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

10.18632/aging.100926
A robust neuromuscular system protects rat and human skeletal muscle from sarcopenia
Cited by: 70
Author(s): Alice Pannérec, Margherita Springer, Eugenia Migliavacca, Alex Ireland, Mathew Piasecki, Sonia Karaz, Guillaume Jacot, Sylviane Métairon, Esther Danenberg, Frédéric Raymond, Patrick Descombes, Jamie S. McPhee, Jérôme N. Feige
Software Mentions: 3
Published: over 8 years ago
10.1186/1471-2164-14-498
Reannotation and extended community resources for the genome of the non-seed plant Physcomitrella patens provide insights into the evolution of plant gene structures and functions
Cited by: 159
Author(s): Andreas Zimmer, Daniel Lang, Karol Buchta, Stéphane Rombauts, Tomoaki Nishiyama, Mitsuyasu Hasebe, Yves Van de Peer, Stefan A. Rensing, Ralf Reski
Software Mentions: 3
Published: over 11 years ago
10.3390/cancers13102455
Epigenetic Modulation of Radiation-Induced Diacylglycerol Kinase Alpha Expression Prevents Pro-Fibrotic Fibroblast Response
Cited by: 5
Author(s): Chun‐Shan Liu, Réka Tóth, Ali Bakr, Ashish Goyal, Saiful Islam, Kersten Breuer, Anand Mayakonda, Yu-Yu Lin, Peter Stepper, Tomasz P. Jurkowski, Marlon R. Veldwijk, Elena Sperk, Carsten Herskind, Pavlo Lutsik, Dieter Weichenhan, Christoph Plass, Peter Schmezer, Odilia Popanda
Software Mentions: 3
Published: over 3 years ago
10.1371/journal.pgen.1008223
Local adaptation drives the diversification of effectors in the fungal wheat pathogen Parastagonospora nodorum in the United States
Cited by: 46
Author(s): Jonathan Richards, Eva H. Stukenbrock, Jessica Carpenter, Zhaohui Liu, Christina Cowger, Justin D. Faris, Timothy L. Friesen
Software Mentions: 3
Published: about 5 years ago
10.3390/ijms21010179
Analysis of the Barley Malt Rootlet Proteome
Cited by: 8
Author(s): Ramamurthy Mahalingam
Software Mentions: 3
Published: almost 5 years ago
10.1186/s13059-016-0883-6
Genome and transcriptome analysis of the Mesoamerican common bean and the role of gene duplications in establishing tissue and temporal specialization of genes
Cited by: 156
Author(s): Anna Vlasova, Salvador Capella-Gutiérrez, Martha Rendón-Anaya, Miguel Ángel Hernández‐Oñate, André E. Minoche, Ionas Erb, Francisco Câmara, Pablo Prieto Barja, André Corvelo, Walter Sanseverino, Gastón Westergaard, Juliane C. Dohm, George J. Pappas, Soledad Saburido-Álvarez, Darek Kedra, Irene González González, Luca Cozzuto, Jèssica Gómez-Garrido, María A. Aguilar-Morón, Núria Andreu, O. Mario Aguilar, Jordi García-Más, Maik Zehnsdorf, Martı́n Vázquez, Alfonso Delgado‐Salinas, Luis Delaye, Ernesto Lowy, Alejandro Mentaberry, Rosana Pereira Vianello-Brondani, José Luis Garcı́a, Tyler Alioto, Federico Sánchez, Heinz Himmelbauer, Marta Santalla, Cédric Notredame, Toni Gabaldón, Alfredo Herrera-Estrella, Roderic Guigó
Software Mentions: 3
Published: over 8 years ago
10.3389/fpls.2021.699464
The New Is Old: Novel Germination Strategy Evolved From Standing Genetic Variation in Weedy Rice
Cited by: 4
Author(s): Chengchuan Zhou, Yang Feng, Gengyun Li, Mengli Wang, Jinjing Jian, Yuguo Wang, Wenju Zhang, Zilin Song, Linfeng Li, Bao‐Rong Lu, Ji Yang
Software Mentions: 3
Published: over 3 years ago
10.1186/s12964-019-0449-9
Extracellular vesicle cross-talk between pulmonary artery smooth muscle cells and endothelium during excessive TGF-β signalling: implications for PAH vascular remodelling
Cited by: 37
Author(s): Fernando de la Cuesta, Ilaria Passalacqua, Julie Rodor, Raghu Bhushan, Laura Denby, Andrew H. Baker
Software Mentions: 3
Published: about 5 years ago
10.3389/fpls.2016.00933
Transcriptome Profiling of Huanglongbing (HLB) Tolerant and Susceptible Citrus Plants Reveals the Role of Basal Resistance in HLB Tolerance
Cited by: 45
Author(s): Yunsheng Wang, Lijuan Zhou, Xiaoyue Yu, Ed Stover, Feng Luo, Yongping Duan
Software Mentions: 3
Published: over 8 years ago
10.3390/genes11121507
A Comprehensive Transcriptional Profiling of Pepper Responses to Root-Knot Nematode
Cited by: 3
Author(s): Weiming Hu, Krista Kingsbury, Shova Mishra, Peter DiGennaro
Software Mentions: 3
Published: almost 4 years ago
10.3389/fpls.2019.00152
Phytochrome A Regulates Carbon Flux in Dark Grown Tomato Seedlings
Cited by: 10
Author(s): Keisha D. Carlson, Sneha Bhogale, Drew Anderson, Lars Tomanek, Andreas Madlung
Software Mentions: 3
Published: over 5 years ago
10.1186/s12870-021-02825-w
Transcriptional and proteomic insights into phytotoxic activity of interspecific potato hybrids with low glycoalkaloid contents
Cited by: 5
Author(s): Katarzyna Szajko, Jarosław Ciekot, Iwona Wasilewicz‐Flis, Waldemar Marczewski, Dorota Sołtys‐Kalina
Software Mentions: 3
Published: almost 4 years ago
10.1371/journal.pbio.3000540
Loss of adenomatous polyposis coli function renders intestinal epithelial cells resistant to the cytokine IL-22
Cited by: 7
Author(s): Yu Chen, Maud Vandereyken, Ian P. Newton, Ignacio Moraga, Inke Näthke, Mahima Swamy
Software Mentions: 3
Published: almost 5 years ago
10.18632/oncotarget.20083
Reduced expression of BMP3 contributes to the development of pulmonary fibrosis and predicts the unfavorable prognosis in IIP patients
Cited by: 8
Author(s): Xiaoting Yu, Pan Gu, Ziling Huang, Fang Xia, Ying Jiang, Qun Luo, Xia Li, Xuyou Zhu, Mengna Zhan, Junbang Wang, Lu Fan, Rongchang Chen, Juehua Yu, Yingying Gu, Aibin Liang, Xianghua Yi
Software Mentions: 3
Published: over 7 years ago
10.1186/s12870-021-03075-6
Transcriptomic responses to drought stress among natural populations provide insights into local adaptation of weeping forsythia
Cited by: 8
Author(s): Yong Li, Long-Chen Shi, Nancai Pei, Samuel A. Cushman, Yu-Tao Si
Software Mentions: 3
Published: over 3 years ago
10.1016/j.celrep.2019.11.044
Amyloid Beta and Tau Cooperate to Cause Reversible Behavioral and Transcriptional Deficits in a Model of Alzheimer’s Disease
Cited by: 107
Author(s): Eleanor K. Pickett, Abigail G. Herrmann, Judith K. McQueen, Kimberly M. Abt, Owen Dando, Jane Tulloch, Pooja Jain, Sophie Dunnett, Sadaf Sohrabi, Maria P. Fjeldstad, Will Calkin, Leo Murison, Rosemary J. Jackson, Makis Tzioras, Anna J. Stevenson, Marie d’Orange, Monique Hooley, C. T. M. Davies, Martí Colom‐Cadena, Alejandro Antón, Declan King, Iris Oren, Jamie Rose, Chris Anne McKenzie, Elizabeth Allison, Colin Smith, Oliver Hardt, Christopher M. Henstridge, Giles E. Hardingham, Tara L. Spires‐Jones
Software Mentions: 3
Published: almost 5 years ago
10.3389/fpls.2021.666342
Sorghum Pan-Genome Explores the Functional Utility for Genomic-Assisted Breeding to Accelerate the Genetic Gain
Cited by: 36
Author(s): Pradeep Ruperao, Nepolean Thirunavukkarasu, Prasad Gandham, Sivasubramani Selvanayagam, Mahalingam Govindaraj, Baloua Nebié, Eric Manyasa, Rajeev Gupta, Roma Rani Das, Damaris Achieng Odeny, Harish Gandhi, David Edwards, Santosh Deshpande, Abhishek Rathore
Software Mentions: 3
Published: over 3 years ago
10.3389/fpls.2020.570418
Histology and RNA Sequencing Provide Insights Into Fusarium Head Blight Resistance in AAC Tenacious
Cited by: 9
Author(s): Kirby T. Nilsen, Sean Walkowiak, Santosh Kumar, Oscar I. Molina, H. S. Randhawa, Raman Dhariwal, Brook Byrns, Curtis Pozniak, María Antonia Henríquez
Software Mentions: 3
Published: almost 4 years ago
10.1093/bioinformatics/btt731
Oqtans: the RNA-seq workbench in the cloud for complete and reproducible quantitative transcriptome analysis
Cited by: 12
Author(s): Vipin T. Sreedharan, Sebastian J. Schultheiß, Géraldine Jean, André Kahles, Regina Bohnert, Philipp Drewe, Pramod Kaushik Mudrakarta, Nico Görnitz, Georg Zeller, Gunnar Rätsch
Software Mentions: 3
Published: almost 11 years ago
10.3389/fpls.2019.00118
Cytological, Biochemical and Molecular Events of the Embryogenic State in Douglas-fir (Pseudotsuga menziesii [Mirb.])
Cited by: 17
Author(s): Florian Gautier, Philippe Label, Kateřina Eliášová, Jean‐Charles Leplé, Václav Motyka, Nathalie Boizot, Zuzana Vondráková, Jiří Malbeck, Alena Trávníčková, Claire Le Metté, Marie-Claude Lesage-Descauses, Anne-Marie Lomenech, Jean-François Trontin, Guy Costa, Marie‐Anne Lelu‐Walter, Caroline Teyssier
Software Mentions: 3
Published: over 5 years ago
10.1186/s12864-018-5207-7
Altered expression of K13 disrupts DNA replication and repair in Plasmodium falciparum
Cited by: 30
Author(s): Justin Gibbons, Katrina A. Button-Simons, Swamy Rakesh Adapa, Suzanne Li, Maxwell Pietsch, Min Zhang, Xiangyun Liao, John Adams, Michael T. Ferdig, Rays H. Y. Jiang
Software Mentions: 3
Published: almost 6 years ago
10.1534/g3.120.401477
Network Analysis Prioritizes <i>DEWAX</i> and <i>ICE1</i> as the Candidate Genes for Major eQTL Hotspots in Seed Germination of <i>Arabidopsis thaliana</i>
Cited by: 5
Author(s): Margi Hartanto, Ronny V.L. Joosen, L. Basten Snoek, Leo A.J. Willems, Mark G. Sterken, Dick de Ridder, Henk W. M. Hilhorst, Wilco Ligterink, Harm Nijveen
Software Mentions: 3
Published: about 4 years ago
10.1186/s12864-019-6348-z
From bud formation to flowering: transcriptomic state defines the cherry developmental phases of sweet cherry bud dormancy
Cited by: 44
Author(s): Noémie Vimont, Mathieu Fouché, José Antonio Campoy, Meixuezi Tong, Mustapha Arkoun, Jean-Claude Yvin, Philip A. Wigge, Elisabeth Dirlewanger, Sandra Cortijo, Bénédicte Wenden
Software Mentions: 3
Published: almost 5 years ago
10.1038/s41598-019-47077-9
Relationships of Non-coding RNA with diabetes and depression
Cited by: 22
Author(s): Tian An, Jing Zhang, Yue Ma, Juan Lian, Yanxiang Wu, Bohan Lv, Meng-Hua Ma, Meng Ji, Yuntao Zhou, Zhiyong Zhang, Qing Liu, Gao S, Guiyan Jiang
Software Mentions: 3
Published: over 5 years ago
10.1371/journal.pntd.0004406
Comparative Transcriptomic Exploration Reveals Unique Molecular Adaptations of Neuropathogenic Trichobilharzia to Invade and Parasitize Its Avian Definitive Host
Cited by: 18
Author(s): Roman Leontovyč, Neil D. Young, Pasi K. Korhonen, Ross S. Hall, Patrick Tan, Libor Mikeš, Martin Kašný, Petr Horák, Robin B. Gasser
Software Mentions: 3
Published: almost 9 years ago
10.1534/g3.116.028290
Transcriptomic Analysis Identifies Candidate Genes and Gene Sets Controlling the Response of Porcine Peripheral Blood Mononuclear Cells to Poly I:C Stimulation
Cited by: 10
Author(s): Jiying Wang, Yanping Wang, Huaizhong Wang, Haifei Wang, Jianfeng Liu, Ying Wu, Jianfeng Guo
Software Mentions: 3
Published: over 8 years ago
10.1002/ajp.23101
Maternal weight affects placental DNA methylation of genes involved in metabolic pathways in the common marmoset monkey ( <i>Callithrix jacchus</i> )
Cited by: 7
Author(s): Laren Narapareddy, Derek E. Wildman, Don Armstrong, Amy Weckle, Aleeca F. Bell, Crystal L. Patil, Suzette D. Tardif, Corinna N. Ross, Julienne N. Rutherford
Software Mentions: 3
Published: almost 5 years ago
10.1371/journal.pgen.1004226
The Functional Consequences of Variation in Transcription Factor Binding
Cited by: 187
Author(s): Darren A. Cusanovich, Bryan J. Pavlovic, Jonathan K. Pritchard, Yoav Gilad
Software Mentions: 3
Published: over 10 years ago
10.3390/cells10020404
Impact of DJ-1 and Helix 8 on the Proteome and Degradome of Neuron-Like Cells
Cited by: 3
Author(s): Ursula Kern, Klemens Fröhlich, Johanna Bedacht, Nico M. Schmidt, Martin L. Biniossek, Nicole Gensch, Katja Baerenfaller, Oliver Schilling
Software Mentions: 3
Published: almost 4 years ago
10.1038/s41598-019-46492-2
Global impact of diet and temperature over aquaculture of Octopus vulgaris paralarvae from a transcriptomic approach
Cited by: 24
Author(s): Pablo García-Fernández, María Prado-Álvarez, Manuel Nande, Daniel García de la serrana, C. Perales-Raya, E. Almansa, Inmaculada Varó, Camino Gestal
Software Mentions: 3
Published: over 5 years ago
10.3390/cells9030525
Stress Reshapes the Physiological Response of Halophile Fungi to Salinity
Cited by: 23
Author(s): Yordanis Pérez-Llano, Eya Caridad Rodríguez-Pupo, Irina S. Druzhinina, Komal Chenthamara, Feng Cai, Nina Gunde‐Cimerman, Polona Zalar, Cene Gostinčar, Rok Kostanjšek, Jorge Luis Folch-Mallol, Ramón Alberto Batista-García, María del Rayo Sánchez-Carbente
Software Mentions: 3
Published: over 4 years ago
10.1038/s41598-019-46282-w
Actin stabilizing compounds show specific biological effects due to their binding mode
Cited by: 26
Author(s): Shuaijun Wang, Álvaro H. Crevenna, İlke Uǧur, Antoine Marion, Iris Antes, Uli Kazmaier, Maria Hoyer, Don C. Lamb, Florian Gegenfurtner, Zane Kliesmete, Christoph Ziegenhain, Wolfgang Enard, Angelika M. Vollmar, Stefan Zahler
Software Mentions: 3
Published: over 5 years ago
10.3390/plants9111522
Screening of Salt Stress Responsive Genes in Brachypodium distachyon (L.) Beauv. by Transcriptome Analysis
Cited by: 6
Author(s): Xiaocheng Guo, Qingjun Wang, Yuan Liu, Xuejie Zhang, Luoyan Zhang, Shoujin Fan
Software Mentions: 3
Published: about 4 years ago
10.1186/s13020-019-0225-1
Baduanjin exerts anti-diabetic and anti-depression effects by regulating the expression of mRNA, lncRNA, and circRNA
Cited by: 37
Author(s): Tian An, Zhong-Chen He, Xinqing Zhang, Jun Li, Ailing Chen, Fang Tan, Hongdong Chen, Bohan Lv, Juan Lian, Gao S, Guiyan Jiang
Software Mentions: 3
Published: almost 6 years ago
10.1038/s41598-019-43277-5
Comparative transcriptome profiling of multi-ovary wheat under heterogeneous cytoplasm suppression
Cited by: 1
Author(s): Jialin Guo, Gaisheng Zhang, Yulong Song, Shen Ma, Na Niu, Junwei Wang
Software Mentions: 3
Published: over 5 years ago
10.1038/s42003-020-0932-2
Rice 3D chromatin structure correlates with sequence variation and meiotic recombination rate
Cited by: 18
Author(s): Agnieszka A. Golicz, Prem L. Bhalla, David Edwards, Mohan B. Singh
Software Mentions: 3
Published: over 4 years ago
10.1002/pld3.92
Transcriptomic analysis of sweet potato under dehydration stress identifies candidate genes for drought tolerance
Cited by: 18
Author(s): Kin H. Lau, Mariana Herrera, Emily Crisovan, Shan Wu, Zhangjun Fei, Muhammad Awais Khan, C. Robin Buell, Dorcus C. Gemenet
Software Mentions: 3
Published: about 6 years ago
10.1038/s41598-018-33078-7
Landscape of alternative splicing in Capra_hircus
Cited by: 3
Author(s): Tieshan Xu, Xu Feng, Lihong Gu, Guang Rong, Li Mao, Fei Qiao, Liguang Shi, Dingfa Wang, Wanliang Xia, Wenjuan Xun, Ting Cao, Yiming Liu, Zhemin Lin, Hanlin Zhou
Software Mentions: 3
Published: about 6 years ago
10.1038/s42003-021-01770-6
Sociality sculpts similar patterns of molecular evolution in two independently evolved lineages of eusocial bees
Cited by: 16
Author(s): Wyatt A. Shell, Michael Steffen, Hannah K. Pare, Arun S. Seetharam, Andrew J. Severin, Amy L. Toth, Sandra M. Rehan
Software Mentions: 3
Published: over 3 years ago
10.3390/pathogens8030132
Whole Transcriptome Analysis of Aedes albopictus Mosquito Head and Thorax Post-Chikungunya Virus Infection
Cited by: 9
Author(s): Ravikiran Vedururu, Matthew J. Neave, Vinod Sundaramoorthy, Diane Green, Jennifer Harper, Paul R Gorry, Jean‐Bernard Duchemin, Prasad N. Paradkar
Software Mentions: 3
Published: about 5 years ago
10.1186/1755-8794-6-28
Whole transcriptome sequencing identifies tumor-specific mutations in human oral squamous cell carcinoma
Cited by: 24
Author(s): Zhilin Qu, Jun Zhang, Hong Jin, Sitong Sheng
Software Mentions: 3
Published: about 11 years ago
10.1186/s12863-014-0158-8
Identification of gene co-expression clusters in liver tissues from multiple porcine populations with high and low backfat androstenone phenotype
Cited by: 6
Author(s): Sudeep Sahadevan, Ernst Tholen, Christine Große‐Brinkhaus, K. Schellander, Dawit Tesfaye, Martin Hofmann‐Apitius, Mehmet Ulaş Çınar, Asep Gunawan, Michael Hölker, Christiane Neuhoff
Software Mentions: 3
Published: over 9 years ago
10.1371/journal.pone.0158621
Comparative Digital Gene Expression Analysis of the Arabidopsis Response to Volatiles Emitted by Bacillus amyloliquefaciens
Cited by: 26
Author(s): Haiting Hao, Xia Zhao, Qianhan Shang, Yun Wang, Zhihong Guo, Yubao Zhang, Ruo–Yu Wang
Software Mentions: 3
Published: over 8 years ago
10.1186/1752-0509-6-38
Organizational structure and the periphery of the gene regulatory network in B-cell lymphoma
Cited by: 23
Author(s): Ricardo de Matos Simoes, Shailesh Tripathi, Frank Emmert‐Streib
Software Mentions: 3
Published: over 12 years ago
10.3390/diagnostics10050263
The Influence of Methylating Mutations on Acute Myeloid Leukemia: Preliminary Analysis on 56 Patients
Cited by: 3
Author(s): Sergiu Pașca, Cristina Turcas, Ancuța Jurj, Patric Teodorescu, Sabina Iluta, Ionut Hotea, Anca Bojan, Cristina Selicean, Bogdan Fetică, Bobe Petrushev, Vlad Moisoiu, Alina-Andreea Zimța, Valentina Sas, Cătălin Constantinescu, Dumitru Zdrenghea, Delia Dima, Ciprian Tomuleasa
Software Mentions: 3
Published: over 4 years ago
10.1155/2021/5089371
CXCL1 Clone Evolution Induced by the HDAC Inhibitor Belinostat Might Be a Favorable Prognostic Indicator in Triple-Negative Breast Cancer
Cited by: 4
Author(s): Xinle Han, Jun Du, Yadan Zheng, Jingbo Dai, Su-Wen Lin, Bingyue Zhang, Fubo Zhong, Zhe-Guang Lin, Shuhan Jiang, Wei Wei, Zhengyu Fang
Software Mentions: 3
Published: over 3 years ago
10.15252/emmm.201707565
The cardiac microenvironment uses non‐canonical <scp>WNT</scp> signaling to activate monocytes after myocardial infarction
Cited by: 48
Author(s): Ingmar Sören Meyer, Andreas Jungmann, Christoph Dieterich, Min Zhang, Felix Lasitschka, Susann Werkmeister, Jan Haas, Oliver Müller, Michael Boutros, Matthias Nahrendorf, Hugo A. Katus, Stefan E. Hardt, Florian Leuschner
Software Mentions: 3
Published: over 7 years ago
10.1186/s13071-019-3615-4
DNA methylation and hydroxymethylation profiles reveal possible role of highly methylated TLR signaling on Fasciola gigantica excretory/secretory products (FgESPs) modulation of buffalo dendritic cells
Cited by: 8
Author(s): Xuefang Mei, Wei Shi, Yao‐Yao Zhang, Bin Zhu, Yu-Rui Wang, Lin-jing Hou, Wei Zhao, Jian Li, Dongying Wang, Honglin Luo, Weiyi Huang
Software Mentions: 3
Published: over 5 years ago
10.3390/microorganisms7100455
Global Transcriptional Response of Three Highly Acid-Tolerant Field Strains of Listeria monocytogenes to HCl Stress
Cited by: 10
Author(s): Jule Anna Horlbog, Marc J. A. Stevens, Roger Stephan, Claudia Guldimann
Software Mentions: 3
Published: about 5 years ago
10.1371/journal.pgen.1009625
Light affects behavioral despair involving the clock gene Period 1
Cited by: 16
Author(s): Iwona Olejniczak, Jürgen A. Ripperger, Federica Sandrelli, Anna Schnell, Laureen Mansencal-Strittmatter, Katrin S. Wendrich, Ka Yi Hui, Andrea Brenna, Naïla Ben Fredj, Urs Albrecht
Software Mentions: 3
Published: over 3 years ago
10.1038/s41598-018-21065-x
RNA-seq transcriptome analysis of breast cancer cell lines under shikonin treatment
Cited by: 25
Author(s): Kuo‐Hua Lin, Ming‐Yii Huang, Wei‐Chung Cheng, Shu-Chi Wang, Shih-Hua Fang, Hung-Pin Tu, Chin-Chuan Su, Yung-Li Hung, Po-Len Liu, Chi-Shuo Chen, Yuting Wang, Chia-Yang Li
Software Mentions: 3
Published: almost 7 years ago
10.1038/s41598-017-17484-x
Comparative analysis of the genomes of Stylophora pistillata and Acropora digitifera provides evidence for extensive differences between species of corals
Cited by: 109
Author(s): Christian Cr Voolstra, Yong Li, Yi Jin Liew, Sebastian Baumgarten, Didier Zoccola, Jean‐François Flot, Sylvie Tambutté, Denis Allemand, Manuel Aranda
Software Mentions: 3
Published: almost 7 years ago
10.1038/s41598-017-02970-z
Alternative splicing shapes transcriptome but not proteome diversity in Physcomitrella patens
Cited by: 16
Author(s): Igor Fesenko, Regina Khazigaleeva, Ilya Kirov, Andrey Kniazev, Oksana Glushenko, Konstantin Babalyan, Georgij Arapidi, Tatiana I. Shashkova, Ivan Butenko, Victor G. Zgoda, Ksenia S. Anufrieva, A. V. Seredina, Anna Filippova, Vadim M. Govorun
Software Mentions: 3
Published: over 7 years ago
10.3390/v11060513
RNASeq Analysis of Aedes albopictus Mosquito Midguts after Chikungunya Virus Infection
Cited by: 20
Author(s): Ravikiran Vedururu, Matthew J. Neave, Mary Tachedjian, Melissa J. Klein, Paul R Gorry, Jean‐Bernard Duchemin, Prasad N. Paradkar
Software Mentions: 3
Published: over 5 years ago
10.1038/srep36789
Population genomic analysis uncovers environmental stress-driven selection and adaptation of Lentinula edodes population in China
Cited by: 18
Author(s): Yang Xiao, Xuanjin Cheng, Jun Liu, Chuang Li, Wenyan Nong, Yinbing Bian, Man Kit Cheung, Hoi Shan Kwan
Software Mentions: 3
Published: about 8 years ago
10.3390/microorganisms8050707
Transcriptome Analysis of Gene Expression in Dermacoccus abyssi HZAU 226 under Lysozyme Stress
Cited by: 7
Author(s): Xinshuai Zhang, Yao Ruan, Wukang Liu, Qian Chen, Lihong Gu, Aizhen Guo
Software Mentions: 3
Published: over 4 years ago
10.1186/s12864-019-5842-7
Transcriptional reprogramming caused by the geminivirus Tomato yellow leaf curl virus in local or systemic infections in Nicotiana benthamiana
Cited by: 23
Author(s): Mengshi Wu, Xue Ding, Xing Fu, Rosa Lozano‐Durán
Software Mentions: 3
Published: over 5 years ago
10.1186/s12864-017-4170-z
Transcript expression plasticity as a response to alternative larval host plants in the speciation process of corn and rice strains of Spodoptera frugiperda
Cited by: 35
Author(s): Karina Lucas Silva‐Brandão, Renato J. Horikoshi, Daniel Bernardi, Celso Omoto, Antônio Figueira, Marcelo Mendes Brandão
Software Mentions: 3
Published: about 7 years ago
10.1186/s13024-021-00433-8
Altered network properties in C9ORF72 repeat expansion cortical neurons are due to synaptic dysfunction
Cited by: 27
Author(s): Emma M. Perkins, Karen Burr, Poulomi Banerjee, Arpan R. Mehta, Owen Dando, Bhuvaneish T. Selvaraj, Daumante Šuminaite, Jyoti Nanda, Christopher M. Henstridge, Thomas H. Gillingwater, Giles E. Hardingham, David J. A. Wyllie, Siddharthan Chandran, Matthew R. Livesey
Software Mentions: 3
Published: over 3 years ago
10.1186/s12864-020-6682-1
Transcriptomic diversity in seedling roots of European flint maize in response to cold
Cited by: 13
Author(s): Felix P. Frey, Marion Pitz, Chris‐Carolin Schön, Frank Hochholdinger
Software Mentions: 3
Published: over 4 years ago
10.1371/journal.pgen.1002463
Systematic Detection of Epistatic Interactions Based on Allele Pair Frequencies
Cited by: 16
Author(s): Marit Ackermann, Andreas Beyer
Software Mentions: 3
Published: almost 13 years ago
10.1371/journal.pone.0076265
Modeling the Neurovascular Niche: Unbiased Transcriptome Analysis of the Murine Subventricular Zone in Response to Hypoxic Insult
Cited by: 7
Author(s): Qi Li, Sandra Canosa, Kelly M. Flynn, Michael Michaud, Michael Krauthammer, Joseph A. Madri
Software Mentions: 3
Published: about 11 years ago
10.1111/j.1525-142X.2010.00400.x
Molecular signaling in zebrafish development and the vertebrate phylotypic period
Cited by: 37
Author(s): Aurélie Comte, Julien Roux, Marc Robinson‐Rechavi
Software Mentions: 3
Published: over 14 years ago
10.1186/s12864-019-6202-3
The neurogenomic transition from territory establishment to parenting in a territorial female songbird
Cited by: 9
Author(s): Alexandra B. Bentz, Douglas B. Rusch, Aaron Buechlein, Kimberly A. Rosvall
Software Mentions: 3
Published: about 5 years ago
10.1371/journal.pone.0255660
Effect of food source availability in the salivary gland transcriptome of the unique burying beetle Nicrophorus pustulatus (Coleoptera: Silphidae)
Cited by: 0
Author(s): Christian Ayala-Ortiz, Jacob W. Farriester, Carrie J Pratt, Anna K Goldkamp, Jessica Matts, W. Wyatt Hoback, John E. Gustafson, Darren E. Hagen
Software Mentions: 3
Published: about 3 years ago
10.1371/journal.ppat.1002864
Genome-Wide Analysis of Germline Signaling Genes Regulating Longevity and Innate Immunity in the Nematode Pristionchus pacificus
Cited by: 24
Author(s): Robbie Rae, Amit Sinha, Ralf J. Sommer
Software Mentions: 3
Published: over 12 years ago
10.1186/1471-2164-15-1134
Discovery of osmotic sensitive transcription factors in fish intestine via a transcriptomic approach
Cited by: 35
Author(s): Marty Kwok‐Shing Wong, Haruka Ozaki, Yutaka Suzuki, Wataru Iwasaki, Yoshiyuki Takei
Software Mentions: 3
Published: almost 11 years ago
10.1186/s12864-017-3852-x
Coping with living in the soil: the genome of the parthenogenetic springtail Folsomia candida
Cited by: 97
Author(s): Anna Faddeeva-Vakhrusheva, Ken Kraaijeveld, Martijn F.L. Derks, Seyed Yahya Anvar, Valeria Agamennone, Wouter Suring, Andries A. Kampfraath, Jacintha Ellers, Giang Le Ngoc, Cornelis A.M. van Gestel, Janine Mariën, Sandra Smit, Nico M. van Straalen, Dick Roelofs
Software Mentions: 3
Published: over 7 years ago
10.3390/ijms21041248
NCAPG Dynamically Coordinates the Myogenesis of Fetal Bovine Tissue by Adjusting Chromatin Accessibility
Cited by: 5
Author(s): Xin Hu, Yishen Xing, Xing Fu, Qiyuan Yang, Ling Ren, Yahui Wang, Qian Li, Junya Li, Lupei Zhang
Software Mentions: 3
Published: almost 5 years ago
10.1186/s12864-018-5417-z
The transcriptome landscape of the carcinogenic treatment response in the blind mole rat: insights into cancer resistance mechanisms
Cited by: 13
Author(s): Robert Altwasser, Arnon Paz, Abraham B. Korol, Irena Manov, Aaron Avivi, Imad Shams
Software Mentions: 3
Published: almost 6 years ago
10.1371/journal.pone.0211430
Role of CsrA in stress responses and metabolism important for Salmonella virulence revealed by integrated transcriptomics
Cited by: 36
Author(s): Anastasia H. Potts, Yinping Guo, Brian M. M. Ahmer, Tony Romeo
Software Mentions: 3
Published: almost 6 years ago
10.1038/hortres.2017.5
Differential gene expression analysis of ‘Chili’ (Pyrus bretschneideri) fruit pericarp with two types of bagging treatments
Cited by: 22
Author(s): Yuling Wang, Xinfu Zhang, Ran Wang, Ying-Xin Bai, Chenglian Liu, Yuan Yang, Yingjie Yang, Shaolan Yang
Software Mentions: 3
Published: over 7 years ago
10.7150/thno.54999
Progressive stretch enhances growth and maturation of 3D stem-cell-derived myocardium
Cited by: 28
Author(s): Kun Lü, Thomas Seidel, Xiaochun Cao-Ehlker, Tatjana Dorn, Aarif M.N. Batcha, Christine Schneider, María Eugenia Aubet Semmler, Tilmann Volk, Alessandra Moretti, Andreas Dendorfer, Roland Tomasi
Software Mentions: 3
Published: almost 4 years ago
10.1155/2019/8732023
Dynamic Changes of DNA Methylation and Transcriptome Expression in Porcine Ovaries during Aging
Cited by: 8
Author(s): Xiaoyu Xi, Qin Zou, Yingying Wei, Chen Yan, Xue Wang, Daojun Lv, Peilin Li, Anxiang Wen, Li Zhu, Guoqing Tang, Jideng Ma, Mingzhou Li, Xuewei Li, Yanzhi Jiang
Software Mentions: 2
Published: about 5 years ago
10.1371/journal.pgen.1007766
Hepatic gene body hypermethylation is a shared epigenetic signature of murine longevity
Cited by: 7
Author(s): Oliver Hahn, Thomas M. Stubbs, Wolf Reik, Sebastian Grönke, Andreas Beyer, Linda Partridge
Software Mentions: 2
Published: about 6 years ago
10.1371/journal.pgen.1005709
Reciprocal Effects on Neurocognitive and Metabolic Phenotypes in Mouse Models of 16p11.2 Deletion and Duplication Syndromes
Cited by: 110
Author(s): Thomas Arbogast, Abdel‐Mouttalib Ouagazzal, Claire Chevalier, Maksym V. Kopanitsa, Nurudeen O. Afinowi, Eugenia Migliavacca, Belinda S. Cowling, Marie‐Christine Birling, Marie‐France Champy, Alexandre Reymond, Yann Hérault
Software Mentions: 2
Published: almost 9 years ago
10.1038/s41396-020-00799-5
Niche differentiation and evolution of the wood decay machinery in the invasive fungus Serpula lacrymans
Cited by: 14
Author(s): Jaqueline Hess, Sudhagar V. Balasundaram, Renee I. Bakkemo, Élodie Drula, Bernard Henrissat, Nils Högberg, Daniel C. Eastwood, Inger Skrede
Software Mentions: 2
Published: about 4 years ago
10.7150/ijbs.36284
Development and Validation of Tumor-educated Blood Platelets Integrin Alpha 2b (ITGA2B) RNA for Diagnosis and Prognosis of Non-small-cell Lung Cancer through RNA-seq
Cited by: 35
Author(s): Shan Xing, Tao Zeng, Ning Xue, Yi He, Yanzhen Lai, Hui-Lan Li, Qi Huang, Shulin Chen, Wanli Liu
Software Mentions: 2
Published: almost 6 years ago
10.1186/s13046-018-0873-5
Integrated genomic analyses in PDX model reveal a cyclin-dependent kinase inhibitor Palbociclib as a novel candidate drug for nasopharyngeal carcinoma
Cited by: 20
Author(s): Cheng Lung Hsu, Kar Wai Lui, Ming Liu, Yung Chia Kuo, Yin‐Kai Chao, Chun‐Nan Yeh, Li Yu Lee, Yen‐Lin Huang, Tsan-Shiun Lin, Mei Yuan Huang, Yi Ru Lai, Yuan Ming Yeh, Hsien Chi Fan, An Chi Lin, Yen Jung Lu, Chia Hsun Hsieh, Kai Ping Chang, Ngan Ming Tsang, Hung Ming Wang, Alex Y. Chang, Yu Sun Chang, Hsin Pai Li
Software Mentions: 2
Published: about 6 years ago
10.1155/2015/265791
Analysis of the<i>Thinopyrum elongatum</i>Transcriptome under Water Deficit Stress
Cited by: 7
Author(s): Yongjun Shu, Jun Zhang, You Ao, Lili Song, Changhong Guo
Software Mentions: 2
Published: almost 10 years ago
10.1371/journal.pone.0225357
The novel microRNAs hsa-miR-nov7 and hsa-miR-nov3 are over-expressed in locally advanced breast cancer
Cited by: 3
Author(s): Deepak Poduval, Zuzana Sichmanova, Anne Hege Straume, Per Eystein Lønning, Stian Knappskog
Software Mentions: 2
Published: over 4 years ago
10.1371/journal.pone.0121303
Plasmodium knowlesi Genome Sequences from Clinical Isolates Reveal Extensive Genomic Dimorphism
Cited by: 55
Author(s): Miguel Pinheiro, Atique Ahmed, Scott B. Millar, Theo Sanderson, Thomas D. Otto, Woon Chan Lu, Sanjeev Krishna, Julian C. Rayner, Janet Cox-Singh
Software Mentions: 2
Published: over 9 years ago
10.1155/2014/509149
FSim: A Novel Functional Similarity Search Algorithm and Tool for Discovering Functionally Related Gene Products
Cited by: 2
Author(s): Qiang Hu, Zhigang Wang, Zhengguo Zhang
Software Mentions: 2
Published: almost 11 years ago
10.1155/2018/8217486
RNA Sequencing Reveals the Suitability of Cardiac Death Livers for Transplantation
Cited by: 1
Author(s): Xinguo Chen, Zhongyang Shen, Xuyi Zhang, Jing Guo, Yongsheng Hao, Li Cao, Yanwen Yang, Fengdong Wu, Yi Wang, Letian Wang, Min Sha, Qing Zhang
Software Mentions: 2
Published: about 6 years ago
10.1371/journal.pone.0165368
Gene Expression Dynamics Accompanying the Sponge Thermal Stress Response
Cited by: 35
Author(s): Christine Guzman, Cecilia Conaco
Software Mentions: 2
Published: about 8 years ago
10.1371/journal.pone.0101814
Allergic Contact Dermatitis in Psoriasis Patients: Typical, Delayed, and Non-Interacting
Cited by: 32
Author(s): Maria Quaranta, Stefanie Eyerich, Bettina L. Knapp, Francesca Nasorri, Claudia Scarponi, M Mattii, Natalie Garzorz, Anna T. Harlfinger, Teresa Jaeger, Martine Grosber, Davide Pennino, Martin Mempel, Christina Schnopp, Fabian J. Theis, Cristina Albanesi, Andrea Cavani, Carsten B. Schmidt‐Weber, Johannes Ring, Kilian Eyerich
Software Mentions: 2
Published: over 10 years ago
10.1371/journal.pone.0061784
Testosterone Affects Neural Gene Expression Differently in Male and Female Juncos: A Role for Hormones in Mediating Sexual Dimorphism and Conflict
Cited by: 53
Author(s): Mark P. Peterson, Kimberly A. Rosvall, Jeong Hyeon Choi, Charles Ziegenfus, Haixu Tang, John K. Colbourne, Ellen D. Ketterson
Software Mentions: 2
Published: over 11 years ago
10.1371/journal.pone.0242776
Transcriptome analysis of Curcuma wenyujin from Haikou and Wenzhou, and a comparison of the main constituents and related genes of Rhizoma Curcumae
Cited by: 3
Author(s): Lilan Lu, Peiwei Liu, Yongqiang Yang, Yuxiu Zhang, Caixia Wang, Jian Feng, Jianhe Wei
Software Mentions: 2
Published: almost 4 years ago
10.1371/journal.pone.0130600
Collembolan Transcriptomes Highlight Molecular Evolution of Hexapods and Provide Clues on the Adaptation to Terrestrial Life
Cited by: 25
Author(s): Anna Faddeeva, Romain A. Studer, Ken Kraaijeveld, Daoud Sie, Bauke Ylstra, Janine Mariën, Huub J. M. Op den Camp, Erwin Datema, Johan T. den Dunnen, Nico M. van Straalen, Dick Roelofs
Software Mentions: 2
Published: over 9 years ago
10.1371/journal.pone.0189738
The genomes of Crithidia bombi and C. expoeki, common parasites of bumblebees
Cited by: 21
Author(s): Paul Schmid‐Hempel, Markus Aebi, Seth M. Barribeau, Toshihiko Kitajima, Louis du Plessis, Regula Schmid‐Hempel, Stefan Zoller
Software Mentions: 2
Published: almost 7 years ago
10.1155/2016/7281585
Transcriptome Analyses Reveal Lipid Metabolic Process in Liver Related to the Difference of Carcass Fat Content in Rainbow Trout (<i>Oncorhynchus mykiss</i>)
Cited by: 11
Author(s): Hongwei Guo, Wei Gu, Peng Sun, Qingli Bai, Bingqian Wang
Software Mentions: 2
Published: almost 9 years ago
10.1371/journal.pone.0059459
Global Gene Expression Profiling Reveals SPINK1 as a Potential Hepatocellular Carcinoma Marker
Cited by: 60
Author(s): Aileen Marshall, Margus Lukk, Claudia Kutter, Susan Davies, Graeme Alexander, Duncan T. Odom
Software Mentions: 2
Published: over 11 years ago
10.1371/journal.pone.0174124
Specific expression of novel long non-coding RNAs in high-hyperdiploid childhood acute lymphoblastic leukemia
Cited by: 21
Author(s): Mathieu Lajoie, Simon Drouin, Maxime Caron, Pascal St-Onge, Manon Ouimet, Romain Gioia, Marie-Hélène Lafond, Ramón Vidal, Chantal Richer, Karim Oualkacha, Arnaud Droit, Daniel Sinnett
Software Mentions: 2
Published: over 7 years ago
10.1371/journal.pone.0040816
The Effect of Vorinostat on the Development of Resistance to Doxorubicin in Neuroblastoma
Cited by: 13
Author(s): Timothy B. Lautz, Chunfa Jie, Sandra Clark, Jessica A. Naiditch, Nadereh Jafari, Yi Yong Qiu, Xin Zheng, Frances Chu, Mary Beth Madonna
Software Mentions: 2
Published: over 12 years ago
10.1371/journal.pone.0050888
Graphical Modeling of Gene Expression in Monocytes Suggests Molecular Mechanisms Explaining Increased Atherosclerosis in Smokers
Cited by: 34
Author(s): Ricardo A. Verdugo, Tanja Zeller, Maxime Rotival, Philipp S. Wild, Thomas Münzel, Karl J. Lackner, Henri Weidmann, Ewa Ninio, David‐Alexandre Trégouët, François Cambien, Stefan Blankenberg, Laurence Tiret
Software Mentions: 2
Published: almost 12 years ago
10.1371/journal.pone.0211898
Global DNA methylation of peripheral blood leukocytes from dogs bearing multicentric non-Hodgkin lymphomas and healthy dogs: A comparative study
Cited by: 11
Author(s): Tatiane Moreno Ferrarias Epiphanio, Natália Coelho Couto de Azevedo Fernandes, Tiago Franco de Oliveira, Priscila Assis Lopes, Rodrigo Albergaria Réssio, Simone Gonçalves, Náyra Villar Scattone, Marcello Vannucci Tedardi, Leslie Domenici Kulikowski, Jullian Gabriel Damasceno, Ana Paula de Melo Loureiro, M.L. Dagli
Software Mentions: 2
Published: over 5 years ago
10.1016/j.cell.2021.04.005
A stony coral cell atlas illuminates the molecular and cellular basis of coral symbiosis, calcification, and immunity
Cited by: 87
Author(s): Shani Levy, Anamaria Elek, Xavier Grau‐Bové, Simón Menéndez-Bravo, Marta Iglesias, Amos Tanay, Tali Mass, Arnau Sebé-Pedrós
Software Mentions: 2
Published: over 3 years ago
10.1186/s12870-019-1712-3
Identification of cucumber circular RNAs responsive to salt stress
Cited by: 68
Author(s): Yong‐Guan Zhu, Jianhua Jia, Lei Yang, Yuchen Xia, Huili Zhang, Jinbu Jia, Ran Zhou, Pei-Yao Nie, Junliang Yin, Dongfang Ma, Lecheng Liu
Software Mentions: 2
Published: over 5 years ago
10.1007/s00204-017-1966-1
Impairment of human neural crest cell migration by prolonged exposure to interferon-beta
Cited by: 11
Author(s): Giorgia Pallocca, Johanna Nyffeler, Xenia Dolde, Marianna Grinberg, Gerhard Gstraunthaler, Tanja Waldmann, Jörg Rahnenführer, Agapios Sachinidis, Marcel Leist
Software Mentions: 2
Published: over 7 years ago
10.1099/jmm.0.000482
Salmonella DIVA vaccine reduces disease, colonization and shedding due to virulent S. Typhimurium infection in swine
Cited by: 17
Author(s): Bradley L. Bearson, Shawn M. D. Bearson, Brian W. Brunelle, Darrell O. Bayles, In Su Lee, Jalusa Deon Kich
Software Mentions: 2
Published: over 7 years ago