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

10.1099/mgen.0.000393
Evaluation of methods for detecting human reads in microbial sequencing datasets
Cited by: 10
Author(s): Stephen J. Bush, Thomas R. Connor, Tim Peto, Derrick W. Crook, A Sarah Walker
Software Mentions: 4
Published: over 4 years ago
10.1186/s12864-016-3291-0
Liver transcriptome response to hyperthermic stress in three distinct chicken lines
Cited by: 40
Author(s): Xi Lan, John Hsieh, Carl J. Schmidt, Qing Zhu, Susan J. Lamont
Software Mentions: 4
Published: about 8 years ago
10.3390/cells7120275
Activation of Polyamine Catabolism by N1,N11-Diethylnorspermine in Hepatic HepaRG Cells Induces Dedifferentiation and Mesenchymal-Like Phenotype
Cited by: 12
Author(s): О. Н. Иванова, Anastasiya V. Snezhkina, George S. Krasnov, Vladimir T. Valuev-Elliston, Olga A. Khomich, Alexey Khomutov, Tuomo A. Keinänen, Leena Alhonen, Birke Bartosch, Anna V. Kudryavtseva, Sergey N. Kochetkov, Alexander Ivanov
Software Mentions: 4
Published: almost 6 years ago
10.1016/j.stem.2017.03.003
H3K4 Methylation-Dependent Memory of Somatic Cell Identity Inhibits Reprogramming and Development of Nuclear Transfer Embryos
Cited by: 85
Author(s): Eva Hörmanseder, Angela Simeone, George E. Allen, Charles R. Bradshaw, Magdalena Figlmüller, J. B. Gurdon, Jérôme Jullien
Software Mentions: 4
Published: over 7 years ago
10.3390/cells9071745
Ribosomal Protein uL11 as a Regulator of Metabolic Circuits Related to Aging and Cell Cycle
Cited by: 7
Author(s): Mateusz Mołoń, Eliza Molestak, Monika Kula-Maximenko, Przemysław Grela, Marek Tchórzewski
Software Mentions: 4
Published: over 4 years ago
10.1186/s13071-019-3534-4
Eimeria maxima-induced transcriptional changes in the cecal mucosa of broiler chickens
Cited by: 15
Author(s): Charles Li, Xianghe Yan, Hyun S. Lillehoj, Seong-Hwan Oh, Liheng Liu, Zhifeng Sun, Changqin Gu, Youngsub Lee, Zhezi Xianyu, Hongyan Zhao
Software Mentions: 4
Published: over 5 years ago
10.1186/s12859-020-03888-6
Automated Isoform Diversity Detector (AIDD): a pipeline for investigating transcriptome diversity of RNA-seq data
Cited by: 1
Author(s): Noel‐Marie Plonski, Emily Johnson, Madeline Frederick, Heather Mercer, Gail Fraizer, Richard S. Meindl, Gemma Casadesús, Helen Piontkivska
Software Mentions: 4
Published: almost 4 years ago
10.3389/fpls.2016.01661
The Physcomitrella patens Chloroplast Proteome Changes in Response to Protoplastation
Cited by: 13
Author(s): Igor Fesenko, A. V. Seredina, Georgij Arapidi, Vasily V. Ptushenko, Anatoly S. Urban, Ivan Butenko, Sergey I. Kovalchuk, Konstantin Babalyan, Andrey Knyazev, Regina Khazigaleeva, Elena N. Pushkova, Nikolay Anikanov, В. Т. Иванов, Vadim M. Govorun
Software Mentions: 4
Published: about 8 years ago
10.1098/rsob.160224
Interplay between RNA interference and heat shock response systems in <i>Drosophila melanogaster</i>
Cited by: 9
Author(s): S. Yu. Funikov, Sergei Ryazansky, Alexander Kanapin, Maria D. Logacheva, Aleksey A. Penin, А. В. Снежкина, Victoria Shilova, Д. Г. Гарбуз, Michael B. Evgen’ev, Olga G. Zatsepina
Software Mentions: 4
Published: about 8 years ago
10.1111/cns.13637
A bioisostere of Dimebon/Latrepirdine delays the onset and slows the progression of pathology in FUS transgenic mice
Cited by: 4
Author(s): Kirill Chaprov, Alexander P. Rezvykh, S. Yu. Funikov, Т. А. Иванова, Ekaterina A. Lysikova, Alexey V. Deykin, Michail S. Kukharsky, А. Yu. Aksinenko, С. О. Бачурин, Natalia Ninkina, Vladimir L. Buchman
Software Mentions: 4
Published: over 3 years ago
10.1186/s12864-019-5667-4
Postovulatory maternal transcriptome in Atlantic salmon and its relation to developmental potential of embryos
Cited by: 8
Author(s): Teshome Tilahun Bizuayehu, Maren Mommens, Arvind Sundaram, Anusha K. S. Dhanasiri, Igor Babiak
Software Mentions: 4
Published: over 5 years ago
10.1093/brain/awaa163
Molecular and cellular correlates of human nerve regeneration: ADCYAP1/PACAP enhance nerve outgrowth
Cited by: 36
Author(s): Georgios Baskozos, Oliver Sandy-Hindmarch, Alex Clark, Katherine Windsor, Páll Karlsson, Greg A. Weir, Lucy A. McDermott, Joanna Burchall, Akira Wiberg, Dominic Furniss, David L.H. Bennett, Annina B. Schmid
Software Mentions: 4
Published: over 4 years ago
10.1155/2020/5974157
Comparative Transcriptome Analysis Reveals the Protective Mechanism of Glycyrrhinic Acid for Deoxynivalenol-Induced Inflammation and Apoptosis in IPEC-J2 Cells
Cited by: 14
Author(s): Xiaoxiang Xu, Guorong Yan, Juan Chang, Ping Wang, Qingqiang Yin, Chaoqi Liu, Qun Zhu, Fushan Lu
Software Mentions: 4
Published: about 4 years ago
10.3389/fnmol.2017.00419
Ribosomal Protein S6 Phosphorylation Is Involved in Novelty-Induced Locomotion, Synaptic Plasticity and mRNA Translation
Cited by: 27
Author(s): Emma Puighermanal, Anne Biever, Vincent Pascoli, Su Melser, Marine Pratlong, Laura Cutando, Stéphanie Rialle, Dany Séverac, Jihane Boubaker-Vitre, Oded Meyuhas, Giovanni Marsicano, Christian Lüscher, Emmanuel Valjent
Software Mentions: 4
Published: almost 7 years ago
10.3389/fnmol.2017.00340
Cell Type-Specific mRNA Dysregulation in Hippocampal CA1 Pyramidal Neurons of the Fragile X Syndrome Mouse Model
Cited by: 32
Author(s): Laura Ceolin, Nathalie Bouquier, Jihane Vitre-Boubaker, Stéphanie Rialle, Dany Séverac, Emmanuel Valjent, Julie Perroy, Emma Puighermanal
Software Mentions: 4
Published: about 7 years ago
10.3389/fonc.2020.586820
Tumor Derived SIGLEC Family Genes May Play Roles in Tumor Genesis, Progression, and Immune Microenvironment Regulation
Cited by: 14
Author(s): Chen Zheng, Ming Yu, Lei Guo, Bo Zhang, Shuang Liu, Wentao Zhang, Bing Zhou, Jiuliang Yan, Qianni Ma, Zhixu Yang, Xiao Ye, Yongfeng Xu, Hui Li, Qing–Hai Ye
Software Mentions: 4
Published: about 4 years ago
10.1186/s12885-020-07331-0
LINC00649 underexpression is an adverse prognostic marker in acute myeloid leukemia
Cited by: 11
Author(s): Chao Guo, Ya-yue Gao, Qianqian Ju, Chunxia Zhang, Ming Gong, Zhenling Li
Software Mentions: 4
Published: about 4 years ago
10.7554/eLife.65857
Whole-organism eQTL mapping at cellular resolution with single-cell sequencing
Cited by: 17
Author(s): Eyal Ben-David, James Boocock, Longhua Guo, Stefan Zdraljevic, Joshua S. Bloom, Leonid Kruglyak
Software Mentions: 4
Published: over 3 years ago
10.1128/mSystems.01048-20
Essential Amino Acid Enrichment and Positive Selection Highlight Endosymbiont's Role in a Global Virus-Vectoring Pest
Cited by: 3
Author(s): Kaitlyn N. Myers, Daniel Conn, Amanda M. V. Brown
Software Mentions: 4
Published: over 3 years ago
10.1371/journal.pone.0235763
Comparative transcriptome analysis uncovers different heat stress responses in heat-resistant and heat-sensitive jujube cultivars
Cited by: 17
Author(s): Juan Jin, Lei Yang, Dingyu Fan, Xuxin Liu, Qing Hao
Software Mentions: 4
Published: about 4 years ago
10.3390/cancers12092433
Oncogenic Orphan Nuclear Receptor NR4A3 Interacts and Cooperates with MYB in Acinic Cell Carcinoma
Cited by: 11
Author(s): David Y. Lee, Kathryn J. Brayer, Yoshitsugu Mitani, Eric A Burns, Pulivarthi H. Rao, Diana Bell, Michelle D. Williams, Renata Ferrarotto, Kristen B. Pytynia, Adel K. El‐Naggar, Scott A. Ness
Software Mentions: 4
Published: about 4 years ago
10.7554/eLife.53237
Rapid sex-specific adaptation to high temperature in Drosophila
Cited by: 20
Author(s): Sheng‐Kai Hsu, Ana Marija Jakšić, Viola Nolte, Manolis Lirakis, Robert Kofler, Neda Barghi, Elisabetta Versace, Christian Schlötterer
Software Mentions: 4
Published: almost 5 years ago
10.1038/s41398-019-0448-z
Co-expression network modeling identifies key long non-coding RNA and mRNA modules in altering molecular phenotype to develop stress-induced depression in rats
Cited by: 27
Author(s): Qingzhong Wang, Bhaskar Roy, Yogesh K. Dwivedi
Software Mentions: 4
Published: over 5 years ago
10.1186/s12885-020-07716-1
The R-enantiomer of ketorolac reduces ovarian cancer tumor burden in vivo
Cited by: 10
Author(s): Martha M. Grimes, S. Ray Kenney, Dayna Dominguez, Kathryn J. Brayer, Yi Guo, Angela Wandinger‐Ness, Laurie G. Hudson
Software Mentions: 4
Published: almost 4 years ago
10.1128/mBio.02587-19
Functional Multigenomic Screening of Human-Associated Bacteria for NF-κB-Inducing Bioactive Effectors
Cited by: 6
Author(s): Andréia Bergamo Estrela, Toshiki G. Nakashige, Christophe Lemetre, Ian Woodworth, Jazz L. Weisman, Louis Cohen, Sean F. Brady
Software Mentions: 4
Published: almost 5 years ago
10.1016/j.stemcr.2019.08.014
Base-Resolution Methylome of Retinal Pigment Epithelial Cells Used in the First Trial of Human Induced Pluripotent Stem Cell-Based Autologous Transplantation
Cited by: 17
Author(s): Hiromitsu Araki, Fumihito Miura, Akira Watanabe, Chikako Morinaga, Fumiyo Kitaoka, Yuko Kitano, Noriko Sakai, Yu Shibata, Makoto Terada, So Goto, Shinya Yamanaka, Masayo Takahashi, Takashi Ito
Software Mentions: 4
Published: about 5 years ago
10.3389/fmicb.2020.00410
Transcriptional Responses of Dictyostelium discoideum Exposed to Different Classes of Bacteria
Cited by: 9
Author(s): Otmane Lamrabet, Astrid Melotti, Frédéric Burdet, Nabil Hanna, Jackie Perrin, Jahn Nitschke, Marco Pagni, Hubert Hilbi, Thierry Soldati, Pierre Cosson
Software Mentions: 4
Published: over 4 years ago
10.7554/eLife.21052
Embryonic origin of adult stem cells required for tissue homeostasis and regeneration
Cited by: 66
Author(s): Erin L. Davies, Kai Y. Lei, Christopher Seidel, Amanda E Kroesen, Sean A. McKinney, Longhua Guo, Sofia Robb, E. J. Ross, Kirsten Gotting, Alejandro Sánchez Alvarado
Software Mentions: 4
Published: almost 8 years ago
10.1371/journal.pone.0242382
Molecular assessment and transcriptome profiling of wild fish populations of Oryzias mekongensis and O. songkhramensis (Adrianichthyidae: Beloniformes) from Thailand
Cited by: 0
Author(s): Arin Ngamniyom
Software Mentions: 4
Published: about 4 years ago
10.3389/fimmu.2020.01982
Human Regulatory Dendritic Cells Develop From Monocytes in Response to Signals From Regulatory and Helper T Cells
Cited by: 10
Author(s): Xiangyue Zhang, Pingping Zheng, Tyler R. Prestwood, Hong Zhang, Yaron Carmi, Lorna Tolentino, Nancy Wu, Okmi Choi, Daniel A. Winer, Samuel Strober, Eun‐Suk Kang, Michael N. Alonso, Edgar G. Engleman
Software Mentions: 4
Published: over 4 years ago
10.1038/s41598-020-73116-x
Base-resolution methylomes of gliomas bearing histone H3.3 mutations reveal a G34 mutant-specific signature shared with bone tumors
Cited by: 10
Author(s): Yuhei Sangatsuda, Fumihito Miura, Hiromitsu Araki, Masahiro Mizoguchi, Nobuhiro Hata, Daisuke Kuga, Ryusuke Hatae, Yojiro Akagi, Takeo Amemiya, Yutaka Fujioka, Yasuhito Arai, Akihiko Yoshida, Tatsuhiro Shibata, Koji Yoshimoto, Koji Iihara, Takashi Ito
Software Mentions: 4
Published: about 4 years ago
10.1371/journal.pone.0256471
Radiology- and gene-based risk stratification in small renal cell carcinoma: A preliminary study
Cited by: 0
Author(s): Takao Sugiyama, Yasuhiro Ushijima, Yuki Motomura, Katsumi Sakamoto, Masakazu Hirakawa, Akihiro Nishie, Koshi Mimori, Yasuo Yamashita, Takashi Tsutsumi, Kousei Ishigami
Software Mentions: 4
Published: about 3 years ago
10.3389/fgene.2020.559074
Transcriptomic Changes in Young Japanese Males After Exposure to Acute Hypobaric Hypoxia
Cited by: 8
Author(s): Yoshiki Yasukochi, Sora Shin, Hisao Wakabayashi, Takafumi Maeda
Software Mentions: 4
Published: about 4 years ago
10.1186/s12870-014-0306-3
Increased sucrose levels mediate selective mRNA translation in Arabidopsis
Cited by: 22
Author(s): Magdalena Gamm, Alessia Peviani, Anne Honsel, Berend Snel, Sjef Smeekens, Johannes Hanson
Software Mentions: 4
Published: about 10 years ago
10.1128/AAC.01207-19
Mechanism-of-Action Classification of Antibiotics by Global Transcriptome Profiling
Cited by: 50
Author(s): Aubrie O’Rourke, Sinem Beyhan, Yongwook Choi, Pavel Morales, Agnes P. Chan, Josh L. Espinoza, Chris L. Dupont, Kirsten J. Meyer, Amy L. Spoering, Kim Lewis, William C. Nierman, Karen E. Nelson
Software Mentions: 4
Published: almost 5 years ago
10.1186/s12870-020-02757-x
Differential gene expression reveals mechanisms related to habitat divergence between hybridizing orchids from the Neotropical coastal plains
Cited by: 5
Author(s): Bárbara Simões Santos Leal, Marcelo Mendes Brandão, Clarisse Palma‐Silva, Fábio Pinheiro
Software Mentions: 4
Published: almost 4 years ago
10.1371/journal.pone.0244593
Comparative RNA-Seq analysis unfolds a complex regulatory network imparting yellow mosaic disease resistance in mungbean [Vigna radiata (L.) R. Wilczek]
Cited by: 24
Author(s): Uttarayan Dasgupta, Gyan P. Mishra, Harsh Kumar Dikshit, Dwijesh Chandra Mishra, Tejas C. Bosamia, Anirban Roy, Jyotika Bhati, Priti, Muraleedhar S. Aski, Ranjeet Kumar, Amit Kumar Singh, Atul Kumar, S. K. Sinha, Sundeep Chaurasia, Shelly Praveen, Ramakrishnan M. Nair
Software Mentions: 4
Published: almost 4 years ago
10.1371/journal.pone.0101467
Transcriptome Analysis Reveals Signature of Adaptation to Landscape Fragmentation
Cited by: 22
Author(s): Panu Somervuo, Jouni Kvist, Suvi Ikonen, Petri Auvinen, Lars Paulín, Patrik Koskinen, Liisa Holm, Minna Taipale, Anne Duplouy, Annukka Ruokolainen, Suvi Saarnio, Jukka Sirén, Jukka Kohonen, Jukka Corander, Mikko J. Frilander, Virpi Ahola, Ilkka Hanski
Software Mentions: 4
Published: over 10 years ago
10.1371/journal.pntd.0007743
Transcriptome of the parasitic flatworm Schistosoma mansoni during intra-mammalian development
Cited by: 19
Author(s): Arporn Wangwiwatsin, Anna V. Protasio, Shona Wilson, Christian Owusu, Nancy Holroyd, Mandy Sanders, Jacqueline A. Keane, Michael J. Doenhoff, Gabriel Rinaldi, Matthew Berriman
Software Mentions: 4
Published: over 4 years ago
10.3389/fpls.2021.698602
Investigation Into Different Wood Formation Mechanisms Between Angiosperm and Gymnosperm Tree Species at the Transcriptional and Post-transcriptional Level
Cited by: 2
Author(s): Hui Li, Guanghui Chen, Hongying Pang, Qiao Wang, Xinren Dai
Software Mentions: 4
Published: over 3 years ago
10.1371/journal.pgen.1008908
An expanded cell wall damage signaling network is comprised of the transcription factors Rlm1 and Sko1 in Candida albicans
Cited by: 19
Author(s): Marienela Y. Heredia, Mélanie Ikeh, Deepika Gunasekaran, Karen A. Conrad, Sviatlana Filimonava, Dawn H. Marotta, Clarissa J. Nobile, Jason M. Rauceo
Software Mentions: 4
Published: over 4 years ago
10.3389/fgene.2019.00149
The Neuronal Overexpression of Gclc in Drosophila melanogaster Induces Life Extension With Longevity-Associated Transcriptomic Changes in the Thorax
Cited by: 8
Author(s): Alexey Moskalev, Zulfiya G. Guvatova, Mikhail Shaposhnikov, Ekaterina Lashmanova, Ekaterina Proshkina, Liubov Koval, Alex Zhavoronkov, George S. Krasnov, Anna V. Kudryavtseva
Software Mentions: 4
Published: over 5 years ago
10.1371/journal.pgen.1008661
An integrated analysis of cell-type specific gene expression reveals genes regulated by REVOLUTA and KANADI1 in the Arabidopsis shoot apical meristem
Cited by: 15
Author(s): Hasthi Ram, Sudeep Sahadevan, Nittaya Gale, Monica Pia Caggiano, Xiulian Yu, Carolyn Ohno, Marcus G. Heisler
Software Mentions: 4
Published: over 4 years ago
10.3389/fcell.2020.00369
Coding and Non-coding RNAs: Molecular Basis of Forest-Insect Outbreaks
Cited by: 9
Author(s): Sufang Zhang, Sifan Shen, Zhihui Yang, Xiangbo Kong, Fu Liu, Zhen Zhang
Software Mentions: 4
Published: over 4 years ago
10.3389/fmicb.2018.00063
Comparative Genomics of Completely Sequenced Lactobacillus helveticus Genomes Provides Insights into Strain-Specific Genes and Resolves Metagenomics Data Down to the Strain Level
Cited by: 47
Author(s): Michael Schmid, Jonathan Muri, Damianos P. Melidis, Adithi R. Varadarajan, Vincent Somerville, Adrian Wicki, Aline Moser, M Bourqui, Claudia Wenzel, Elisabeth Eugster‐Meier, Juerg E. Frey, Stefan Irmler, Christian H. Ahrens
Software Mentions: 4
Published: almost 7 years ago
10.1038/s41598-019-50217-w
Microbiome-Transcriptome Interactions Related to Severity of Respiratory Syncytial Virus Infection
Cited by: 28
Author(s): Abhijeet R. Sonawane, Tian Liang, Chin Yi Chu, Xing Qiu, Lu Wang, Jeanne Holden‐Wiltse, Alex Grier, Steven R. Gill, Mary T. Caserta, Ann R. Falsey, David J. Topham, Edward E. Walsh, Thomas J. Mariani, Scott T. Weiss, Edwin K. Silverman, Kimberly Glass, Yang Yu Liu
Software Mentions: 4
Published: about 5 years ago
10.3390/ijms19103265
Distinct Signatures of Host Defense Suppression by Plant-Feeding Mites
Cited by: 19
Author(s): Bernardus C. J. Schimmel, Juan M. Alba, Nicky Wybouw, Joris J. Glas, Tomas Meijer, Robert C. Schuurink, Merijn R. Kant
Software Mentions: 4
Published: about 6 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.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/s41438-020-00441-7
Genomic consequences of apple improvement
Cited by: 42
Author(s): Zoë Migicovsky, Kyle M. Gardner, Christopher M. Richards, Chih-Cheng T. Chao, Heidi Schwaninger, Gennaro Fazio, Gan-Yuan Zhong, Sean Myles
Software Mentions: 3
Published: almost 4 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
10.1038/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
10.1186/1755-8794-6-28
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
10.1371/journal.pgen.1008093
Destabilization of chromosome structure by histone H3 lysine 27 methylation
Cited by: 68
Author(s): Mareike Möller, Klaas Schotanus, Jessica L. Soyer, Janine Haueisen, Kathrin Happ, Maja Stralucke, Petra Happel, Kristina M. Smith, Lanelle Connolly, Michael Freitag, Eva H. Stukenbrock
Software Mentions: 3
Published: over 5 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
10.1186/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
10.1093/gigascience/giaa132
Chromosomal genome of <i>Triplophysa bleekeri</i> provides insights into its evolution and environmental adaptation
Cited by: 18
Author(s): Dengyue Yuan, Xuehui Chen, Haoran Gu, Ming Zou, Yu Zeng, Jian Fang, Wenjing Tao, Xiangyan Dai, Shijun Xiao, Zhijian Wang
Software Mentions: 3
Published: about 4 years ago
10.1002/glia.23761
Mutant <i>C9orf72</i> human iPSC‐derived astrocytes cause non‐cell autonomous motor neuron pathophysiology
Cited by: 78
Author(s): Chen Zhao, Anna-Claire Devlin, Amit K. Chouhan, Bhuvaneish T. Selvaraj, Maria Stavrou, Karen Burr, Veronica Brivio, Xin He, Arpan R. Mehta, David Story, Christopher E. Shaw, Owen Dando, Giles E. Hardingham, Gareth B. Miles, Siddharthan Chandran
Software Mentions: 3
Published: almost 5 years ago
10.1371/journal.pgen.1000311
Developmental Constraints on Vertebrate Genome Evolution
Cited by: 104
Author(s): Julien Roux, Marc Robinson‐Rechavi
Software Mentions: 3
Published: almost 16 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/s12864-019-5842-7
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
10.1371/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/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/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
10.3390/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
10.1093/gbe/evz048
A High-Quality Grapevine Downy Mildew Genome Assembly Reveals Rapidly Evolving and Lineage-Specific Putative Host Adaptation Genes
Cited by: 40
Author(s): Yann Dussert, Isabelle D. Mazet, Carole Couture, Jérôme Gouzy, Marie-Christine Piron, Claire Kuchly, Olivier Bouchez, Claude Rispe, Pere Mestre, François Delmotte
Software Mentions: 3
Published: over 5 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
10.1002/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
10.1186/1471-2164-15-1134
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/s12864-018-5417-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
10.1186/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
10.3390/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
10.3390/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/s12864-020-06826-1
Genome-wide identification and comparison of differentially expressed profiles of miRNAs and lncRNAs with associated ceRNA networks in the gonads of Chinese soft-shelled turtle, Pelodiscus sinensis
Cited by: 13
Author(s): Xiao Ma, Shuangshuang Cen, Luming Wang, Chao Zhang, Limin Wu, Tian Xue, Qing Wu, Xuejun Li, Xiaoqing Wang
Software Mentions: 3
Published: over 4 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
10.1093/gbe/evu067
Comparative Genomics of Taphrina Fungi Causing Varying Degrees of Tumorous Deformity in Plants
Cited by: 29
Author(s): Isheng Jason Tsai, Eiji Tanaka, Hayato Masuya, Ryusei Tanaka, Y. Hirooka, Rikiya Endoh, Norio Sahashi, Taisei Kikuchi
Software Mentions: 3
Published: over 10 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
10.3390/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
10.15252/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
10.18632/aging.101027
Higher expression of somatic repair genes in long-lived ant queens than workers
Cited by: 28
Author(s): Eric R. Lucas, Eyal Privman, Laurent Keller
Software Mentions: 3
Published: about 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/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
10.1534/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
10.1534/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
10.1093/gbe/evv144
Comparative Genomics of a Bacterivorous Green Alga Reveals Evolutionary Causalities and Consequences of Phago-Mixotrophic Mode of Nutrition
Cited by: 27
Author(s): John A. Burns, Amber Paasch, Apurva Narechania, Eun-Soo Kim
Software Mentions: 3
Published: over 9 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
10.3389/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
10.1186/s12859-017-1714-9
Integration of quantitated expression estimates from polyA-selected and rRNA-depleted RNA-seq libraries
Cited by: 26
Author(s): Stephen J. Bush, Mary E. B. McCulloch, Kim M. Summers, David Hume, Emily L. Clark
Software Mentions: 3
Published: over 7 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
10.1038/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
10.1186/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
10.1186/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
10.1186/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
10.3390/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
10.3390/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
10.3389/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
10.3390/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
10.1007/s00204-015-1573-y
A transcriptome-based classifier to identify developmental toxicants by stem cell testing: design, validation and optimization for histone deacetylase inhibitors
Cited by: 79
Author(s): Eugen Rempel, Lisa Hoelting, Tanja Waldmann, Nina V. Balmer, Stefan Schildknecht, Marianna Grinberg, John Antonydas Gaspar, Vaibhav Shinde, Regina Stöber, Rosemarie Marchan, Christoph van Thriel, Julia Liebing, Johannes Meisig, Nils Blüthgen, Agapios Sachinidis, Jörg Rahnenführer, Jan G. Hengstler, Marcel Leist
Software Mentions: 3
Published: over 9 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