pypi: Circos | Projects | Ecosyste.ms: Papers

10.1186/1742-4690-11-17

Direct non-productive HIV-1 infection in a T-cell line is driven by cellular activation state and NFκB
Cited by: 35
Author(s): Matthew S. Dahabieh, Marcel Ooms, Chanson J. Brumme, Jeremy M. G. Taylor, P. Richard Harrigan, Viviana Simon, Ivan Sadowski
Software Mentions: 2
Published: almost 11 years ago

10.1186/1742-4690-10-126

Functional conservation of HIV-1 Gag: implications for rational drug design
Cited by: 56
Author(s): Guangdi Li, Jens Verheyen, Soo-Yon Rhee, Arnout Voet, Anne‐Mieke Vandamme, Kristof Theys
Software Mentions: 2
Published: about 11 years ago

10.1186/s12284-019-0270-5

Expression Divergence as an Evolutionary Alternative Mechanism Adopted by Two Rice Subspecies Against Rice Blast Infection
Cited by: 8
Author(s): Zhenhui Zhong, Lian‐Yu Lin, Meilian Chen, Lili Lin, Xiaofeng Chen, Yunzhi Lin, Xi Chen, Zonghua Wang, Justice Norvienyeku, Huakun Zheng
Software Mentions: 2
Published: over 5 years ago

10.1038/srep14941

Profiling RNA editing in human tissues: towards the inosinome Atlas
Cited by: 187
Author(s): Ernesto Picardi, Caterina Manzari, Francesca Mastropasqua, Italia Aiello, Anna Maria D’Erchia, Graziano Pesole
Software Mentions: 2
Published: about 9 years ago

10.1038/srep41124

Identification of RAN1 orthologue associated with sex determination through whole genome sequencing analysis in fig (Ficus carica L.)
Cited by: 49
Author(s): Kazuki Mori, Kenta Shirasawa, Hitoshi Nogata, Chiharu Hirata, Kosuke Tashiro, Toshiyuki Habu, Sangwan Kim, Shuichi Himeno, Satoru Kuhara, Hiroyasu Ikegami
Software Mentions: 2
Published: almost 8 years ago

10.1371/journal.ppat.1009447

A heterochromatin inducing protein differentially recognizes self versus foreign genomes
Cited by: 7
Author(s): Eric Burton, Ibukun A. Akinyemi, Tiffany R. Frey, Huanzhou Xu, Xiaofan Li, Lai Jing Su, Jizu Zhi, Michael T. McIntosh, Sumita Bhaduri‐McIntosh
Software Mentions: 2
Published: over 3 years ago

10.1371/journal.pgen.1007003

Genomics-enabled analysis of the emergent disease cotton bacterial blight
Cited by: 36
Author(s): Anne Z. Phillips, Jeffrey C. Berry, Mark C. Wilson, Anupama Vijayaraghavan, Jillian Burke, Jason Bunn, Tom Allen, Terry A. Wheeler, Rebecca Bart
Software Mentions: 2
Published: about 7 years ago

10.1371/journal.pgen.1000875

Identification of the Regulatory Logic Controlling Salmonella Pathoadaptation by the SsrA-SsrB Two-Component System
Cited by: 68
Author(s): Ana M. Tomljenovic-Berube, David T. Mulder, Matthew D. Whiteside, Fiona S. L. Brinkman, Brian K. Coombes
Software Mentions: 2
Published: over 14 years ago

10.1371/journal.ppat.1007461

The Transcriptional landscape of Streptococcus pneumoniae TIGR4 reveals a complex operon architecture and abundant riboregulation critical for growth and virulence
Cited by: 30
Author(s): Indu Warrier, Nikhil Ram-Mohan, Zeyu Zhu, Ariana Hazery, Haley Echlin, Jason Rosch, Michelle M. Meyer, Tim van Opijnen
Software Mentions: 2
Published: almost 6 years ago

10.1371/journal.ppat.1009886

A 3,000-year-old, basal S. enterica lineage from Bronze Age Xinjiang suggests spread along the Proto-Silk Road
Cited by: 7
Author(s): Xutong Wu, Chao Ning, Felix M. Key, Aida Andrades Valtueña, Aditya Kumar Lankapalli, Shizhu Gao, Yang Xuan, Fan Zhang, Linlin Liu, Zhongzhi Nie, Jian Ma, Johannes Krause, Alexander Herbig, Yinqiu Cui
Software Mentions: 2
Published: about 3 years ago

10.1371/journal.pgen.1005001

Discovery of CTCF-Sensitive Cis-Spliced Fusion RNAs between Adjacent Genes in Human Prostate Cells
Cited by: 71
Author(s): Fujun Qin, Zhenguo Song, Mihaela Babiceanu, Yansu Song, Loryn Facemire, Ritambhara Singh, Mazhar Adli, Hui Li
Software Mentions: 2
Published: almost 10 years ago

10.1371/journal.pgen.1002070

Finished Genome of the Fungal Wheat Pathogen Mycosphaerella graminicola Reveals Dispensome Structure, Chromosome Plasticity, and Stealth Pathogenesis
Cited by: 492
Author(s): Stephen B. Goodwin, Sarrah Ben M’Barek, Braham Dhillon, Alexander H. J. Wittenberg, Charles F. Crane, James K. Hane, Andrew J. Foster, Theo A. J. van der Lee, Jane Grimwood, Andrea Aerts, J. F. Antoniw, Andy M. Bailey, Burt H. Bluhm, Judith Bowler, Jim Bristow, Ate van der Burgt, Blondy Canto-Canché, Alice C. L. Churchill, Laura Conde-Ferráez, H. J. Cools, Pedro M. Coutinho, Michael Csukai, Paramvir Dehal, P.J.G.M. de Wit, Bruno Giuliano Garisto Donzelli, H.C. van de Geest, Roeland C. H. J. van Ham, K. E. Hammond‐Kosack, Bernard Henrissat, Andrzej Kilian, Adilson Kenji Kobayashi, Edda Koopmann, Yiannis A. I. Kourmpetis, Arnold Kuzniar, Erika Lindquist, Vincent Lombard, Chris Maliepaard, N. F. Martins, Rahim Mehrabi, Jan Peter Nap, A. Ponomarenko, J. J. Rudd, Asaf Salamov, Jeremy Schmutz, Henk J. Schouten, Harris Shapiro, Ioannis Stergiopoulos, Stefano F. F. Torriani, Hank Tu, Ronald P. de Vries, C. Waalwijk, S.B. Ware, Ad Wiebenga, L.H. Zwiers, Richard P. Oliver, Igor V. Grigoriev, G.H.J. Kema
Software Mentions: 2
Published: over 13 years ago

10.1186/s12859-016-1148-9

IGDD: a database of intronless genes in dicots
Cited by: 21
Author(s): Hanwei Yan, Xiaogang Dai, Kai Feng, Qiuyue Ma, Tongming Yin
Software Mentions: 2
Published: over 8 years ago

10.1186/s12866-020-01794-8

Organic mulching positively regulates the soil microbial communities and ecosystem functions in tea plantation
Cited by: 44
Author(s): Shuning Zhang, Yu Wang, Litao Sun, Chen Qiu, Yiqian Ding, Honglian Gu, Linjun Wang, Zhaoshun Wang, Zhaotang Ding
Software Mentions: 2
Published: over 4 years ago

10.1371/journal.pgen.1009760

Genomic anatomy of male-specific microchromosomes in a gynogenetic fish
Cited by: 16
Author(s): Miao Ding, Xi-Yin Li, Zhixuan Zhu, Junhui Chen, Meng Lu, Qian Shi, Yang Wang, Zhi Li, Xin Zhao, Tao Wang, Wenxuan Du, Changxing Miao, Tian-Zi Yao, Mingtao Wang, Xiaojuan Zhang, Zhongwei Wang, Li Zhou, Jian‐Fang Gui
Software Mentions: 2
Published: about 3 years ago

10.1186/s12864-019-5454-2

Genome-wide characterization and expression profiling of SWEET genes in cabbage (Brassica oleracea var. capitata L.) reveal their roles in chilling and clubroot disease responses
Cited by: 43
Author(s): Wei Zhang, Shenyun Wang, Fangwei Yu, Jun Tang, Shibo Xi, Kan Bao, Li Yu, Hong Wang, Zhangjun Fei, Jianbin Li
Software Mentions: 2
Published: almost 6 years ago

10.1371/journal.ppat.1004744

Elucidation of Sigma Factor-Associated Networks in Pseudomonas aeruginosa Reveals a Modular Architecture with Limited and Function-Specific Crosstalk
Cited by: 122
Author(s): Sebastian Schulz, Denitsa Eckweiler, Agata Bielecka, Tanja Nicolai, Raimo Franke, Andreas Dötsch, Klaus Hornischer, Sebastian Bruchmann, Juliane Düvel, Susanne Häußler
Software Mentions: 2
Published: over 9 years ago

10.1371/journal.ppat.1006582

Streptococcus pneumoniae in the heart subvert the host response through biofilm-mediated resident macrophage killing
Cited by: 53
Author(s): A.T. Shenoy, Terry Brissac, Ryan P. Gilley, Nikhil Kumar, Yong Wang, Norberto González-Juarbe, Whitney S. Hinkle, Sean C. Daugherty, Amol C. Shetty, Sandra Ott, Luke J. Tallon, Jessy Deshane, Hervé Tettelin, Carlos J. Orihuela
Software Mentions: 2
Published: about 7 years ago

10.1186/1471-2164-15-699

Performance comparison of second- and third-generation sequencers using a bacterial genome with two chromosomes
Cited by: 81
Author(s): Mari Miyamoto, Daisuke Motooka, Kazuyoshi Gotoh, Takeshi Imai, Kazutoshi Yoshitake, Naohisa Goto, Tetsuya Iida, Teruo Yasunaga, Toshihiro Horii, Kazuharu Arakawa, Masahiro Kasahara, Shota Nakamura
Software Mentions: 2
Published: over 10 years ago

10.1371/journal.pgen.1000538

Evolutionary Breakpoints in the Gibbon Suggest Association between Cytosine Methylation and Karyotype Evolution
Cited by: 87
Author(s): Lucia Carbone, R. Alan Harris, Gery M. Vessere, Alan R. Mootnick, Sean Humphray, Jane Rogers, Sung K. Kim, Jeffrey D. Wall, David I. K. Martin, Jerzy Jurka, Aleksandar Milosavljevic, Pieter J. de Jong
Software Mentions: 2
Published: over 15 years ago

10.18632/aging.103650

hsa_circRNA6448-14 promotes carcinogenesis in esophageal squamous cell carcinoma
Cited by: 5
Author(s): Yaowen Zhang, Xiang Yuan, Ning J. Yue, Lidong Wang, Junqi Liu, Ning Dai, Haijun Yang, Ruitai Fan, Fuyou Zhou
Software Mentions: 2
Published: over 4 years ago

10.1093/jxb/erv203

RNA sequencing and functional analysis implicate the regulatory role of long non-coding RNAs in tomato fruit ripening
Cited by: 166
Author(s): Bin Zhu, Yanmin Yang, Ran Li, Daqi Fu, Liwei Wen, Yunbo Luo, Hongliang Zhu
Software Mentions: 2
Published: over 9 years ago

10.1186/s12911-016-0275-6

Health figures: an open source JavaScript library for health data visualization
Cited by: 18
Author(s): Andres Ledesma, Mohammed Al-Musawi, Hannu Nieminen
Software Mentions: 2
Published: over 8 years ago

10.1093/jxb/erx336

A disulfide bond A-like oxidoreductase is a strong candidate gene for self-incompatibility in apricot (Prunus armeniaca) pollen
Cited by: 20
Author(s): Juan Vicente Muñoz-Sanz, Elena Zuriaga, M. L. Badenes, Carlos Romero
Software Mentions: 2
Published: about 7 years ago

10.1093/jxb/erx384

Novel phosphate deficiency-responsive long non-coding RNAs in the legume model plant Medicago truncatula
Cited by: 74
Author(s): Tianzuo Wang, Mingfeng Zhao, Xiuxiu Zhang, Min Liu, Chen-ge Yang, Yuhui Chen, Rujin Chen, Jiangqi Wen, Kirankumar S. Mysore, Wenhao Zhang
Software Mentions: 2
Published: about 7 years ago

10.1186/s12711-021-00657-8

Long-range linkage disequilibrium in French beef cattle breeds
Cited by: 7
Author(s): Abdelmajid El Hou, Dominique Rocha, Eric Venot, Véronique Blanquet, Romain Philippe
Software Mentions: 2
Published: over 3 years ago

10.1590/1678-4685-GMB-2018-0235

Genome-wide identification and characterization of R2R3-MYB genes in Medicago truncatula
Cited by: 15
Author(s): Wei Li, Ying Liu, Jianfeng Zhao, Xin Zhen, Changhong Guo, Yongjun Shu
Software Mentions: 2
Published: about 5 years ago

10.1590/1678-4685-GMB-2020-0155

Genomic sequencing of two isolates of Ralstonia solanacearum causing Sergipe facies and comparative analysis with Bugtok disease isolates
Cited by: 3
Author(s): Jéssica Rodrigues da Silva, Ana Karolina Leite Pais, Greecy Mirian Rodrigues Albuquerque, Adriano Márcio Freire Silva, Wilson José Silva, Valdir de Queiroz Balbino, M. E. N. Fonseca, Marco Aurélio Siqueira da Gama, Elineide Barbosa de Souza, Rosa de Lima Ramos Mariano
Software Mentions: 2
Published: almost 5 years ago

10.1534/genetics.117.300546

Detection of Epistasis for Flowering Time Using Bayesian Multilocus Estimation in a Barley MAGIC Population
Cited by: 36
Author(s): Boby Mathew, Jens Léon, Wiebke Sannemann, Mikko J. Sillanpää
Software Mentions: 2
Published: almost 7 years ago

10.1186/s12920-015-0099-8

Gestational tissue transcriptomics in term and preterm human pregnancies: a systematic review and meta-analysis
Cited by: 57
Author(s): Haley R. Eidem, William E. Ackerman, Kriston L. McGary, Patrick Abbot, Antonis Rokas
Software Mentions: 2
Published: over 9 years ago

10.3390/genes12071022

The Influence of Soil Fertilization on the Distribution and Diversity of Phosphorus Cycling Genes and Microbes Community of Maize Rhizosphere Using Shotgun Metagenomics
Cited by: 12
Author(s): Matthew Chekwube Enebe, Olubukola Oluranti Babalola
Software Mentions: 2
Published: over 3 years ago

10.1128/genomeA.00802-14

Whole-Genome Sequences of Three Symbiotic Endozoicomonas Strains
Cited by: 52
Author(s): Matthew J. Neave, Craig Michell, Amy Apprill, Christian R. Voolstra
Software Mentions: 2
Published: about 10 years ago

10.1038/s41598-020-74417-x

Genome-wide identification, characterization, and expression patterns analysis of the SBP-box gene family in wheat (Triticum aestivum L.)
Cited by: 9
Author(s): Ying Li, Qilu Song, Yamin Zhang, Zheng Li, Jialin Guo, Xinhong Chen, Gaisheng Zhang
Software Mentions: 2
Published: about 4 years ago

10.3390/genes11050510

Genome-Wide Identification, Evolutionary Patterns, and Expression Analysis of bZIP Gene Family in Olive (Olea europaea L.)
Cited by: 17
Author(s): S.-H. Rong, Zhiyang Wu, Zizhang Cheng, Shan Zhang, Huan Liu, Qianming Huang
Software Mentions: 2
Published: over 4 years ago

10.1186/s12916-021-01939-0

Investigating the relationships between unfavourable habitual sleep and metabolomic traits: evidence from multi-cohort multivariable regression and Mendelian randomization analyses
Cited by: 11
Author(s): Maxime M. Bos, Neil Goulding, Matthew A. Lee, Amy Hofman, Mariska Bot, René Pool, Lisanne S. Vijfhuizen, Xiang Zhang, Chihua Li, Rima Mustafa, Matt J. Neville, Ruifang Li‐Gao, Stella Trompet, Marian Beekman, Nienke R. Biermasz, Dorret I. Boomsma, Irene de Boer, Constantinos Christodoulides, Abbas Dehghan, Ko Willems van Dijk, Ian Ford, Mohsen Ghanbari, Bastiaan T. Heijmans, M. Arfan Ikram, J. Wouter Jukema, Dennis O. Mook‐Kanamori, Fredrik Karpe, Annemarie I. Luik, L. H. Lumey, Arn M. J. M. van den Maagdenberg, Simon P. Mooijaart, Renée de Mutsert, Brenda W. J. H. Penninx, Patrick C.N. Rensen, Rebecca C Richmond, Frits R. Rosendaal, Naveed Sattar, Robert A. Schoevers, P. Eline Slagboom, Gisela M. Terwindt, Carisha S. Thesing, Kaitlin H Wade, Carolien A. Wijsman, Gonneke Willemsen, Aeilko H. Zwinderman, Diana van Heemst, Raymond Noordam, Debbie A. Lawlor
Software Mentions: 2
Published: over 3 years ago

10.3390/genes11091026

Fine-Mapping of Sorghum Stay-Green QTL on Chromosome10 Revealed Genes Associated with Delayed Senescence
Cited by: 17
Author(s): K N S Usha Kiranmayee, C. Tom Hash, Sivasubramani Selvanayagam, Punna Ramu, BhanuPrakash Amindala, Abhishek Rathore, P. B. Kavi Kishor, Rajeev Gupta, Santosh Deshpande
Software Mentions: 2
Published: about 4 years ago

10.3390/genes10100730

Genome-Wide Analysis of Cotton Auxin Early Response Gene Families and Their Roles in Somatic Embryogenesis
Cited by: 14
Author(s): Ruibin Sun, Shaohui Wang, Dan Ma, Yilin Li, Chuanliang Liu
Software Mentions: 2
Published: about 5 years ago

10.3390/genes10020119

Co-Expression Network Analysis and Hub Gene Selection for High-Quality Fiber in Upland Cotton (Gossypium hirsutum) Using RNA Sequencing Analysis
Cited by: 27
Author(s): Xianyan Zou, Àiyīng Liú, Zhen Zhang, Qún Gě, Senmiao Fan, Wànkuí Gǒng, Jùnwén Lǐ, Jǔwǔ Gōng, Yùzhēn Shí, Bin Tian, Yanling Wang, Ruixian Liu, Kang Lei, Qi Zhang, Xiao Jiang, Yulong Feng, Shuya Zhang, Tingting Jia, Lipeng Zhang, Yǒulù Yuán, Hǎihóng Shāng
Software Mentions: 2
Published: almost 6 years ago

10.3390/genes11040353

Genome-Wide Identification, Classification, and Expression Profiling Reveals R2R3-MYB Transcription Factors Related to Monoterpenoid Biosynthesis in Osmanthus fragrans
Cited by: 18
Author(s): Haiyan Li, Yuanzheng Yue, Wenjie Ding, Gongwei Chen, Ling Li, Yuli Li, Tingting Shi, Xia Yang
Software Mentions: 2
Published: over 4 years ago

10.3390/genes11101134

Genome-Wide Analysis of OPR Family Genes in Cotton Identified a Role for GhOPR9 in Verticillium dahliae Resistance
Cited by: 16
Author(s): Shichao Liu, Ruibin Sun, Xiaojian Zhang, Zili Feng, Feng Wei, Lihong Zhao, Yalin Zhang, Longfu Zhu, Hongjie Feng, Heqin Zhu
Software Mentions: 2
Published: about 4 years ago

10.1186/s12864-019-5632-2

Genome-wide identification and expression profiling of trihelix gene family under abiotic stresses in wheat
Cited by: 40
Author(s): Jie Xiao, Rui Hu, Tao Gu, Jiapeng Han, Ding Qiu, Peipei Su, Jialu Feng, Junli Chang, Guangxiao Yang, Guoqing He
Software Mentions: 2
Published: over 5 years ago

10.1186/s12864-017-4278-1

A systematic survey to identify lethal recessive variation in highly managed pig populations
Cited by: 34
Author(s): Martijn F.L. Derks, Hendrik Jan Megens, Mirte Bosse, Marcos S. Lopes, B. Harlizius, Martien A. M. Groenen
Software Mentions: 2
Published: about 7 years ago

10.3390/genes10020081

Complete Genome Sequence Analysis and Characterization of Selected Iron Regulation Genes of Pasteurella Multocida Serotype A Strain PMTB2.1
Cited by: 7
Author(s): Shagufta Jabeen, Huan Yong Yap, Faez Firdaus Jesse Abdullah, Zunita Zakaria, Nurulfiza Mat Isa, Yung-Chie Tan, Yap S Joo, Dilan Amila Satharasinghe, Abdul Rahman Omar
Software Mentions: 2
Published: almost 6 years ago

10.3390/genes9110547

Assembly of a Complete Mitogenome of Chrysanthemum nankingense Using Oxford Nanopore Long Reads and the Diversity and Evolution of Asteraceae Mitogenomes
Cited by: 32
Author(s): Shuaibin Wang, Qingwei Song, Shanshan Li, Zhigang Hu, Dong Gao, Chi Song, Hongwen Huang, Yifei Liu
Software Mentions: 2
Published: about 6 years ago

10.1371/journal.pcbi.1003833

Ten Simple Rules for Better Figures
Cited by: 85
Author(s): Nicolas P. Rougier, Michael Droettboom, Philip E. Bourne
Software Mentions: 2
Published: about 10 years ago

10.1371/journal.pcbi.1002464

RNA-Seq Mapping and Detection of Gene Fusions with a Suffix Array Algorithm
Cited by: 47
Author(s): Onur Sakarya, Heinz Breu, Milan Radovich, Yongzhi Chen, Yulei Wang, Cátálin Bárbácioru, Sowmi Utiramerur, Penn Whitley, Joel Brockman, Paolo Vatta, Zheng Zhang, Liviu Popescu, Matthew W. Muller, Vidya Kudlingar, Nriti Garg, Chieh-Yuan Li, Benjamin S. Kong, John Bodeau, Robert C. Nutter, Jian Gu, Kelli Bramlett, Jeffrey K. Ichikawa, Fiona Hyland, Asim Siddiqui
Software Mentions: 2
Published: over 12 years ago

10.3390/genes10010071

Genome-Wide Identification and Expression Profiling of Sugar Transporter Protein (STP) Family Genes in Cabbage (Brassica oleracea var. capitata L.) Reveals their Involvement in Clubroot Disease Responses
Cited by: 29
Author(s): Wei Zhang, Shenyun Wang, Fangwei Yu, Jun Tang, Li Yu, Hong Wang, Jianbin Li
Software Mentions: 2
Published: almost 6 years ago

10.3390/genes10020131

Evolution and Identification of the WRKY Gene Family in Quinoa (Chenopodium quinoa)
Cited by: 20
Author(s): Hong Yue, Xi Chang, Yongqiang Zhi, Lan Wang, Guangwei Xing, Weining Song, Xiaojun Nie
Software Mentions: 2
Published: almost 6 years ago

10.3390/genes9020035

Genome-Wide Characterization of Heat-Shock Protein 70s from Chenopodium quinoa and Expression Analyses of Cqhsp70s in Response to Drought Stress
Cited by: 31
Author(s): Jianxia Liu, Runmei Wang, Wenying Liu, Hongli Zhang, Yi Guo, Rong Wen
Software Mentions: 2
Published: almost 7 years ago

10.3390/genes9020070

Genome-Wide Identification and Expression Analysis of the HD-Zip Gene Family in Wheat (Triticum aestivum L.)
Cited by: 38
Author(s): Hong Yue, Duntao Shu, Meng Wang, Guangwei Xing, Haoshuang Zhan, Xianghong Du, Weining Song, Xiaojun Nie
Software Mentions: 2
Published: almost 7 years ago

10.1093/g3journal/jkaa007

Genomic analyses of two Italian oyster mushroom Pleurotus pulmonarius strains
Cited by: 6
Author(s): Guillermo Vidal-Diez de Ulzurrun, Yi-Yun Lee, Jason E. Stajich, Erich M. Schwarz, Yu-Ting Hsueh
Software Mentions: 2
Published: almost 4 years ago

10.1371/journal.pbio.3001309

Massive colonization of protein-coding exons by selfish genetic elements in Paramecium germline genomes
Cited by: 22
Author(s): Diamantis Sellis, Frédéric Guèrin, Olivier Arnaiz, Walker Pett, Emmanuelle Lerat, Nicole Boggetto, Sascha Krenek, Thomas U. Berendonk, Arnaud Couloux, Jean‐Marc Aury, Karine Labadie, Sophie Malinsky, Simran Bhullar, Éric Meyer, Linda Sperling, Laurent Duret, Sandra Duharcourt
Software Mentions: 2
Published: over 3 years ago

10.1093/g3journal/jkab209

Transcriptomic and photosynthetic responses to grafting of the Nod1 gene in nodulated and non-nodulated soybeans
Cited by: 2
Author(s): Qingyuan He, Shihua Xiang, Wubin Wang, Yingjie Shu, Zhengpeng Li, Songhua Wang, Lei Chen, Xiao-Yan Yang, Tuanjie Zhao
Software Mentions: 2
Published: over 3 years ago

10.3390/genes9040185

Assembly of the Boechera retrofracta Genome and Evolutionary Analysis of Apomixis-Associated Genes
Cited by: 17
Author(s): Sergei Kliver, Mikhail Rayko, Alexey Komissarov, Evgeny Bakin, Daria V. Zhernakova, Kasavajhala V. S. K. Prasad, Catherine A. Rushworth, Ramamurthy Baskar, Dmitry Smetanin, Jeremy Schmutz, Daniel S. Rokhsar, Thomas Mitchell‐Olds, Ueli Grossniklaus, Vladimir Brukhin
Software Mentions: 2
Published: over 6 years ago

10.1186/s12864-017-3948-3

Expansion and evolutionary patterns of cysteine-rich peptides in plants
Cited by: 17
Author(s): Lianxi Xing, Huping Zhang, Huijun Jiao, Leiting Li, Xin Qiao, Fabrice Musana Rwalinda, Juyou Wu, Shaoling Zhang
Software Mentions: 2
Published: over 7 years ago

10.1186/1471-2164-15-601

Whole-genome sequence analysis reveals differences in population management and selection of European low-input pig breeds
Cited by: 43
Author(s): J.M. Herrero-Medrano, Hendrik‐Jan Megens, Martien A. M. Groenen, Mirte Bosse, Miguel Pérez‐Enciso, R.P.M.A. Crooijmans
Software Mentions: 2
Published: almost 11 years ago

10.1534/g3.120.401460

Characterization and Fine Mapping of a Yellow-Virescent Gene Regulating Chlorophyll Biosynthesis and Early Stage Chloroplast Development in Brassica napus
Cited by: 16
Author(s): Chuanji Zhao, Lijiang Liu, Luqman Bin Safdar, Meili Xie, Xiaohui Cheng, Yueying Liu, Yu‐Tao Xiang, Chaobo Tong, Jinxing Tu, Junyan Huang, Liu S
Software Mentions: 2
Published: about 4 years ago

10.1534/g3.118.200481

Genomics-Assisted Identification and Characterization of the Genetic Variants Underlying Differential Nitrogen Use Efficiencies in Allotetraploid Rapeseed Genotypes
Cited by: 12
Author(s): Yingpeng Hua, Ting Zhou, Qiong Liao, Haixing Song, Chunyun Guan, Zhenhua Zhang
Software Mentions: 2
Published: over 6 years ago

10.1534/g3.119.400262

Developing a High-Quality Linkage Map for the Atlantic KillifishFundulus heteroclitus
Cited by: 10
Author(s): Jeffrey T. Miller, Noah M. Reid, Diane Nacci, Andrew Whitehead
Software Mentions: 2
Published: about 5 years ago

10.1534/g3.120.401361

Completed Genomic Sequence ofBacillus thuringiensisHER1410 Reveals aCry-Containing Chromosome, Two Megaplasmids, and an Integrative Plasmidial Prophage
Cited by: 15
Author(s): Ana Lechuga, Cédric Lood, Margarita Salas, Vera van Noort, Rob Lavigne, Modesto Redrejo-Rodríguez
Software Mentions: 2
Published: about 4 years ago

10.3390/genes12030401

A Survey of Transposon Landscapes in the Putative Ancient Asexual Ostracod Darwinula stevensoni
Cited by: 4
Author(s): Isa Schön, Fernando Rodríguez, Matthew Dunn, Koenraad Martens, Michael Shribak, Irina R. Arkhipova
Software Mentions: 2
Published: over 3 years ago

10.3390/plants10020272

Sinbase 2.0: An Updated Database to Study Multi-Omics in Sesamum indicum
Cited by: 5
Author(s): Linhai Wang, Jingyin Yu, Yanxin Zhang, Jun You, Xiurong Zhang
Software Mentions: 2
Published: almost 4 years ago

10.1186/s12864-016-2941-6

Living apart together: crosstalk between the core and supernumerary genomes in a fungal plant pathogen
Cited by: 49
Author(s): Adriaan Vanheule, Kris Audenaert, Sven Warris, Henri van de Geest, Elio Schijlen, Monica Höfte, Sarah De Saeger, Geert Haesaert, C. Waalwijk, Théo van der Lee
Software Mentions: 2
Published: over 8 years ago

10.1534/g3.114.015933

Insights into Ongoing Evolution of the Hexachlorocyclohexane Catabolic Pathway from Comparative Genomics of Ten Sphingomonadaceae Strains
Cited by: 20
Author(s): Stephen L. Pearce, John G. Oakeshott, Gyanendra Pandey
Software Mentions: 2
Published: over 9 years ago

10.1007/s10142-017-0555-y

Transcriptome profile of the human placenta
Cited by: 27
Author(s): Marta Majewska, Aleksandra Lipka, Łukasz Paukszto, J Jastrzebski, Kamil Myszczyński, Marek Gowkielewicz, Marcin Jóźwik, Mariusz Majewski
Software Mentions: 2
Published: over 7 years ago

10.3389/fvets.2021.625609

Deep Insight Into Long Non-coding RNA and mRNA Transcriptome Profiling in HepG2 Cells Expressing Genotype IV Swine Hepatitis E Virus ORF3
Cited by: 1
Author(s): Jiao Hu, Xuehong Shuai, Yichen Luo, Zhixiong Zhou, Yu Zhao, Bowen Li, Guojing Gu, Wenjie Li, Mengjuan Li, Hui Zeng, Xi Guo, Yinlong Xiao, Zhenhui Song, Ling Gan, Qingzhou Huang
Software Mentions: 2
Published: over 3 years ago

10.1534/g3.113.007229

Insights into the Evolution of Cotton Diploids and Polyploids from Whole-Genome Re-sequencing
Cited by: 67
Author(s): Justin T. Page, Mark D. Huynh, Zach S. Liechty, Kara Grupp, David M. Stelly, Amanda M. Hulse, Hamid Ashrafi, Allen Van Deynze, Jonathan F. Wendel, Joshua A. Udall
Software Mentions: 2
Published: about 11 years ago

10.1534/g3.115.017921

Endogenous Small RNA Mediates Meiotic Silencing of a Novel DNA Transposon
Cited by: 33
Author(s): Yizhou Wang, Kristina M. Smith, John W. Taylor, Michael Freitag, Jason E. Stajich
Software Mentions: 2
Published: about 9 years ago

10.1186/s12864-020-6720-z

Genomic characterization of an emerging Enterobacteriaceae species: the first case of co-infection with a typical pathogen in a human patient
Cited by: 2
Author(s): Zhen Zhao, Daixi Li, Xing Shi, Yao Zhai, Yanli Guo, Yali Zheng, Lili Zhao, Yukun He, Yu‐Sheng Chen, Zhanwei Wang, Jianrong Su, Yu Kang, Zhancheng Gao
Software Mentions: 2
Published: over 4 years ago

10.3389/fpls.2016.01874

Structural, Evolutionary, and Functional Analysis of the Class III Peroxidase Gene Family in Chinese Pear (Pyrus bretschneideri)
Cited by: 57
Author(s): Yunpeng Cao, Yuepeng Han, Dong Meng, Dahui Li, Qing Jin, Yi Lin, Yongping Cai
Software Mentions: 2
Published: almost 8 years ago

10.1186/s12864-017-3693-7

Pan genome and CRISPR analyses of the bacterial fish pathogen Moritella viscosa
Cited by: 7
Author(s): Christian Karlsen, Erik Hjerde, Terje Klemetsen, Nils Peder Willassen
Software Mentions: 2
Published: over 7 years ago

10.3390/plants10020303

NAC and MYB Families and Lignin Biosynthesis-Related Members Identification and Expression Analysis in Melilotus albus
Cited by: 17
Author(s): Lijun Chen, Fan Wu, Jiyu Zhang
Software Mentions: 2
Published: almost 4 years ago

10.1186/s12864-021-07984-6

Genome collinearity analysis illuminates the evolution of donkey chromosome 1 and horse chromosome 5 in perissodactyls: A comparative study
Cited by: 2
Author(s): Shaohua Li, Gaoping Zhao, Hongmei Han, Yunxia Li, Jun Li, Jinfeng Wang, Guifang Cao, Xihe Li
Software Mentions: 2
Published: about 3 years ago

10.3389/fpls.2019.00218

Sequencing the Plastid Genome of Giant Ragweed (Ambrosia trifida, Asteraceae) From a Herbarium Specimen
Cited by: 17
Author(s): Gaurav Sablok, Ali Amiryousefi, Xiaolan He, Jaakko Hyvönen, Péter Poczai
Software Mentions: 2
Published: over 5 years ago

10.3389/fpubh.2021.633792

Evolutionary Analysis of Pre-S/S Mutations in HBeAg-Negative Chronic Hepatitis B With HBsAg < 100 IU/ml
Cited by: 3
Author(s): Yongdong Wu, Zhiqiang Zhu, Jiang Wu, Wenzi Bi, Wei Xu, Xiaoping Xia, Dongsheng Han
Software Mentions: 2
Published: over 3 years ago

10.3389/fpls.2019.00026

NBS-Encoding Genes in Brassica napus Evolved Rapidly After Allopolyploidization and Co-localize With Known Disease Resistance Loci
Cited by: 28
Author(s): Ying Fu, Yaofeng Zhang, Annaliese S. Mason, Baogang Lin, Dongqing Zhang, Han‐Qing Yu, Donghui Fu
Software Mentions: 2
Published: almost 6 years ago

10.3390/plants9060752

Comparative Plastomics of Ashwagandha (Withania, Solanaceae) and Identification of Mutational Hotspots for Barcoding Medicinal Plants
Cited by: 35
Author(s): Furrukh Mehmood, Abdullah Abdullah, Zartasha Ubaid, Yīmíng Bào, Péter Poczai, Bushra Mirza
Software Mentions: 2
Published: over 4 years ago

10.3389/fpls.2015.00965

Integrative analysis and expression profiling of secondary cell wall genes in C4 biofuel model Setaria italica reveals targets for lignocellulose bioengineering
Cited by: 26
Author(s): Mehanathan Muthamilarasan, Yusuf Khan, Jananee Jaishankar, Shweta Shweta, Charu Lata
Software Mentions: 2
Published: about 9 years ago

10.3389/fpls.2018.01127

QTL Alignment for Seed Yield and Yield Related Traits in Brassica napus
Cited by: 39
Author(s): Nadia Raboanatahiry, Hongbo Chao, Dalin Hou, Shi Pu, Wei Yan, Liang Yu, Baoshan Wang, Maoteng Li
Software Mentions: 2
Published: over 6 years ago

10.1186/s12864-016-2492-x

A novel comparative pattern analysis approach identifies chronic alcohol mediated dysregulation of transcriptomic dynamics during liver regeneration
Cited by: 16
Author(s): Lakshmi Kuttippurathu, Egle Juskeviciute, Rachael P. Dippold, Jan B. Hoek, Rajanikanth Vadigepalli
Software Mentions: 2
Published: over 8 years ago

10.3389/fpls.2020.00406

Genome-Wide Identification of Peanut KCS Genes Reveals That AhKCS1 and AhKCS28 Are Involved in Regulating VLCFA Contents in Seeds
Cited by: 18
Author(s): Dongxin Huai, Xiaomeng Xue, Yang Li, Peng Wang, Jianguo Li, Liying Yan, Yuning Chen, Xin Wang, Nian Liu, Yanping Kang, Zhihui Wang, Yi Huang, Huifang Jiang, Yong Lei, Boshou Liao
Software Mentions: 2
Published: over 4 years ago

10.3389/fpls.2015.01142

Foxtail Millet NF-Y Families: Genome-Wide Survey and Evolution Analyses Identified Two Functional Genes Important in Abiotic Stresses
Cited by: 64
Author(s): Feng Zheng, Guanhua He, Wenbin Zheng, Panpan Lu, Ming Chen, Yaming Gong, Yupo Ma, Zhao‐Shi Xu
Software Mentions: 2
Published: almost 9 years ago

10.3389/fpls.2015.00910

Global analysis of WRKY transcription factor superfamily in Setaria identifies potential candidates involved in abiotic stress signaling
Cited by: 69
Author(s): Mehanathan Muthamilarasan, Venkata Suresh Bonthala, Rohit Khandelwal, Jananee Jaishankar, Shweta Shweta, Kashif Nawaz
Software Mentions: 2
Published: about 9 years ago

10.1007/s11105-016-1000-4

Genome-Wide Discovery of DNA Polymorphisms in Mei (Prunus mume Sieb. et Zucc.), an Ornamental Woody Plant, with Contrasting Tree Architecture and their Functional Relevance for Weeping Trait
Cited by: 12
Author(s): Jie Zhang, Kai Zhao, Dan Hou, Junhuo Cai, Qixiang Zhang, Tangren Cheng, Huitang Pan, Weiru Yang
Software Mentions: 2
Published: over 8 years ago

10.1186/s12864-015-2138-4

Integrated genomics approach to identify biologically relevant alterations in fewer samples
Cited by: 8
Author(s): Pratik Chandrani, Pawan Upadhyay, Prajish Iyer, Mayur Tanna, Madhur Shetty, Gorantala Venkata Raghuram, Ninad Oak, Ankita Singh, Rohan Chaubal, Manoj P. Ramteke, Sudeep Gupta, Amit Dutt
Software Mentions: 2
Published: about 9 years ago

10.3389/fpls.2021.702243

Genome-Wide Comparative Analysis of Flowering-Time Genes; Insights on the Gene Family Expansion and Evolutionary Perspective
Cited by: 5
Author(s): Seong-Min Hong, Yong Pyo Lim, Suk‐Yoon Kwon, Ah-Young Shin, Yongmin Kim
Software Mentions: 2
Published: over 3 years ago

10.1186/1471-2164-14-297

Genome-wide analysis of the GH3 family in apple (Malus × domestica)
Cited by: 65
Author(s): Hao Yuan, Kai Zhao, Hengjiu Lei, Xinjie Shen, Yun Liu, Xiudong Liao, Tianhong Li
Software Mentions: 2
Published: over 11 years ago

10.1186/s12862-015-0511-1

Evolution of the highly networked deubiquitinating enzymes USP4, USP15, and USP11
Cited by: 55
Author(s): Caitlyn Vlasschaert, Xuhua Xia, Josée Coulombe, Douglas A. Gray
Software Mentions: 2
Published: about 9 years ago

10.1186/1471-2164-15-914

The genomic landscape of the verrucomicrobial methanotroph Methylacidiphilum fumariolicum SolV
Cited by: 34
Author(s): Seyed Yahya Anvar, J. Howard Frank, Arjan Pol, Arnoud Schmitz, Ken Kraaijeveld, Johan T. den Dunnen, Huub J. M. Op den Camp
Software Mentions: 2
Published: almost 11 years ago

10.1111/pbi.12528

First‐generation HapMap in Cajanus spp. reveals untapped variations in parental lines of mapping populations
Cited by: 36
Author(s): Vinay Kumar, Aamir W. Khan, Rachit K. Saxena, Vanika Garg, Rajeev K. Varshney
Software Mentions: 2
Published: almost 9 years ago

10.3389/fpls.2017.00140

Characterization of the Two-Speed Subgenomes of Fusarium graminearum Reveals the Fast-Speed Subgenome Specialized for Adaption and Infection
Cited by: 31
Author(s): Qinhu Wang, Cong Jiang, Chenfang Wang, Changjun Chen, Jin‐Rong Xu, Huiquan Liu
Software Mentions: 2
Published: almost 8 years ago

10.1186/s12864-017-3895-z

Interpreting whole genome and exome sequencing data of individual gastric cancer samples
Cited by: 10
Author(s): Daniela Esser, Niklas Holze, Jill D. Haag, Stefan Schreiber, Sandra Krüger, Viktoria Warneke, Philip Rosenstiel, Christoph Röcken
Software Mentions: 2
Published: over 7 years ago

10.3389/fpls.2021.672017

Identification of Glutathione S-Transferase Genes in Hami Melon (Cucumis melo var. saccharinus) and Their Expression Analysis Under Cold Stress
Cited by: 12
Author(s): Wen Song, Fake Zhou, Chunhui Shan, Qin Zhang, Ming Ning, Xiumin Liu, Xinxin Zhao, Wenchao Cai, Xinquan Yang, Guangfei Hao, Fengxian Tang
Software Mentions: 2
Published: over 3 years ago

10.1186/s12864-015-2230-9

Metabolic characteristics of dominant microbes and key rare species from an acidic hot spring in Taiwan revealed by metagenomics
Cited by: 25
Author(s): Kuei Han Lin, Ben-Yang Liao, Hung-Sheng Chang, Shu‐Mei Huang, Ting Yan Chang, Cheng Yu Yang, Yu Bin Wang, Yu Teh Kirk Lin, Yu Wei Wu, Sen Lin Tang, Hongjun Yu
Software Mentions: 2
Published: almost 9 years ago

10.1186/s12862-018-1160-y

Phylogenomics and barcoding of Panax: toward the identification of ginseng species
Cited by: 42
Author(s): Vincent Manzanilla, Anneleen Kool, Linh Nguyen Nhat, Nông Văn Hải, Huu Thu, Hugo de Boer
Software Mentions: 2
Published: over 6 years ago

10.3389/fpls.2018.01565

Detection of T. urartu Introgressions in Wheat and Development of a Panel of Interspecific Introgression Lines
Cited by: 22
Author(s): Surbhi Grewal, Stella Hubbart‐Edwards, Caiyun Yang, Duncan Scholefield, Stephen Ashling, Amanda Burridge, Paul Wilkinson, Ian P. King, Julie King
Software Mentions: 2
Published: about 6 years ago

10.1186/s12864-018-5342-1

Genome-wide identification of SERK genes in apple and analyses of their role in stress responses and growth
Cited by: 13
Author(s): Liwei Zheng, Junsheng Ma, Jiangping Mao, Shiliang Fan, Dong Zhang, Caiping Zhao, Na An, Mingyu Han
Software Mentions: 2
Published: almost 6 years ago

10.3389/fpls.2016.00007

Genome-Wide Identification and Comparative Analysis of Cytosine-5 DNA Methyltransferase and Demethylase Families in Wild and Cultivated Peanut
Cited by: 25
Author(s): Pengfei Wang, Chao Gao, Xiaotong Bian, Shuzhen Zhao, Chuanzhi Zhao, Han Xia, Hui Song, Lei Hou, Shungang Wan, Xingjun Wang
Software Mentions: 2
Published: almost 9 years ago

10.3389/fpls.2017.01644

RNA-Seq Analysis Provides the First Insights into the Phylogenetic Relationship and Interspecific Variation between Agropyron cristatum and Wheat
Cited by: 16
Author(s): Shumin Zhou, Baiqiang Yan, Fĕi Li, Jinpeng Zhang, Jing Zhang, Huihui Ma, Weihua Liu, Yuqing Lu, Xinming Yang, Xiuquan Li, Xu Liu, Lihui Li
Software Mentions: 2
Published: about 7 years ago

10.3389/fphys.2018.01689

Complete Genome Sequencing of Lactobacillus plantarum ZLP001, a Potential Probiotic That Enhances Intestinal Epithelial Barrier Function and Defense Against Pathogens in Pigs
Cited by: 33
Author(s): Wei Zhang, Hai‐Feng Ji, Dongyan Zhang, Hui Liu, Sixin Wang, Jing Wang, Yamin Wang
Software Mentions: 2
Published: almost 6 years ago

Projects: pypi: Circos

Papers Mentioning Circos 2,252