115 Thanthrige-Don_2009 Analyses of the spleen proteome of chickens infected with Marek's disease virus Thanthrige-Don, Niroshan; Abdul-Careem, Mohamed F.; Shack, L. Allen; Burgess, Shane C.; Sharif, Shayan 2009 2009-08-01 PMC N PMC7103390 19540544.0 10.1016/j.virol.2009.05.020 tpqf458q 0.407712 Trobaugh_2017, Haasnoot_2010 Xue_M_2017, Ding_2012, Chen_2014
116 Li_H_2017 Characterization and anti-inflammation role of swine IFITM3 gene Li, He-Ping; Chen, Pei-Ge; Liu, Fu-Tao; Zhu, He-Shui; Jiao, Xian-Qin; Zhong, Kai; Guo, Yu-Jie; Zha, Guang-Ming; Han, Li-Qiang; Lu, Wei-Fei; Wang, Yue-Ying; Yang, Guo-Yu 2017 2017-08-27 COMM-USE N PMC5650283 29088728.0 10.18632/oncotarget.20568 ic40klis 0.403705 Trobaugh_2017 Lu_Y_2017
117 Yue_H_2010 Reference gene selection for normalization of PCR analysis in chicken embryo fibroblast infected with H5N1 AIV Yue, Hua; Lei, Xiao-wen; Yang, Fa-long; Li, Ming-Yi; Tang, Cheng 2010 2010-12-21 PMC N PMC7090763 21221921.0 10.1007/s12250-010-3114-4 epxbv1hy 0.403350
118 Meng_2017 Long non-coding RNA expression profiles in different severity EV71-infected hand foot and mouth disease patients Meng, Jun; Yao, Zhenyu; He, Yaqing; Zhang, Renli; Yang, Hong; Yao, Xiangjie; Chen, Long; Zhang, Hailong; Cheng, Jinquan 2017 2017-12-02 PMC N PMC7092854 28993196.0 10.1016/j.bbrc.2017.09.141 mrpq6w1i 0.402888 Trobaugh_2017, Haasnoot_2010, Zhang_2013, Atianand_2014, Poltronieri_2015 Liui_2020, Xun_M_2015, Trypsteen_2016
119 Li_J_2019 Proteomic analysis of the response of porcine adrenal gland to heat stress Li, Jun-Yu; Yong, Yan-Hong; Gong, Dong-Liang; Shi, Lin; Wang, Xiao-Min; Gooneratne, Ravi; Yadnyavalkya, Patil; Ju, Xiang-Hong 2019 2019-02-28 PMC N PMC7111741 30481676.0 10.1016/j.rvsc.2018.11.004 pij16jaa 0.400171 Haasnoot_2010, Trobaugh_2017, Atianand_2014 Ding_2012, Yang_2017
120 Keele_2020 Integrative QTL analysis of gene expression and chromatin accessibility identifies multi-tissue patterns of genetic regulation Keele, Gregory R.; Quach, Bryan C.; Israel, Jennifer W.; Chappell, Grace A.; Lewis, Lauren; Safi, Alexias; Simon, Jeremy M.; Cotney, Paul; Crawford, Gregory E.; Valdar, William; Rusyn, Ivan; Furey, Terrence S. 2020 2020-01-21 None N PMC7010298 31961859.0 10.1371/journal.pgen.1008537 ycbpeud4 0.398862 Wang_2007, Trobaugh_2017, Atianand_2014, Haasnoot_2010 Trypsteen_2016
121 Ding_2012 Proteomic alteration of Marc-145 cells and PAMs after infection by porcine reproductive and respiratory syndrome virus Ding, Zhuang; Li, Zhi-jie; Zhang, Xiao-dong; Li, Ya-gang; Liu, Chang-jun; Zhang, Yan-Ping; Li, Yang 2012 2012-01-15 PMC N PMC7112595 22137209.0 10.1016/j.vetimm.2011.11.005 7vdvi0me 0.398413 Trobaugh_2017, Haasnoot_2010
122 Thibivilliers_2009 Generation of Phaseolus vulgaris ESTs and investigation of their regulation upon Uromyces appendiculatus infection Thibivilliers, Sandra; Joshi, Trupti; Campbell, Kimberly B; Scheffler, Brian; Xu, Dong; Cooper, Bret; Nguyen, Henry T; Stacey, Gary 2009 2009-04-27 COMM-USE N PMC2684537 19397807.0 10.1186/1471-2229-9-46 qb9zeazk 0.397963 Zhang_2016
123 Zeng_2015 Proteome analysis of porcine epidemic diarrhea virus (PEDV)‐infected Vero cells Zeng, Songlin; Zhang, Huan; Ding, Zhen; Luo, Rui; An, Kang; Liu, Lianzeng; Bi, Jing; Chen, Huanchun; Xiao, Shaobo; Fang, Liurong 2015 2015-03-09 PMC N PMC7167732 25604190.0 10.1002/pmic.201400458 qc7umdxz 0.394951 Trobaugh_2017, Haasnoot_2010, Herbert_2016
124 Xue_M_2017 Analysis of the spleen proteome of chickens infected with reticuloendotheliosis virus Xue, Mei; Zhao, Yan; Hu, Shunlei; Shi, Xingming; Cui, Hongyu; Wang, Yunfeng 2017 2017-01-17 COMM-USE N PMC5387025 28097424.0 10.1007/s00705-016-3180-5 56ocrlfl 0.391508 Trobaugh_2017, Haasnoot_2010 Thanthrige-Don_2009
125 Xiang_2019 Comparative transcriptome analysis reveals the role of p53 signalling pathway during red‐spotted grouper nervous necrosis virus infection in Lateolabrax japonicus brain cells Xiang, Yangxi; Jia, Peng; Liu, Wei; Yi, Meisheng; Jia, Kuntong 2019 2019-01-18 PMC N PMC7166548 30659619.0 10.1111/jfd.12960 4buooi2d 0.386616 Trobaugh_2017, Herbert_2016, Haasnoot_2010
126 Trobaugh_2017 MicroRNA Regulation of RNA Virus Replication and Pathogenesis Trobaugh, Derek W.; Klimstra, William B. 2017 2017-01-31 None N PMC5836316 27989642.0 10.1016/j.molmed.2016.11.003 sblrsi6y 0.385065 Herbert_2016, Haasnoot_2010 Haasnoot_2010, Trypsteen_2016, Poltronieri_2015
127 Kim_J_2017 Characterization of the Transcriptome and Gene Expression of Brain Tissue in Sevenband Grouper (Hyporthodus septemfasciatus) in Response to NNV Infection Kim, Jong-Oh; Kim, Jae-Ok; Kim, Wi-Sik; Oh, Myung-Joo 2017 2017-01-13 COMM-USE N PMC5295026 28098800.0 10.3390/genes8010031 flbibrcm 0.382933 Trobaugh_2017
128 Gong_2011 Disease embryo development network reveals the relationship between disease genes and embryo development genes Gong, Binsheng; Liu, Tao; Zhang, Xiaoyu; Chen, Xi; Li, Jiang; Lv, Hongchao; Zou, Yi; Li, Xia; Rao, Shaoqi 2011 2011-10-21 PMC N PMC7094120 21824480.0 10.1016/j.jtbi.2011.07.018 cs0eifdc 0.376908 Haasnoot_2010, Trobaugh_2017, Atianand_2014 Zhong_2017
129 Ren_Y_2017 Detection of Nuclear Protein Profile Changes by Human Metapneumovirus M2-2 Protein Using Quantitative Differential Proteomics Ren, Yuping; Choi, Eunjin; Zhang, Ke; Chen, Yu; Ye, Sha; Deng, Xiaoling; Zhang, Kangling; Bao, Xiaoyong 2017 2017-12-03 COMM-USE N PMC5748611 29207503.0 10.3390/vaccines5040045 bmdnqgvu 0.372469 Trobaugh_2017, Haasnoot_2010 Ding_2012
130 Bahr_2013 Peripheral Blood Mononuclear Cell Gene Expression in Chronic Obstructive Pulmonary Disease Bahr, Timothy M.; Hughes, Grant J.; Armstrong, Michael; Reisdorph, Rick; Coldren, Christopher D.; Edwards, Michael G.; Schnell, Christina; Kedl, Ross; LaFlamme, Daniel J.; Reisdorph, Nichole; Kechris, Katerina J.; Bowler, Russell P. 2013 2013-08-01 PMC N PMC3824029 23590301.0 10.1165/rcmb.2012-0230oc 0czg8zse 0.372109 Haasnoot_2010, Yu_H_2007, Wang_2007, Trypsteen_2016
131 Xie_T_2019 Cholesterol-25-hydroxylase Is a Chicken ISG That Restricts ALV-J Infection by Producing 25-hydroxycholesterol Xie, Tingting; Feng, Min; Dai, Manman; Mo, Guodong; Ruan, Zhuohao; Wang, Guiyan; Shi, Meiqing; Zhang, Xiquan 2019 2019-05-30 COMM-USE N PMC6631237 31151272.0 10.3390/v11060498 9rx2vmjh 0.370212 Barber_2013
132 Winterling_2013 Evidence for a crucial role of a host non-coding RNA in influenza A virus replication Winterling, Carla; Koch, Manuel; Koeppel, Max; Garcia-Alcalde, Fernando; Karlas, Alexander; Meyer, Thomas F 2013 2013-12-20 None N PMC3929426 24440876.0 10.4161/rna.27504 xygoyhmc 0.370007 Trobaugh_2017, Haasnoot_2010, Herbert_2016
133 Yang_2019 Transcriptomics analysis reveals candidate genes and pathways for susceptibility or resistance to Singapore grouper iridovirus in orange-spotted grouper (Epinephelus coioides) Yang, Min; Wang, Qing; Wang, Shaowen; Wang, Yuxing; Zeng, Qinglu; Qin, Qiwei 2019 2019-01-31 PMC N 30195709.0 10.1016/j.dci.2018.09.003 le8ced66 0.367296 Wang_2007 Chen_2009, Li_C_2019, Wang_2016
134 Hulst_2008 Early transcriptional response in the jejunum of germ-free piglets after oral infection with virulent rotavirus Hulst, Marcel; Kerstens, Hinri; de Wit, Agnes; Smits, Mari; van der Meulen, Jan; Niewold, Theo 2008 2008-06-04 PMC N PMC2441536 18523839.0 10.1007/s00705-008-0118-6 b8xb1f12 0.366969 Herbert_2016, Trobaugh_2017, Wang_2007, Haasnoot_2010
135 Yoo_H_2011 Gene Expression Profile during Chondrogenesis in Human Bone Marrow derived Mesenchymal Stem Cells using a cDNA Microarray Yoo, Hyun Jung; Yoon, Sung Soo; Park, Seon Yang; Lee, Eun Young; Lee, Eun Bong; Kim, Ju Han; Song, Yeong Wook 2011 2011-06-20 NONCOMM N PMC3124712 21738335.0 10.3346/jkms.2011.26.7.851 unr44dvp 0.366584 Trobaugh_2017, Haasnoot_2010, Wang_2007
136 Tang_2014 Identification of Sumoylated Proteins in the Silkworm Bombyx mori Tang, Xudong; Fu, Xuliang; Hao, Bifang; Zhu, Feng; Xiao, Shengyan; Xu, Li; Shen, Zhongyuan 2014 2014-12-01 COMM-USE N PMC4284691 25470021.0 10.3390/ijms151222011 ygljuzvq 0.365245
137 Madore_2010 Alveolar macrophages in allergic asthma: An expression signature characterized by heat shock protein pathways Madore, Anne-Marie; Perron, Stéphanie; Turmel, Véronique; Laviolette, Michel; Bissonnette, Élyse Y.; Laprise, Catherine 2010 2010-02-28 PMC N PMC7124256 19913588.0 10.1016/j.humimm.2009.11.005 o3ofey6l 0.362670 Wang_2007, Haasnoot_2010, Trobaugh_2017
138 Pan_Y_2006 Differentially profiling the low-expression transcriptomes of human hepatoma using a novel SSH/microarray approach Pan, Yi-Shin; Lee, Yun-Shien; Lee, Yung-Lin; Lee, Wei-Chen; Hsieh, Sen-Yung 2006 2006-05-31 COMM-USE N PMC1522022 16737534.0 10.1186/1471-2164-7-131 9r62ffew 0.361008 Yu_H_2007, Wang_2007 Trypsteen_2016
139 Giovannini-Chami_2011 Impact of MicroRNA in Normal and Pathological Respiratory Epithelia Giovannini-Chami, Lisa; Grandvaux, Nathalie; Zaragosi, Laure-Emmanuelle; Robbe-Sermesant, Karine; Marcet, Brice; Cardinaud, Bruno; Coraux, Christelle; Berthiaume, Yves; Waldmann, Rainer; Mari, Bernard; Barbry, Pascal 2011 2011-01-19 PMC N PMC7121186 21594785.0 10.1007/978-1-61779-117-8_12 avquc034 0.353135 Trobaugh_2017, Haasnoot_2010, Atianand_2014 Trypsteen_2016
140 Li_C_2019 Fish Autophagy Protein 5 Exerts Negative Regulation on Antiviral Immune Response Against Iridovirus and Nodavirus Li, Chen; Liu, Jiaxin; Zhang, Xin; Wei, Shina; Huang, Xiaohong; Huang, Youhua; Wei, Jingguang; Qin, Qiwei 2019 2019-03-19 COMM-USE N PMC6433989 30941145.0 10.3389/fimmu.2019.00517 corvd5cs 0.352669 Trobaugh_2017
141 Yang_2019 miR-1306 Mediates the Feedback Regulation of the TGF-β/SMAD Signaling Pathway in Granulosa Cells Yang, Liu; Du, Xing; Liu, Lu; Cao, Qiuyu; Pan, Zengxiang; Li, Qifa 2019 2019-03-31 COMM-USE N PMC6523565 30935128.0 10.3390/cells8040298 16qix4ab 0.351686 Bedadala_2007
142 Cerri_2012 Effects of lactation and pregnancy on gene expression of endometrium of Holstein cows at day 17 of the estrous cycle or pregnancy Cerri, R.L.A.; Thompson, I.M.; Kim, I.H.; Ealy, A.D.; Hansen, P.J.; Staples, C.R.; Li, J.L.; Santos, J.E.P.; Thatcher, W.W. 2012 2012-10-31 None N PMC7094660 22884349.0 10.3168/jds.2011-5114 e3wx096u 0.351050 Wang_2007, Yi_Z_2014, Liu_X_2015, Zhang_2016
143 Xu_Y_2012 Transcriptome and Comparative Gene Expression Analysis of Sogatella furcifera (Horváth) in Response to Southern Rice Black-Streaked Dwarf Virus Xu, Yi; Zhou, Wenwu; Zhou, Yijun; Wu, Jianxiang; Zhou, Xueping 2012 2012-04-27 COMM-USE N PMC3338671 22558400.0 10.1371/journal.pone.0036238 i05h8csb 0.350361 Trobaugh_2017 Thibivilliers_2009
144 Yang_2017 iTRAQ-based Proteomic Analysis of Porcine Kidney Epithelial PK15 cells Infected with Pseudorabies virus Yang, Songbai; Pei, Yue; Zhao, Ayong 2017 2017-04-04 COMM-USE N PMC5379687 28374783.0 10.1038/srep45922 zbur2kdm 0.349405 Trobaugh_2017, Haasnoot_2010 Ding_2012
145 Chen_2018 Genome-wide identification and characterization of long non-coding RNAs involved in the early somatic embryogenesis in Dimocarpus longan Lour Chen, Yan; Li, Xue; Su, Liyao; Chen, Xu; Zhang, Shuting; Xu, Xiaoping; Zhang, Zihao; Chen, Yukun; XuHan, Xu; Lin, Yuling; Lai, Zhongxiong 2018 2018-11-06 COMM-USE N PMC6219066 30400813.0 10.1186/s12864-018-5158-z 93ldjyi5 0.346480 Wang_2007, Zhang_2013, Atianand_2014, Haasnoot_2010, Trobaugh_2017 Liui_2020, Trypsteen_2016, Liu_W_2018
146 Wang_2016 Characterization of a protein tyrosine phosphatase as a host factor promoting baculovirus replication in silkworm, Bombyx mori Wang, Fei; Xue, Renju; Li, Xianyang; Hu, Cuimei; Xia, Qingyou 2016 2016-04-30 PMC N PMC7124732 26684065.0 10.1016/j.dci.2015.12.002 5xftvm8x 0.340825 Trobaugh_2017
147 Wang_2019 Immune function of an angiotensin-converting enzyme against Rice stripe virus infection in a vector insect Wang, Xue; Wang, Wei; Zhang, Wenzhong; Li, Jing; Cui, Feng; Qiao, Luqin 2019 2019-07-31 PMC N PMC7127076 31247402.0 10.1016/j.virol.2019.05.007 6wmh8sof 0.340825 Trobaugh_2017, Herbert_2016, Haasnoot_2010
148 Jeswin_2016 Proteomic analysis by iTRAQ in red claw crayfish, Cherax quadricarinatus, hematopoietic tissue cells post white spot syndrome virus infection Jeswin, Joseph; Xie, Xiao-lu; Ji, Qiao-lin; Wang, Ke-jian; Liu, Hai-peng 2016 2016-03-31 PMC N PMC7111676 26845698.0 10.1016/j.fsi.2016.01.035 upsn0zb4 0.338857 Trobaugh_2017 Yang_2017
149 Kutuzova_2004 Gene expression profiles in rat intestine identify pathways for 1,25-dihydroxyvitamin D3 stimulated calcium absorption and clarify its immunomodulatory properties Kutuzova, Galina D.; DeLuca, Hector F. 2004 2004-12-15 PMC N 15542054.0 10.1016/j.abb.2004.09.004 qr8bzp4r 0.338626 Trobaugh_2017
150 Espindola_2018 Inferring the presence of aflatoxin-producing Aspergillus flavus strains using RNA sequencing and electronic probes as a transcriptomic screening tool Andres S. Espindola; William Schneider; Kitty F. Cardwell; Yisel Carrillo; Peter R. Hoyt; Stephen M. Marek; Hassan Melouk; Carla D. Garzon 2018 2018-07-09 BioRxiv N 10.1101/365254 hdwn2fkj 0.337745 Yu_H_2007
151 Zirger_2012 Immune-mediated Loss of Transgene Expression From Virally Transduced Brain Cells Is Irreversible, Mediated by IFNγ, Perforin, and TNFα, and due to the Elimination of Transduced Cells Zirger, Jeffrey M; Puntel, Mariana; Bergeron, Josee; Wibowo, Mia; Moridzadeh, Rameen; Bondale, Niyati; Barcia, Carlos; Kroeger, Kurt M; Liu, Chunyan; Castro, Maria G; Lowenstein, Pedro R 2012 2012-04-01 PMC N PMC3321600 22233583.0 10.1038/mt.2011.243 ahx74893 0.337049 Aurisicchio_2002
152 Cho_Y_2008 Differential modulations of two glyceraldehyde 3-phosphate dehydrogenase mRNAs in response to bacterial and viral challenges in a marine teleost Oplegnathus fasciatus (Perciformes) Cho, Young Sun; Lee, Sang Yoon; Kim, Ki Hong; Nam, Yoon Kwon 2008 2008-11-30 PMC N PMC7129407 18692141.0 10.1016/j.fsi.2008.07.007 h9c6z4an 0.336275 Wang_2007, Herbert_2016, Haasnoot_2010, Trobaugh_2017
153 Silveyra_2014 Knockdown of Drosha in human alveolar type II cells alters expression of SP-A in culture: a pilot study Silveyra, Patricia; Chroneos, Zissis C; DiAngelo, Susan L; Thomas, Neal J; Noutsios, Georgios T; Tsotakos, Nikolaos; Howrlylak, Judie A; Umstead, Todd M; Floros, Joanna 2014 2014-07-24 PMC N PMC4197128 25058539.0 10.3109/01902148.2014.929757 22h4242g 0.333889 Trobaugh_2017, Haasnoot_2010, Wang_2007, Herbert_2016
154 Watson_2007 Determination of suitable housekeeping genes for normalisation of quantitative real time PCR analysis of cells infected with human immunodeficiency virus and herpes viruses Watson, Sarah; Mercier, Sarah; Bye, Chris; Wilkinson, John; Cunningham, Anthony L; Harman, Andrew N 2007 2007-12-03 COMM-USE N PMC2216015 18053162.0 10.1186/1743-422x-4-130 qf2zwbjg 0.330411 Trobaugh_2017 Kuchipudi_2012
155 Wang_2010 Global Expression Profiling in Epileptogenesis: Does It Add to the Confusion? Wang, Yi Yuen; Smith, Paul; Murphy, Michael; Cook, Mark 2010 2010-01-23 COMM-USE N PMC2805866 19243383.0 10.1111/j.1750-3639.2008.00254.x a7oqm956 0.330056 Haasnoot_2010
156 Ding_2015 Characterization of two novel ADP ribosylation factors from giant freshwater prawn Macrobrachium rosenbergii and their responses to WSSV challenge Ding, Zheng-Feng; Ren, Jie; Tan, Jing-Min; Wang, Zheng; Yin, Shao-Wu; Huang, Ying; Huang, Xin; Wang, Wen; Lan, Jiang-Feng; Ren, Qian 2015 2015-01-31 None N PMC7124501 25451300.0 10.1016/j.dci.2014.10.006 o1dj3b3z 0.327191 Trobaugh_2017, Haasnoot_2010, Wang_2007
157 Kim_T_2013 Escherichia coli YmdB regulates biofilm formation independently of its role as an RNase III modulator Kim, Taeyeon; Lee, Juyeon; Kim, Kwang-sun 2013 2013-11-24 COMM-USE N PMC4222554 24267348.0 10.1186/1471-2180-13-266 zz3taimh 0.326794 Haasnoot_2010, Trobaugh_2017
158 Radonić_2005 Reference gene selection for quantitative real-time PCR analysis in virus infected cells: SARS corona virus, Yellow fever virus, Human Herpesvirus-6, Camelpox virus and Cytomegalovirus infections Radonić, Aleksandar; Thulke, Stefanie; Bae, Hi-Gung; Müller, Marcel A; Siegert, Wolfgang; Nitsche, Andreas 2005 2005-02-10 COMM-USE N PMC549079 15705200.0 10.1186/1743-422x-2-7 efrv5nvf 0.325954
159 Xiong_2016 Differential expression analysis of the broiler tracheal proteins responsible for the immune response and muscle contraction induced by high concentration of ammonia using iTRAQ-coupled 2D LC-MS/MS Xiong, Yan; Tang, Xiangfang; Meng, Qingshi; Zhang, Hongfu 2016 2016-10-17 COMM-USE N PMC7089013 27761697.0 10.1007/s11427-016-0202-8 6sivggy0 0.325618 Haasnoot_2010, Wang_2007, Trobaugh_2017 Cao_Z_2011, Yang_2017, Chen_2009
160 Sun_J_2013 Cellular microRNA miR-181b Inhibits Replication of Mink Enteritis Virus by Repression of Non-Structural Protein 1 Translation Sun, Jia-zeng; Wang, Jigui; Yuan, Daoli; Wang, Shuang; Li, Zhili; Yi, Bao; Mao, Yaping; Hou, Qiang; Liu, Weiquan 2013 2013-12-11 COMM-USE N PMC3859502 24349084.0 10.1371/journal.pone.0081515 36f6amze 0.323007 Trobaugh_2017, Haasnoot_2010, Herbert_2016
161 Hu_F_2019 Expression and role of HEPIS in breast cancer Hu, Fen; Zhang, Yunfeng; Li, Mi; Bai, Yun; Zhang, Xiujun 2019 2019-10-17 NONCOMM N PMC6865829 31788121.0 10.3892/ol.2019.10993 ekjk9ycx 0.321215 Hu_F_2017
162 Shobahah_2017 Quantitative phosphoproteome on the silkworm (Bombyx mori) cells infected with baculovirus Shobahah, Jauharotus; Xue, Shengjie; Hu, Dongbing; Zhao, Cui; Wei, Ming; Quan, Yanping; Yu, Wei 2017 2017-06-19 COMM-USE N PMC5477107 28629377.0 10.1186/s12985-017-0783-8 o0fp7v0y 0.320171 Trobaugh_2017 Tang_2014
163 Guo_C_2011 Involvement of caveolin-1 in the Jak–Stat signaling pathway and infectious spleen and kidney necrosis virus infection in mandarin fish (Siniperca chuatsi) Guo, Chang-Jun; Yang, Xiao-Bo; Wu, Yan-Yan; Yang, Li-Shi; Mi, Shu; Liu, Zhao-Yu; Jia, Kun-Tong; Huang, Yu-Xin; Weng, Shao-Ping; Yu, Xiao-Qiang; He, Jian-Guo 2011 2011-04-30 PMC N PMC7112660 21296425.0 10.1016/j.molimm.2011.01.001 ihn3kay1 0.318275 Trobaugh_2017
164 Almansa_2012 Critical COPD respiratory illness is linked to increased transcriptomic activity of neutrophil proteases genes Almansa, Raquel; Socias, Lorenzo; Sanchez-Garcia, Monica; Martín-Loeches, Ignacio; del Olmo, Milagros; Andaluz-Ojeda, David; Bobillo, Felipe; Rico, Lucia; Herrero, Agueda; Roig, Vicente; San-Jose, C Alicia; Rosich, Sara; Barbado, Julia; Disdier, Carlos; de Lejarazu, Raúl Ortiz; Gallegos, Maria C; Fernandez, Victoria; Bermejo-Martin, Jesus F 2012 2012-08-02 COMM-USE N PMC3475085 22852767.0 10.1186/1756-0500-5-401 bw2zz5he 0.318042 Yu_H_2007
165 Fei_T_2009 Genome-wide mapping of SMAD target genes reveals the role of BMP signaling in embryonic stem cell fate determination Fei, Teng; Xia, Kai; Li, Zhongwei; Zhou, Bing; Zhu, Shanshan; Chen, Hua; Zhang, Jianping; Chen, Zhang; Xiao, Huasheng; Han, Jing-Dong J.; Chen, Ye-Guang 2009 2009-11-19 None N PMC2798829 19926752.0 10.1101/gr.092114.109 t014t7do 0.317161
166 Haasnoot_2010 RNAi and Cellular miRNAs in Infections by Mammalian Viruses Haasnoot, Joost; Berkhout, Ben 2010 2010-11-19 PMC N PMC7120436 21431677.0 10.1007/978-1-61779-037-9_2 tg1310br 0.312367 Trobaugh_2017, Herbert_2016 Trobaugh_2017, Carnero_2011
167 Zheng_2018 MicroRNA-221-5p Inhibits Porcine Epidemic Diarrhea Virus Replication by Targeting Genomic Viral RNA and Activating the NF-κB Pathway Zheng, Hongqing; Xu, Lei; Liu, Yuzhong; Li, Cheng; Zhang, Liang; Wang, Tao; Zhao, Di; Xu, Xingang; Zhang, Yanming 2018 2018-10-29 COMM-USE N PMC6274926 30380612.0 10.3390/ijms19113381 4bkemil0 0.312056 Trobaugh_2017, Haasnoot_2010, Herbert_2016 Hu_S_2020
168 Selinger_2019 Tick-borne encephalitis virus inhibits rRNA synthesis and host protein production in human cells of neural origin Selinger, Martin; Tykalová, Hana; Štěrba, Ján; Věchtová, Pavlína; Vavrušková, Zuzana; Lieskovská, Jaroslava; Kohl, Alain; Schnettler, Esther; Grubhoffer, Libor 2019 2019-09-27 COMM-USE N PMC6785130 31560682.0 10.1371/journal.pntd.0007745 bglrptqj 0.311783 Trobaugh_2017
169 Herbert_2016 A Tale of Two RNAs during Viral Infection: How Viruses Antagonize mRNAs and Small Non-Coding RNAs in The Host Cell Herbert, Kristina M.; Nag, Anita 2016 2016-06-02 COMM-USE N PMC4926174 27271653.0 10.3390/v8060154 btwn1jy0 0.310515 Trobaugh_2017
170 Muhammad_2019 Molecular Characterization of Two Mitogen-Activated Protein Kinases: p38 MAP Kinase and Ribosomal S6 Kinase From Bombyx mori (Lepidoptera: Bombycidae), and Insight Into Their Roles in Response to BmNPV Infection Muhammad, Azharuddin; Toufeeq, Shahzad; Yu, Hai-Zhong; Wang, Jie; Zhang, Shang-Zhi; Li, Bing; Li, Zhen; Yang, Li-Ang; Hu, Pei; Ma, Yan; Xu, Jia-Ping 2019 2019-02-02 NONCOMM N PMC6359879 30715437.0 10.1093/jisesa/iey134 2s3x6sj8 0.304968
171 Zhao_2019 Dynamic profiles, biodistribution and integration evaluation after intramuscular/intravenous delivery of a novel therapeutic DNA vaccine encoding chicken type II collagen for rheumatoid arthritis in vaccinated normal rodent Zhao, Xiao; Long, Juan; Liang, Fei; Liu, Nan; Sun, Yuying; Xi, Yongzhi 2019 2019-09-06 COMM-USE N PMC6729025 31492169.0 10.1186/s12951-019-0528-5 vt930bns 0.304013 Brake_2008, Wang_2007, Chang_2011
172 Kneller_2007 Using LongSAGE to Detect Biomarkers of Cervical Cancer Potentially Amenable to Optical Contrast Agent Labelling Kneller, Julie M.; Ehlen, Thomas; Matisic, Jasenka P.; Miller, Dianne; Van Niekerk, Dirk; Lam, Wan L.; Marra, Marco; Richards-Kortum, Rebecca; Follen, Michelle; MacAulay, Calum; Jones, Steven J. M. 2007 2007-12-11 COMM-USE N PMC2717845 19662225.0 377a16tn 0.303748 Yu_H_2007, Trobaugh_2017, Haasnoot_2010