Ecosyste.ms: Papers

An open API service providing mapping between scientific papers and software projects that are mentioned in them.
All mentions data is based on the CZI Software Mentions dataset.

Projects: bioconductor: topGO

https://packages.ecosyste.ms/registries/bioconductor.org/packages/topGO

Enrichment Analysis for Gene Ontology
1 version
Latest release: about 1 year ago
24 dependent packages
428,733 downloads total

Papers Mentioning topGO 652

10.3390/ijms22158155
Transcriptomic Analysis of Salt-Stress-Responsive Genes in Barley Roots and Leaves
Cited by: 20
Author(s): Rim Nefissi Ouertani, Dhivya Arasappan, Ghassen Abid, Mariem Ben Chikha, Rahma Jardak, Henda Mahmoudi, Samiha Mejri, Abdelwahed Ghorbel, Tracey A. Ruhlman, Robert K. Jansen
Software Mentions: 2
Published: over 3 years ago
10.1186/s12862-021-01772-2
Signal, bias, and the role of transcriptome assembly quality in phylogenomic inference
Cited by: 7
Author(s): Jennifer L Spillane, Troy M LaPolice, Matthew D. MacManes, David C. Plachetzki
Software Mentions: 2
Published: over 3 years ago
10.1186/s12915-015-0202-9
Horizontal gene transfer in bdelloid rotifers is ancient, ongoing and more frequent in species from desiccating habitats
Cited by: 71
Author(s): Isobel Eyres, Chiara Boschetti, Alastair Crisp, Thomas P. Smith, Diego Fontaneto, Alan Tunnacliffe, Timothy G. Barraclough
Software Mentions: 2
Published: about 9 years ago
10.1038/s41598-021-92601-5
Chromosome anchoring in Senegalese sole (Solea senegalensis) reveals sex-associated markers and genome rearrangements in flatfish
Cited by: 11
Author(s): Israel Guerrero-Cózar, Jèssica Gómez‐Garrido, Concha Berbel, Juan F. Martínez-Blanch, Tyler Alioto, Manuel Gonzalo Claros, Pierre‐Alexandre Gagnaire, Manuel Manchado
Software Mentions: 2
Published: over 3 years ago
10.1038/s41598-021-95779-w
Comparison of gene expression in the red imported fire ant (Solenopsis invicta) under different temperature conditions
Cited by: 5
Author(s): Mohammad Vatanparast, Robert T. Puckett, Deuk‐Soo Choi, Youngjin Park
Software Mentions: 2
Published: over 3 years ago
10.1186/s12859-018-2533-3
GOnet: a tool for interactive Gene Ontology analysis
Cited by: 169
Author(s): Mikhail Pomaznoy, Brendan Ha, Bjoern Peters
Software Mentions: 2
Published: almost 6 years ago
10.1155/2020/5293850
Comparison of Proangiogenic Effects of Adipose-Derived Stem Cells and Foreskin Fibroblast Exosomes on Artificial Dermis Prefabricated Flaps
Cited by: 21
Author(s): Jiachao Xiong, Zhixiao Liu, Mengyin Wu, Mengyan Sun, Yu Xiao, Yuchong Wang
Software Mentions: 2
Published: almost 5 years ago
10.7150/thno.47893
Analysis of mesenchymal stem cell proteomes <i>in situ</i> in the ischemic heart
Cited by: 11
Author(s): Dunzheng Han, Junjie Yang, Eric Zhang, Yanwen Liu, Chan Boriboun, Aijun Qiao, Yang Yu, Shuyuan Xu, Yang Liu, Wenying Yan, Biao Luo, Dagang Lü, Chunxiang Zhang, Chunfa Jie, James A. Mobley, Jianyi Zhang, Gangjian Qin
Software Mentions: 2
Published: almost 5 years ago
10.1515/tnsci-2020-0163
Role of exosomal miRNAs in brain metastasis affected by radiotherapy
Cited by: 4
Author(s): Zihuang Li, Hongli Yang, Ling Ye, Rencui Quan, Meili Chen
Software Mentions: 2
Published: almost 4 years ago
10.1007/s00438-020-01739-w
Molecular variation among virulent and avirulent strains of the quarantine nematode Bursaphelenchus xylophilus
Cited by: 9
Author(s): Anna Filipiak, Tadeusz Malewski, Ewa Matczyńska, Marek Tomalak
Software Mentions: 2
Published: about 4 years ago
10.1186/s12859-018-2310-3
cuRnet: an R package for graph traversing on GPU
Cited by: 4
Author(s): Vincenzo Bonnici, Federico Busato, Stefano Aldegheri, Murodzhon Akhmedov, Luciano Cascione, Alberto Arribas Carmena, Francesco Bertoni, Nicola Bombieri, Ivo Kwee, Rosalba Giugno
Software Mentions: 2
Published: about 6 years ago
10.1111/mpp.12856
A MYST family histone acetyltransferase, MoSAS3, is required for development and pathogenicity in the rice blast fungus
Cited by: 18
Author(s): Akhilesh Dubey, Jongjune Lee, Seomun Kwon, Yong‐Hwan Lee, Junhyun Jeon
Software Mentions: 2
Published: over 5 years ago
10.15252/msb.20177663
A proteomic atlas of insulin signalling reveals tissue‐specific mechanisms of longevity assurance
Cited by: 41
Author(s): Luke S Tain, Robert Sehlke, Chirag Jain, Manopriya Chokkalingam, Nagarjuna Nagaraj, Paul Essers, Mark Rassner, Sebastian Grönke, Jenny Froelich, Christoph Dieterich, Matthias Mann, Nazif Alic, Andreas Beyer, Linda Partridge
Software Mentions: 2
Published: about 7 years ago
10.15252/msb.20167430
Systematic protein–protein interaction mapping for clinically relevant human <scp>GPCR</scp>s
Cited by: 62
Author(s): Kate Sokolina, Saranya Kittanakom, Jamie Snider, Max Kotlyar, Pascal Maurice, Jorge Gandía, Abla Benleulmi-Chaachoua, Kenjiro Tadagaki, Atsuro Oishi, Victoria Wong, Ramy H. Malty, Viktor Deineko, Hiroyuki Aoki, Shahreen Amin, Zhong Yao, Xavier Morató, David Otasek, Hiroyuki Kobayashi, Javier Menéndez, Daniel Auerbach, Stéphane Angers, Nataša Pržulj, Michel Bouvier, Mohan Babu, Francisco Ciruela, Ralf Jockers, Igor Jurišica, Igor Štagljar
Software Mentions: 2
Published: over 7 years ago
10.1093/molbev/msy161
Limited Evidence for Parallel Molecular Adaptations Associated with the Subterranean Niche in Mammals: A Comparative Study of Three Superorders
Cited by: 30
Author(s): Kalina T. J. Davies, Nigel C. Bennett, Chris G. Faulkes, Stephen J. Rossiter
Software Mentions: 2
Published: over 6 years ago
10.3390/vaccines8040588
Contrasting Immunomodulatory Effects of Probiotic and Pathogenic Bacteria on Eastern Oyster, Crassostrea Virginica, Larvae
Cited by: 17
Author(s): Tejashree Modak, Marta Gómez-Chiarri
Software Mentions: 2
Published: about 4 years ago
10.3390/v9100275
Inference of a Geminivirus−Host Protein−Protein Interaction Network through Affinity Purification and Mass Spectrometry Analysis
Cited by: 24
Author(s): Liping Wang, Xue Ding, Jiajing Xiao, Tamara Jiménez-Gόngora, Renyi Liu, Rosa Lozano‐Durán
Software Mentions: 2
Published: about 7 years ago
10.12688/wellcomeopenres.14797.2
Genomic and transcriptomic comparisons of closely related malaria parasites differing in virulence and sequestration pattern
Cited by: 10
Author(s): Jing-wen Lin, Adam J. Reid, Deirdre Cunningham, Ulrike Böhme, Irene Tumwine, Sara Keller-Mclaughlin, Mandy Sanders, Matthew Berriman, Jean Langhorne
Software Mentions: 2
Published: almost 6 years ago
10.1038/tp.2017.80
Maternal immune activation results in complex microglial transcriptome signature in the adult offspring that is reversed by minocycline treatment
Cited by: 157
Author(s): Daniele Mattei, Andranik Ivanov, Carmelo Ferrai, Philipp Jordan, Dilansu Güneykaya, Alice Buonfiglioli, W. Schaafsma, Piotr Przanowski, Winnie Deuther‐Conrad, Peter Brust, Swen Hesse, Marianne Patt, Osama Sabri, Tobias L. Roß, Bart J. L. Eggen, Erik Boddeke, Bożena Kamińska, Dieter Beule, Ana Pombo, Helmut Kettenmann, Susanne Wolf
Software Mentions: 2
Published: over 7 years ago
10.1186/s13071-018-3086-z
Transcriptomic analysis of male and female Schistosoma mekongi adult worms
Cited by: 25
Author(s): Orawan Phuphisut, Pravech Ajawatanawong, Yanin Limpanont, Onrapak Reamtong, Supaporn Nuamtanong, Sumate Ampawong, Salisa Chaimon, Paron Dekumyoy, Dorn Watthanakulpanich, Brett E. Swierczewski, Poom Adisakwattana
Software Mentions: 2
Published: about 6 years ago
10.7717/peerj.7785
Warm seawater temperature promotes substrate colonization by the blue coral, <i>Heliopora coerulea</i>
Cited by: 11
Author(s): Christine Guzman, Michael P. Atrigenio, Chuya Shinzato, Porfirio M. Aliño, Cecilia Conaco
Software Mentions: 2
Published: about 5 years ago
10.1186/1475-2875-13-315
Proteomic analysis of the Plasmodium male gamete reveals the key role for glycolysis in flagellar motility
Cited by: 49
Author(s): Arthur M. Talman, Judith Helena Prieto, Sara Marques, Ceereena Ubaida‐Mohien, Mara Lawniczak, Mark N. Wass, Tao Xu, Roland Frank, Andrea Ecker, Rebecca Limenitakis Stanway, Sanjeev Krishna, Michael J.E. Sternberg, George K. Christophides, David R. Graham, Rhoel R. Dinglasan, John R. Yates, Robert E. Sinden
Software Mentions: 2
Published: over 10 years ago
10.7717/peerj.1429
Unbiased high-throughput characterization of mussel transcriptomic responses to sublethal concentrations of the biotoxin okadaic acid
Cited by: 15
Author(s): Victoria Suárez-Ulloa, Juan Fernández‐Tajes, Vanessa Aguiar‐Pulido, María Verónica Prego-Faraldo, Fernanda Flórez-Barrós, Alexia Sexto-Iglesias, Josefina Méndez, José M. Eirín‐López
Software Mentions: 2
Published: about 9 years ago
10.7717/peerj.3237
Analysis of the<i>in planta</i>transcriptome expressed by the corn pathogen<i>Pantoea stewartii</i>subsp.<i>stewartii</i>via RNA-Seq
Cited by: 6
Author(s): Holly Packard, Alison Kernell Burke, Roderick V. Jensen, Ann M. Stevens
Software Mentions: 2
Published: over 7 years ago
10.26508/lsa.201800149
Loss of miR-210 leads to progressive retinal degeneration in<i>Drosophila melanogaster</i>
Cited by: 12
Author(s): Carina Marianne Weigelt, Oliver Hahn, Katharina Arlt, Matthias Gruhn, Annika Julia Jahn, Jacqueline Eßer, Jennifer Annette Werner, Corinna Klein, Ansgar Büschges, Sebastian Grönke, Linda Partridge
Software Mentions: 2
Published: almost 6 years ago
10.1111/pbi.12860
<i>De novo</i> assembly of the zucchini genome reveals a whole‐genome duplication associated with the origin of the <i>Cucurbita</i> genus
Cited by: 131
Author(s): Javier Montero‐Pau, José Blanca, Aureliano Bombarely, Peio Ziarsolo, Miguel Leiva-Brondo, Carlos Martí-Gómez, M. Ferriol, Pedro Sánchez Gómez, Manuel Jamilena, Lukas A. Mueller, Belén Picó
Software Mentions: 2
Published: almost 7 years ago
10.1007/s00299-021-02661-0
Protuberances are organized distinct regions of long-term callus: histological and transcriptomic analyses in kiwifruit
Cited by: 5
Author(s): Małgorzata Czernicka, Iwona Chłosta, Kinga Kęska, Małgorzata Kozieradzka-Kiszkurno, Mohib Abdullah, Marzena Popielarska-Konieczna
Software Mentions: 2
Published: almost 4 years ago
10.26508/lsa.201900380
Cellular response upon proliferation in the presence of an active mitotic checkpoint
Cited by: 2
Author(s): Andrea Corno, Elena Chiroli, Fridolin Groß, Claudio Vernieri, Vittoria Matafora, Stefano Maffini, Marco Cosentino Lagomarsino, Ángela Bachi, Andrea Ciliberto
Software Mentions: 2
Published: over 5 years ago
10.1038/s41398-017-0047-9
A multi-dimensional characterization of anxiety in monozygotic twin pairs reveals susceptibility loci in humans
Cited by: 18
Author(s): Reid S. Alisch, Carol Van Hulle, Pankaj Chopra, Anita Bhattacharyya, Su‐Chun Zhang, Richard J. Davidson, Ned H. Kalin, H. Hill Goldsmith
Software Mentions: 2
Published: almost 7 years ago
10.1186/s12935-018-0645-5
A drug screening assay on cancer cells chronically adapted to acidosis
Cited by: 14
Author(s): Paola Pellegrini, Jason T. Serviss, Thomas Lundbäck, Nicoló Bancaro, Magdalena Mazurkiewicz, Iryna Kolosenko, Di Yu, Martin Haraldsson, Pádraig D’Arcy, Stig Linder, Angelo De Milito
Software Mentions: 2
Published: about 6 years ago
10.1186/s13068-015-0227-x
Genetic basis of the highly efficient yeast Kluyveromyces marxianus: complete genome sequence and transcriptome analyses
Cited by: 131
Author(s): Noppon Lertwattanasakul, Tomoyuki Kosaka, Akira Hosoyama, Yutaka Suzuki, Nadchanok Rodrussamee, Minenosuke Matsutani, Masayuki Murata, Naoko Fujimoto, Suprayogi Suprayogi, Keiko Tsuchikane, Savitree Limtong, Nobuyuki Fujita, Mamoru Yamada
Software Mentions: 2
Published: over 9 years ago
10.1186/s13068-018-1350-2
Effects of amino acids on the lignocellulose degradation by Aspergillus fumigatus Z5: insights into performance, transcriptional, and proteomic profiles
Cited by: 19
Author(s): Jiaxi Miao, Mengmeng Wang, Lei Ma, Tuo Li, Qiwei Huang, Dongyang Liu, Qirong Shen
Software Mentions: 2
Published: almost 6 years ago
10.3390/biom10050782
Lifestyle Characteristics and Gene Expression Analysis of Colletotrichum camelliae Isolated from Tea Plant [Camellia sinensis (L.) O. Kuntze] Based on Transcriptome
Cited by: 1
Author(s): Fei Xiong, Yuchun Wang, Qinhua Lu, Xinyuan Hao, Wanping Fang, Yajun Yang, Xujun Zhu, Xinchao Wang
Software Mentions: 2
Published: over 4 years ago
10.1371/journal.pgen.1003514
Impact of Natural Genetic Variation on Gene Expression Dynamics
Cited by: 35
Author(s): Marit Ackermann, Weronika Sikora-Wohlfeld, Andreas Beyer
Software Mentions: 2
Published: over 11 years ago
10.1155/2019/5604843
Microarray Analysis For Expression Profiles of lncRNAs and circRNAs in Rat Liver after Brain-Dead Donor Liver Transplantation
Cited by: 12
Author(s): Sanyang Chen, Hongbo Fang, Jie Li, Jihua Shi, Jiakai Zhang, Peihao Wen, Zhihui Wang, Yang Han, Shengli Cao, Huapeng Zhang, Hongwei Tang, Wenzhi Guo, Shuijun Zhang
Software Mentions: 2
Published: about 5 years ago
10.1038/s41598-018-22406-6
Identification and characterization of evolutionarily conserved alternative splicing events in a mangrove genus Sonneratia
Cited by: 4
Author(s): Yuchen Yang, Wuxia Guo, Xu Shen, Jianfang Li, Shuhuan Yang, Sufang Chen, Ziwen He, Renchao Zhou, Suhua Shi
Software Mentions: 1
Published: over 6 years ago
10.1093/database/bau090
RADB: a database of rheumatoid arthritis-related polymorphisms
Cited by: 7
Author(s): Ruijie Zhang, Meiwei Luan, Zhenwei Shang, Lian Duan, Guoping Tang, Miao Shi, Wenhua Lv, Hongjie Zhu, Jin Li, Hongchao Lv, Mingming Zhang, Guiyou Liu, He Chen, Yongshuai Jiang
Software Mentions: 1
Published: about 10 years ago
10.1038/s41598-018-24561-2
RNA-Seq analysis of interferon inducible p204-mediated network in anti-tumor immunity
Cited by: 5
Author(s): Jinlong Jian, Wei Wei, Guowei Yin, Aubryanna Hettinghouse, Chuanju Liu, Yuanfei Shi
Software Mentions: 1
Published: over 6 years ago
10.1371/journal.pone.0240616
Hypolipidemic effect of Alisma orientale (Sam.) Juzep on gut microecology and liver transcriptome in diabetic rats
Cited by: 16
Author(s): Xinlan Xu, Lisha Li, Yamin Zhang, Xuehua Lu, Wei Lin, Shuangshuang Wu, Xia Qin, Ruihua Xu, Wenjin Lin
Software Mentions: 1
Published: about 4 years ago
10.1093/braincomms/fcab152
Microarray profiling emphasizes transcriptomic differences between hippocampal in vivo tissue and in vitro cultures
Cited by: 0
Author(s): Declan King, Paul Skehel, Owen Dando, Katie Emelianova, Rona Barron, Thomas M. Wishart
Software Mentions: 1
Published: almost 4 years ago
10.1038/s42003-020-1039-5
Genomic signatures of domestication in Old World camels
Cited by: 26
Author(s): Robert R. Fitak, Elmira Mohandesan, Jukka Corander, Adiya Yadamsuren, Chuluunbat Battsetseg, Omer Abdelhadi, Abdul Raziq, Péter Nagy, Chris Walzer, Bernard Faye, Pamela A. Burger
Software Mentions: 1
Published: over 4 years ago
10.1186/s12862-017-0985-0
Comparative analysis of lincRNA in insect species
Cited by: 21
Author(s): Alberto Lopez-Ezquerra, Mark C. Harrison, Erich Bornberg‐Bauer
Software Mentions: 1
Published: over 7 years ago
10.1017/S0031182014001449
What helminth genomes have taught us about parasite evolution
Cited by: 68
Author(s): Magdalena Zarowiecki, Matthew Berriman
Software Mentions: 1
Published: almost 10 years ago
10.1371/journal.pgen.1004966
Genomics of Divergence along a Continuum of Parapatric Population Differentiation
Cited by: 123
Author(s): Philine G. D. Feulner, Frédéric J. J. Chain, Mahesh Panchal, Yun Huang, Christophe Eizaguirre, Martin Kalbe, Tobias L. Lenz, Irene E. Samonte, Monika Stoll, Erich Bornberg‐Bauer, Thorsten B. H. Reusch, Manfred Milinski
Software Mentions: 1
Published: almost 10 years ago
10.1186/1471-2229-14-88
Genome-wide meta-analysis of maize heterosis reveals the potential role of additive gene expression at pericentromeric loci
Cited by: 32
Author(s): Alexander Thiemann, Junjie Fu, Felix Seifert, Robert Grant-Downton, Tobias A. Schrag, Heike Pospisil, Matthias Frisch, Albrecht E. Melchinger, Stefan Scholten
Software Mentions: 1
Published: over 10 years ago
10.3390/biology10050418
Microarray and qPCR Analysis of Mitochondrial Metabolism Activation during Prenatal and Early Postnatal Development in Rats and Humans with Emphasis on CoQ10 Biosynthesis
Cited by: 0
Author(s): Jana Křížová, Martina Hůlková, Václav Čapek, Petr Mlejnek, Jan Šilhavý, Markéta Tesařová, Jiřı́ Zeman, Hana Hansı́ková
Software Mentions: 1
Published: over 3 years ago
10.3390/cells8111467
The G Protein-Coupled Bile Acid Receptor TGR5 (Gpbar1) Modulates Endothelin-1 Signaling in Liver
Cited by: 34
Author(s): Caroline Klindt, Maria Reich, Birte Hellwig, Jan Stindt, Jörg Rahnenführer, Jan G. Hengstler, Karl Köhrer, Kristina Schoonjans, Dieter Häussinger, Verena Keitel
Software Mentions: 1
Published: about 5 years ago
10.3390/cells9092002
Low ARID1A Expression is Associated with Poor Prognosis in Hepatocellular Carcinoma
Cited by: 22
Author(s): Sun Young Yim, Seongwon Kang, Ji Hyun Shin, Yun Seong Jeong, Bo Hwa Sohn, Soon Ho Um, Ju Seog Lee
Software Mentions: 1
Published: about 4 years ago
10.1186/s13568-018-0568-5
Transcriptome profiling of Issatchenkia orientalis under ethanol stress
Cited by: 21
Author(s): Yingjie Miao, Guotong Xiong, Ruoyun Li, Zufang Wu, Xin Zhang, Peifang Weng
Software Mentions: 1
Published: over 6 years ago
10.1186/s12862-017-0929-8
Adaptive differentiation coincides with local bioclimatic conditions along an elevational cline in populations of a lichen-forming fungus
Cited by: 35
Author(s): Francesco Dal Grande, Rahul Sharma, Meiser Anjuli, Gregor Rolshausen, Burkhard Büdel, Bagdevi Mishra, Marco Thines, Jürgen Otte, Markus Pfenninger, Imke Schmitt
Software Mentions: 1
Published: over 7 years ago
10.1155/2016/2459687
Investigation of TGFβ1-Induced Long Noncoding RNAs in Endothelial Cells
Cited by: 13
Author(s): Krishna K. Singh, Pratiek N. Matkar, Adrian Quan, Laura-Eve Mantella, Hwee Teoh, Mohammed Al‐Omran, Subodh Verma
Software Mentions: 1
Published: almost 9 years ago
10.3390/cancers11081049
Dual Actions of Ketorolac in Metastatic Ovarian Cancer
Cited by: 13
Author(s): Laurie G. Hudson, Linda S. Cook, Martha M. Grimes, Carolyn Y. Muller, Sarah F. Adams, Angela Wandinger‐Ness
Software Mentions: 1
Published: over 5 years ago
10.1038/s41598-019-52502-0
The Combined Strategy for iron uptake is not exclusive to domesticated rice (Oryza sativa)
Cited by: 65
Author(s): Andriele Wairich, Ben Hur Neves de Oliveira, Ezequiel Barth Arend, Guilherme Coutinho Kullmann Duarte, Lucas Roani Ponte, Raul Antônio Sperotto, Felipe Klein Ricachenevsky, Janette Palma Fett
Software Mentions: 1
Published: about 5 years ago
10.1371/journal.pone.0078648
Profiling of Parkin-Binding Partners Using Tandem Affinity Purification
Cited by: 37
Author(s): Alessandra Zanon, Aleksandar Raković, Hagen Blankenburg, Nadezhda T. Doncheva, Christine Schwienbacher, Alice Serafin, Adrian Alexa, Christian X. Weichenberger, Mario Albrecht, Christine Klein, Andrew A. Hicks, Peter P. Pramstaller, Francisco S. Domingues, Irene Pichler
Software Mentions: 1
Published: about 11 years ago
10.1038/s41598-019-55608-7
Novel insights into molecular mechanisms of Pseudourostyla cristata encystment using comparative transcriptomics
Cited by: 7
Author(s): Nan Pan, Tao Niu, Muhammad Zeeshan Bhatti, Haiyang Zhang, Xinpeng Fan, Bing Ni, Jiwu Chen
Software Mentions: 1
Published: almost 5 years ago
10.1186/s12870-019-1853-4
Identification of miRNAs and their target genes in Larix olgensis and verified of differential expression miRNAs
Cited by: 8
Author(s): Sufang Zhang, Shanshan Yan, Jiali Zhao, Huanhuan Xiong, Peiqi An, Junhui Wang, Hanguo Zhang, Lei Zhang
Software Mentions: 1
Published: over 5 years ago
10.1186/1752-0509-4-148
Regulatory network modelling of iron acquisition by a fungal pathogen in contact with epithelial cells
Cited by: 37
Author(s): Jörg Linde, Duncan Wilson, Bernhard Hube, Reinhard Guthke
Software Mentions: 1
Published: about 14 years ago
10.3390/metabo10070273
Surviving Starvation: Proteomic and Lipidomic Profiling of Nutrient Deprivation in the Smallest Known Free-Living Eukaryote
Cited by: 2
Author(s): Susan D. Martin, Mary K. Doherty, Eliane Salvo-Chirnside, Seshu R. Tammireddy, Jiaxiuyu Liu, Thierry Le Bihan, Phillip D. Whitfield
Software Mentions: 1
Published: over 4 years ago
10.1038/s41598-020-59924-1
Comparative in-silico proteomic analysis discerns potential granuloma proteins of Yersinia pseudotuberculosis
Cited by: 4
Author(s): Manisha Aswal, Anjali Garg, Neelja Singhal, Manish Kumar
Software Mentions: 1
Published: almost 5 years ago
10.1038/s41598-020-61204-x
Transcriptomic analysis identifies novel genes and pathways for salt stress responses in Suaeda salsa leaves
Cited by: 23
Author(s): Xuejie Zhang, Yan Yao, Xiaotong Li, Luoyan Zhang, Shoujin Fan
Software Mentions: 1
Published: over 4 years ago
10.1371/journal.pone.0198234
Discovery of microRNA-like RNAs during early fruiting body development in the model mushroom Coprinopsis cinerea
Cited by: 21
Author(s): Amy Yuet Ting Lau, Xuanjin Cheng, Chi Keung Cheng, Wenyan Nong, Man Kit Cheung, Raymond H. Chan, Jerome H. L. Hui, Hoi Shan Kwan
Software Mentions: 1
Published: about 6 years ago
10.1371/journal.pone.0091101
Identification of MicroRNAs in the Coral Stylophora pistillata
Cited by: 48
Author(s): Yi Jin Liew, Manuel Aranda, Adrian R. Carr, Sebastian Baumgarten, Didier Zoccola, Sylvie Tambutté, Denis Allemand, Gos Micklem, Christian R. Voolstra
Software Mentions: 1
Published: over 10 years ago
10.1038/s41598-020-68396-2
Glycogen accumulation, central carbon metabolism, and aging of hematopoietic stem and progenitor cells
Cited by: 10
Author(s): Laura Poisa-Beiro, Judith Thoma, Jonathan Landry, Sven W. Sauer, Akihisa Yamamoto, Volker Eckstein, Natalie Romanov, Simon Raffel, Georg F. Hoffmann, Peer Bork, Vladimı́r Beneš, Anne‐Claude Gavin, Motomu Tanaka, Anthony D. Ho
Software Mentions: 1
Published: over 4 years ago
10.1371/journal.pgen.1005107
Network Analyses Reveal Novel Aspects of ALS Pathogenesis
Cited by: 44
Author(s): Mario Sanhueza, Andrea Chai, Colin Smith, Brett A. McCray, T. Ian Simpson, J. Paul Taylor, Giuseppa Pennetta
Software Mentions: 1
Published: over 9 years ago
10.1038/s41598-020-69107-7
Transcriptomic differences between male and female Trachycarpus fortunei
Cited by: 4
Author(s): Xiaozhou Feng, Zhao Yang, Xiurong Wang, Ying Wang
Software Mentions: 1
Published: over 4 years ago
10.1038/s41598-020-70139-2
Hepatopancreas immune response during molt cycle in the mud crab, Scylla paramamosain
Cited by: 22
Author(s): Zhanning Xu, An Liu, Shengkang Li, Guizhong Wang, Haihui Ye
Software Mentions: 1
Published: over 4 years ago
10.1186/1471-2148-11-8
Back to the sea twice: identifying candidate plant genes for molecular evolution to marine life
Cited by: 79
Author(s): Lothar Wissler, Francisco M. Codoñer, Jenny Gu, Thorsten B. H. Reusch, Jeanine L. Olsen, Gabriele Procaccini, Erich Bornberg‐Bauer
Software Mentions: 1
Published: almost 14 years ago
10.1186/s12862-018-1257-3
Transcriptomic response of female adult moths to host and non-host plants in two closely related species
Cited by: 4
Author(s): Marion Orsucci, Philippe Audiot, Sabine Nidelet, Franck Dorkeld, Alexandra Pommier, Marin Vabre, Dany Séverac, Marine Rohmer, Bernhard Gschloessl, Réjane Streiff
Software Mentions: 1
Published: about 6 years ago
10.1042/BSR20171350
Genome-wide differential expression profiling of mRNAs and lncRNAs associated with prolificacy in Hu sheep
Cited by: 55
Author(s): Feng Xu, Fengzhe Li, Feng Wang, Jing Pang, Caifang Ren, Tingting Zhang, Hua Yang, Ziyu Wang, Yanli Zhang
Software Mentions: 1
Published: over 6 years ago
10.1534/g3.117.300284
Modulation of Global Transcriptional Regulatory Networks as a Strategy for Increasing Kanamycin Resistance of the Translational Elongation Factor-G Mutants in <i>Escherichia coli</i>
Cited by: 8
Author(s): Aalap Mogre, Reshma T Veetil, Aswin Sai Narain Seshasayee
Software Mentions: 1
Published: almost 7 years ago
10.7717/peerj.8426
Global transcriptome analysis of alfalfa reveals six key biological processes of senescent leaves
Cited by: 7
Author(s): Jianbo Yuan, Xinbo Sun, Tao Guo, Yuehui Chao, Liebao Han
Software Mentions: 1
Published: almost 5 years ago
10.1186/1753-6561-3-S4-S8
Gene set analysis methods applied to chicken microarray expression data
Cited by: 7
Author(s): Axel Skarman, Li Jiang, Henrik Hornshøj, Bart Buitenhuis, Jakob Hedegaard, Lene N Conley, Peter Sørensen
Software Mentions: 1
Published: over 15 years ago
10.1371/journal.pcbi.1004049
The Roles of Post-translational Modifications in the Context of Protein Interaction Networks
Cited by: 291
Author(s): Guangyou Duan, Dirk Walther
Software Mentions: 1
Published: almost 10 years ago
10.1186/s12864-019-5641-1
Marker genes as predictors of shared genomic function
Cited by: 10
Author(s): Joseph L. Sevigny, Derek Rothenheber, Krystalle Sharlyn Diaz, Ying Zhang, Kristin Agustsson, R. Daniel Bergeron, W. Kelley Thomas
Software Mentions: 1
Published: over 5 years ago
10.3389/fvets.2021.642913
Role of MicroRNAs in Protective Effects of Forsythoside A Against Lipopolysaccharide-Induced Inflammation in Bovine Endometrial Stromal Cells
Cited by: 7
Author(s): Haimiao Lv, Chenbo Yan, Ling Deng, Peng Zhan, Dexin Yang, Wenjv Hu, Xuefen Ding, Chao Tong, Xinzhuang Wang
Software Mentions: 1
Published: over 3 years ago
10.1038/s41598-020-79543-0
MicroRNA expression profiling after recurrent febrile seizures in rat and emerging role of miR-148a-3p/SYNJ1 axis
Cited by: 9
Author(s): Jian Xu, Mingzhong Sun, Xiaodong Li, Lei Huang, Zhenzhong Gao, Jian Gao, Anmu Xie
Software Mentions: 1
Published: almost 4 years ago
10.1038/s41598-021-82529-1
Genome-wide analysis of allele-specific expression of genes in the model diatom Phaeodactylum tricornutum
Cited by: 8
Author(s): Antoine Hoguin, Achal Rastogi, Chris Bowler, Leïla Tirichine
Software Mentions: 1
Published: almost 4 years ago
10.1155/2020/6524093
Comparative Transcriptome Analysis Reveals Molecular Defensive Mechanism of <i>Arachis hypogaea</i> in Response to Salt Stress
Cited by: 21
Author(s): Hao Zhang, Xiaobo Zhao, Quanxi Sun, Yan Cheng, Juan Wang, Cuiling Yuan, Chunjuan Li, Shiguang Shan, Fengzhen Liu
Software Mentions: 1
Published: over 4 years ago
10.3390/ijms19030782
Transcriptome Analysis of a Premature Leaf Senescence Mutant of Common Wheat (Triticum aestivum L.)
Cited by: 19
Author(s): Qiang Zhang, Chuan Xia, Lichao Zhang, Caixia Dong, Xu Liu, Xiuying Kong
Software Mentions: 1
Published: over 6 years ago
10.1186/s12864-015-2009-z
Association mapping by pooled sequencing identifies TOLL 11 as a protective factor against Plasmodium falciparum in Anopheles gambiae
Cited by: 17
Author(s): Seth Redmond, Karin Eiglmeier, Christian Mitri, Kyriacos Markianos, Wamdaogo M. Guelbeogo, Awa Gnémé, Alison T. Isaacs, Boubacar Coulibaly, Emma Brito-Fravallo, G. Maslen, Daniel Mead, Oumou Niaré, Sékou F. Traorè, N’Falé Sagnon, Dominic P. Kwiatkowski, Michelle M. Riehle, Kenneth D. Vernick
Software Mentions: 1
Published: about 9 years ago
10.1038/s41598-021-87787-7
Molecular mechanism of lateral bud differentiation of Pinus massoniana based on high-throughput sequencing
Cited by: 5
Author(s): Hu Chen, Jason Tan, Xingxing Liang, Shengsen Tang, Jie Jia, Zhangqi Yang
Software Mentions: 1
Published: over 3 years ago
10.1186/s12936-019-2968-7
Transcriptome analysis of Plasmodium berghei during exo-erythrocytic development
Cited by: 35
Author(s): Reto Caldelari, Sunil Kumar Dogga, Marc W. Schmid, Blandine Franke-Fayard, Chris J. Janse, Dominique Soldati‐Favre, Volker Heussler
Software Mentions: 1
Published: about 5 years ago
10.1371/journal.pone.0188067
Transcriptome profiling of claw muscle of the mud crab (Scylla paramamosain) at different fattening stages
Cited by: 9
Author(s): Qingling Jiang, Chenchang Bao, Yanan Yang, An Liu, Fang Liu, Huiyang Huang, Haihui Ye
Software Mentions: 1
Published: about 7 years ago
10.1590/1984-3143-AR2021-0036
Gonadotropin inhibitory hormone downregulates steroid hormone secretion and genes expressions in duck granulosa cells
Cited by: 5
Author(s): Shijian Chen, Wenjun Liu, Chen Yang, Xiujin Li, Xu Shen, Danli Jiang, Yunmao Huang, Yunbo Tian
Software Mentions: 1
Published: almost 4 years ago
10.1038/s41598-021-95071-x
Exploring the genes involved in biosynthesis of dihydroquercetin and dihydromyricetin in Ampelopsis grossedentata
Cited by: 9
Author(s): Zhao Yu, Ni Zhang, Chunyan Jiang, Shaoxiong Wu, Xiayu Feng, Xiaozhou Feng
Software Mentions: 1
Published: over 3 years ago
10.3390/ani11082420
Identification of Novel lncRNA and Differentially Expressed Genes (DEGs) of Testicular Tissues among Cattle, Yak, and Cattle-Yak Associated with Male Infertility
Cited by: 10
Author(s): Shaokang Zhao, Tingting Chen, Xinmao Luo, Shiyi Chen, Jie Wang, Songjia Lai, Xianbo Jia
Software Mentions: 1
Published: over 3 years ago
10.1371/journal.pgen.1007688
A genome-wide Drosophila epithelial tumorigenesis screen identifies Tetraspanin 29Fb as an evolutionarily conserved suppressor of Ras-driven cancer
Cited by: 10
Author(s): Tamara Zoranovic, Jan Manent, Lee Willoughby, Ricardo Matos de Simoes, John E. La Marca, Sofya Golenkina, Cuiping Xia, Susanne Gruber, Belinda Angjeli, Elisabeth Eva Kanitz, Shane J. F. Cronin, G. Gregory Neely, Andreas Wernitznig, Patrick O. Humbert, Kaylene J. Simpson, Constantine S. Mitsiades, Helena E. Richardson, Josef Penninger
Software Mentions: 1
Published: about 6 years ago
10.1186/s12859-018-2026-4
Inferring synteny between genome assemblies: a systematic evaluation
Cited by: 70
Author(s): Dang Liu, Martin Hunt, Isheng Jason Tsai
Software Mentions: 1
Published: almost 7 years ago
10.1111/pbi.12867
Homoeologous exchange is a major cause of gene presence/absence variation in the amphidiploid <i>Brassica napus</i>
Cited by: 184
Author(s): Bhavna Hurgobin, Agnieszka A. Golicz, Philipp E. Bayer, Chon‐Kit Kenneth Chan, Soodeh Tirnaz, Aria Dolatabadian, Sarah Schiessl, Birgit Samans, Juan D. Montenegro, Isobel A. P. Parkin, J. Chris Pires, Boulos Chalhoub, Graham J. King, Rod J. Snowdon, Jacqueline Batley, David Edwards
Software Mentions: 1
Published: almost 7 years ago
10.1186/1471-2105-14-S9-S5
Identification of highly synchronized subnetworks from gene expression data
Cited by: 7
Author(s): Shaojian Gao, Xujing Wang
Software Mentions: 1
Published: over 11 years ago
10.1371/journal.pone.0151092
Detection of Prokaryotic Genes in the Amphimedon queenslandica Genome
Cited by: 17
Author(s): Cecilia Conaco, Pantelis Tsoulfas, Onur Sakarya, Amanda Dolan, John H. Werren, Kenneth S. Kosik
Software Mentions: 1
Published: over 8 years ago
10.1186/gb-2010-11-2-r13
Inferring the functions of longevity genes with modular subnetwork biomarkers of Caenorhabditis elegans aging
Cited by: 50
Author(s): Kristen Fortney, Max Kotlyar, Igor Jurišica
Software Mentions: 1
Published: almost 15 years ago
10.26508/lsa.201800042
Multi-region proteome analysis quantifies spatial heterogeneity of prostate tissue biomarkers
Cited by: 52
Author(s): Tiannan Guo, Li Li, Qing Zhong, Niels J. Rupp, Konstantina Charmpi, Cynthia M. Wong, Ulrich Wagner, Jan H. Rueschoff, Wolfram Jochum, Christian Daniel Fankhauser, Karim Saba, Cédric Poyet, Peter J. Wild, Ruedi Aebersold, Andreas Beyer
Software Mentions: 1
Published: over 6 years ago
10.1186/s12864-015-1288-8
Unique patterns of transcript and miRNA expression in the South American strong voltage electric eel (Electrophorus electricus)
Cited by: 17
Author(s): Lindsay L. Traeger, Jeremy D. Volkening, Howell F. Moffett, Jason R. Gallant, Po Hao Chen, Carl D. Novina, George N. Phillips, René Anand, Gregg B. Wells, Matthew Pinch, Robert Güth, Graciela A. Unguez, James S. Albert, Harold H. Zakon, Michael R. Sussman, Manoj P. Samanta
Software Mentions: 1
Published: over 9 years ago
10.18632/aging.202648
Ageing transcriptome meta-analysis reveals similarities and differences between key mammalian tissues
Cited by: 24
Author(s): Daniel H. Palmer, Fábio Fabris, Aoife Doherty, Alex A. Freitas, João Pedro de Magalhães
Software Mentions: 1
Published: almost 4 years ago
10.7554/eLife.29845
Hsp70-associated chaperones have a critical role in buffering protein production costs
Cited by: 29
Author(s): Zoltán Farkas, Dorottya Kalapis, Zoltán Bódi, Béla Szamecz, Andreea Daraba, Karola Almási, Károly Kovács, Gábor Boross, Ferenc Pál, Pé Ter Horváth, Tamás Balassa, Csaba Molnár, Aladár Pettkó‐Szandtner, Éva Klement, Edit Rutkai, Attila Szvetnik, Balázs Papp, Csaba Pál
Software Mentions: 1
Published: almost 7 years ago
10.3390/ijms21020658
Analysis of Differentially Expressed Transcripts in Apolygus lucorum (Meyer-Dür) Exposed to Different Temperature Coefficient Insecticides
Cited by: 9
Author(s): Jingjie An, Chang Liu, Ya’nan Dou, Zhiling Gao, Zhihong Dang, Xiu Yan, Wenliang Pan, Yaofa Li
Software Mentions: 1
Published: almost 5 years ago
10.1186/1752-0509-5-17
Initial characterization of the human central proteome
Cited by: 60
Author(s): Thomas R Burkard, Melanie Planyavsky, Ines Kaupe, Florian P. Breitwieser, Tilmann Bürckstümmer, Keiryn L. Bennett, Giulio Superti‐Furga, Jacques Colinge
Software Mentions: 1
Published: almost 14 years ago
10.1523/JNEUROSCI.2765-19.2020
Experience Recruits MSK1 to Expand the Dynamic Range of Synapses and Enhance Cognition
Cited by: 12
Author(s): Lucia Privitera, Lorenzo Morè, Daniel D. Cooper, Philippa Richardson, Marianthi Tsogka, Daniel Hebenstreit, J. Simon C. Arthur, Bruno G. Frenguelli
Software Mentions: 1
Published: over 4 years ago
10.1186/s12864-021-07614-1
Transcriptome analysis reveals gene responses to herbicide, tribenuron methyl, in Brassica napus L. during seed germination
Cited by: 5
Author(s): Liuyan Wang, Ruili Wang, Lei Wei, Jiayi Wu, Chenyang Li, Hong-Song Shi, Li-Jiao Meng, Fang Yuan, Qing-Yuan Zhou, Cui Cui
Software Mentions: 1
Published: over 3 years ago