cran: STAR | Projects | Ecosyste.ms: Papers

10.1186/s12864-017-3992-z

Identification of SNPs associated with muscle yield and quality traits using allelic-imbalance analyses of pooled RNA-Seq samples in rainbow trout
Cited by: 28
Author(s): Rafet Al-Tobasei, Ali R. Ali, Timothy D. Leeds, Sixin Liu, Yniv Palti, Brett Kenney, Mohamed Salem
Software Mentions: 1
Published: almost 8 years ago

10.1186/s13015-015-0046-4

A polynomial delay algorithm for the enumeration of bubbles with length constraints in directed graphs
Cited by: 2
Author(s): Gustavo Sacomoto, Vincent Lacroix, Marie‐France Sagot
Software Mentions: 1
Published: about 10 years ago

10.1186/s12979-020-00198-6

ARID3a expression in human hematopoietic stem cells is associated with distinct gene patterns in aged individuals
Cited by: 6
Author(s): Michelle Ratliff, Joshua W. Garton, Judith A. James, Carol F. Webb
Software Mentions: 1
Published: almost 5 years ago

10.1186/s43008-019-0013-7

IMA Genome-F 11
Cited by: 11
Author(s): Brenda D. Wingfield, Arista Fourie, M.C. Simpson, Vuyiswa Bushula-Njah, Janneke Aylward, Irene Barnes, Martin Petrus Albertus Coetzee, L.L. Dreyer, Tuan A. Duong, David M. Geiser, Francois Roets, Emma Theodora Steenkamp, Magriet A. van der Nest, Carel van Heerden
Software Mentions: 1
Published: almost 6 years ago

10.1038/s41438-020-0301-9

Hybrid de novo genome assembly of red gromwell (Lithospermum erythrorhizon) reveals evolutionary insight into shikonin biosynthesis
Cited by: 28
Author(s): Robert Auber, Thiti Suttiyut, Rachel M. McCoy, Manoj Ghaste, Joseph W. Crook, Amanda L. Pendleton, Joshua R. Widhalm, Jennifer H. Wisecaver
Software Mentions: 1
Published: about 5 years ago

10.1038/s41438-021-00476-4

Reannotation of the cultivated strawberry genome and establishment of a strawberry genome database
Cited by: 36
Author(s): Tianjia Liu, Muzi Li, Zhongchi Liu, Xiaoyan Ai, Yongping Li
Software Mentions: 1
Published: over 4 years ago

10.1172/jci.insight.149033

Gut germinal center regeneration and enhanced antiviral immunity by mesenchymal stem/stromal cells in SIV infection
Cited by: 7
Author(s): Mariana G. Weber, C. J. Walters, Amir Kol, Clarissa Santos Rocha, Lauren A. Hirao, Abigail L Mende, Bipin Balan, Juan Arredondo, Sonny R. Elizaldi, Smita S. Iyer, Alice F. Tarantal, Satya Dandekar
Software Mentions: 1
Published: about 4 years ago

10.1038/s41438-021-00613-z

An ancient whole-genome duplication event and its contribution to flavor compounds in the tea plant (Camellia sinensis)
Cited by: 22
Author(s): Ya Wang, Fei Chen, Yuanchun Ma, Taikui Zhang, Pengchuan Sun, Mei-Fang Lan, Fang Li, Wanping Fang
Software Mentions: 1
Published: almost 4 years ago

10.1172/jci.insight.146572

The role of Sp140 revealed in IgE and mast cell responses in Collaborative Cross mice
Cited by: 8
Author(s): Kazunobu Matsushita, Xin Li, Yuki Nakamura, Danyue Dong, Kaori Mukai, Mindy Tsai, S Montgomery, Stephen J. Galli
Software Mentions: 1
Published: about 4 years ago

10.1186/s12864-019-6105-3

Comparative transcriptomics reveals PrrAB-mediated control of metabolic, respiration, energy-generating, and dormancy pathways in Mycobacterium smegmatis
Cited by: 13
Author(s): Jason D. Maarsingh, Shanshan Yang, Jin G. Park, Shelley E. Haydel
Software Mentions: 1
Published: over 5 years ago

10.1038/s41438-019-0142-6

Updated annotation of the wild strawberry Fragaria vesca V4 genome
Cited by: 85
Author(s): Yongping Li, Mengting Pi, Qi Gao, Zhongchi Liu, Chunying Kang
Software Mentions: 1
Published: about 6 years ago

10.1172/jci.insight.146314

TNF blockade uncouples toxicity from antitumor efficacy induced with CD40 chemoimmunotherapy
Cited by: 5
Author(s): Maureen Stone, Vivian Lee, Veronica M. Herrera, Kathleen Graham, Jae Woo Lee, Austin P. Huffman, Heather Coho, Evan Tooker, Max I. Myers, Michael A. Giannone, Yan Li, Thomas H. Buckingham, Kristen B. Long, Gregory L. Beatty
Software Mentions: 1
Published: about 4 years ago

10.1038/s41437-021-00434-9

On the origin of the widespread self-compatible allotetraploid Capsella bursa-pastoris (Brassicaceae)
Cited by: 7
Author(s): Jörg A. Bachmann, Andrew Tedder, Marco Fracassetti, Kim A. Steige, Clément Lafon‐Placette, Claudia Köhler, Tanja Slotte
Software Mentions: 1
Published: over 4 years ago

10.1186/s12864-017-4233-1

Artificial selection for odor-guided behavior in Drosophila reveals changes in food consumption
Cited by: 7
Author(s): Elizabeth Brown, Cody Patterson, Rayanne Pancoast, Stephanie M. Rollmann
Software Mentions: 1
Published: over 7 years ago

10.1172/jci.insight.148147

Type II alveolar epithelial cell–specific loss of RhoA exacerbates allergic airway inflammation through SLC26A4
Cited by: 4
Author(s): C. Danh, Yan Zhang, Wei Tu, Xinyue Hu, Xiaojun Xiao, Jingsi Chen, Haiping Hao, Zhigang Liu, Jing Li, Shau Ku Huang, Mei Wan, Peisong Gao
Software Mentions: 1
Published: about 4 years ago

10.1016/j.heliyon.2020.e05850

Atlas of ACE2 gene expression reveals novel insights into transmission of SARS-CoV-2
Cited by: 49
Author(s): Kun Sun, Liuqi Gu, Li Ma, Yugang Duan
Software Mentions: 1
Published: over 4 years ago

10.7554/eLife.36861

Characterisation of molecular motions in cryo-EM single-particle data by multi-body refinement in RELION
Cited by: 418
Author(s): Takanori Nakane, Dari Kimanius, Erik Lindahl, Sjors H.W. Scheres
Software Mentions: 1
Published: about 7 years ago

10.1186/s12864-018-5186-8

Transcriptome analysis of Xenopus orofacial tissues deficient in retinoic acid receptor function
Cited by: 6
Author(s): Stacey Wahl, Brent H. Wyatt, Stephen D. Turner, Amanda J.G. Dickinson
Software Mentions: 1
Published: over 6 years ago

10.1186/1477-7525-8-82

Validation study of a web-based assessment of functional recovery after radical prostatectomy
Cited by: 57
Author(s): Andrew J. Vickers, Caroline Savage, Marwan Shouery, James A. Eastham, Peter T. Scardino, Ethan Basch
Software Mentions: 1
Published: almost 15 years ago

10.1186/s12955-018-0858-2

Assessing the reliability of the short form 12 (SF-12) health survey in adults with mental health conditions: a report from the wellness incentive and navigation (WIN) study
Cited by: 138
Author(s): Tianyao Huo, Yi Guo, Elizabeth Shenkman, Keith E. Muller
Software Mentions: 1
Published: over 7 years ago

10.1200/PO.18.00297

Crizotinib and Surgery for Long-Term Disease Control in Children and Adolescents With ALK-Positive Inflammatory Myofibroblastic Tumors
Cited by: 21
Author(s): Toby N. Trahair, Andrew J. Gifford, Ashleigh M. Fordham, Chelsea Mayoh, Mitali Fadia, Robyn Lukeis, Andrew C. Wood, Santosh Valvi, Rodney A. Walker, James Blackburn, Erin E. Heyer, Tim R. Mercer, Draga Barbaric, Glenn M. Marshall, Karen L. MacKenzie
Software Mentions: 1
Published: over 5 years ago

10.1200/PO.18.00105

Personalized Clinical Decision Making Through Implementation of a Molecular Tumor Board: A German Single-Center Experience
Cited by: 30
Author(s): Rouven Hoefflin, Anna-Lena Geißler, Ralph Fritsch, Rainer Claus, Julius Wehrle, Patrick Bastos Metzger, Meike Reiser, Leman Mehmed, Lisa Fauth, Dieter Henrik Heiland, Thalia Erbes, Friedrich Stock, Ágnes Csanádi, Cornelius Miething, Britta Weddeling, Frank Meiß, Dagmar von Bubnoff, Christine Dierks, Isabell Ge, Volker Brass, Steffen Heeg, Henning Schäfer, Martin Boeker, Justyna Rawluk, Elke Botzenhart, Gian Kayser, Simone Hettmer, Hauke Busch, Christoph Peters, Martin Werner, Justus Duyster, Tilman Brummer, Melanie Boerries, Silke Laßmann, Nikolas von Bubnoff
Software Mentions: 1
Published: over 6 years ago

10.1016/j.jacc.2021.07.018

Innate Lymphoid Cells Promote Recovery of Ventricular Function After Myocardial Infarction
Cited by: 24
Author(s): Yu Lei, Stephen A. Newland, Tian Zhao, Yuning Lu, Andrew S. Sage, Yanqing Sun, Rouchelle Sriranjan, Marcella K.L., Brian Lam, Meritxell Nus, James Harrison, Simon Bond, Xiang Cheng, Jean‐Sébastien Silvestre, James H.F. Rudd, Joseph Cheriyan, Ziad Mallat
Software Mentions: 1
Published: almost 4 years ago

10.1186/s40104-018-0288-3

Identification and characterization of long non-coding RNAs in porcine granulosa cells exposed to 2,3,7,8-tetrachlorodibenzo-p-dioxin
Cited by: 16
Author(s): Monika Ruszkowska, Anna Nynca, Łukasz Paukszto, Agnieszka Sadowska, Sylwia Świgońska, Karina Orlowska, Tomasz Molcan, J Jastrzebski, Renata E. Ciereszko
Software Mentions: 1
Published: almost 7 years ago

10.1186/s40104-019-0331-z

Genome-wide profiling of RNA editing sites in sheep
Cited by: 10
Author(s): Yuanyuan Zhang, Deguo Han, Xianggui Dong, Jiankui Wang, Jianfei Chen, Yanzhu Yao, Hesham Y. A. Darwish, Wansheng Liu, Xuemei Deng
Software Mentions: 1
Published: over 6 years ago

10.1080/16549716.2019.1664103

The logic model for Uganda’s health sector preparedness for public health threats and emergencies
Cited by: 12
Author(s): Alex Riolexus Ario, Issa Makumbi, Lilian Bulage, Simon Kyazze, Joshua Kayiwa, Milton Wetaka, Juliet N. Kasule, Felix Ocom
Software Mentions: 1
Published: over 6 years ago

10.1186/s40104-020-00448-z

Effect of dietary supplementation with yeast cell wall extracts on performance and gut response in broiler chickens
Cited by: 19
Author(s): A. Pascual, Marianna Pauletto, Mery Giantin, Giuseppe Radaelli, Cristina Ballarin, Marco Birolo, C. Zomeño, Mauro Dacasto, Martina Bortoletti, Marta Vascellari, Gerolamo Xiccato, A. Trocino
Software Mentions: 1
Published: about 5 years ago

10.7554/eLife.37754

Unexpected similarities between C9ORF72 and sporadic forms of ALS/FTD suggest a common disease mechanism
Cited by: 43
Author(s): Erin G. Conlon, Delphine Fagegaltier, Phaedra Agius, Julia Davis-Porada, James A. Gregory, Isabel Hubbard, Kristy Kang, Duyang Kim, Hemali Phatnani, Justin Kwan, Dhruv Sareen, James R. Broach, Zachary Simmons, Ximena Arcila‐Londono, Edward B. Lee, Vivianna M. Van Deerlin, Neil A. Shneider, Ernest Fraenkel, Lyle W. Ostrow, Frank Baas, Noah Zaitlen, James Berry, Andrea Malaspina, Pietro Fratta, Gregory A. Cox, Leslie M. Thompson, Steve Finkbeiner, Efthimios Dardiotis, Timothy M. Miller, Siddharthan Chandran, Suvankar Pal, Eran Hornstein, Daniel MacGowan, Terry Heiman‐Patterson, Molly Gale Hammell, Nikolaos A. Patsopoulos, Josh Dubnau, Avindra Nath, Hemali Phatnani, Neil A. Shneider, James L. Manley
Software Mentions: 1
Published: about 7 years ago

10.1111/acel.13276

Prevalent intron retention fine‐tunes gene expression and contributes to cellular senescence
Cited by: 20
Author(s): Jun Yao, Dong Ding, Xueping Li, Ting Shen, Haihui Fu, Judy Zhong, Gang Wei, Ting Ni
Software Mentions: 1
Published: over 4 years ago

10.1002/glia.23516

The miRNA biogenesis pathway prevents inappropriate expression of injury response genes in developing and adult Schwann cells
Cited by: 8
Author(s): Deniz Gökbuget, Jorge A. Pereira, Lennart Opitz, Dominik Christe, Tobias Keßler, Antonin Marchais, Ueli Suter
Software Mentions: 1
Published: almost 7 years ago

10.1093/gigascience/giz019

De novo genome assembly of the white-spotted flower chafer (Protaetia brevitarsis)
Cited by: 25
Author(s): Kui Wang, Pengpeng Li, Yongyang Gao, Chunqin Liu, Qinglei Wang, Jing Yin, Jie Zhang, Geng Li, Changlong Shu
Software Mentions: 1
Published: over 6 years ago

10.1038/srep22177

Evolution of the assassin’s arms: insights from a phylogeny of combined transcriptomic and ribosomal DNA data (Heteroptera: Reduvioidea)
Cited by: 33
Author(s): Junxia Zhang, Eric R. L. Gordon, Michael Forthman, Wei Song Hwang, Kimberly K. O. Walden, Daniel R. Swanson, Kevin P. Johnson, Rudolf Meier, Christiane Weirauch
Software Mentions: 1
Published: over 9 years ago

10.1093/gigascience/giy092

Hot-starting software containers for STAR aligner
Cited by: 8
Author(s): Pai Zhang, Ling‐Hong Hung, Wes Lloyd, Ka Yee Yeung
Software Mentions: 1
Published: almost 7 years ago

10.1186/s12864-021-07857-y

Genomics and transcriptomics of epizoic Seisonidea (Rotifera, syn. Syndermata) reveal strain formation and gradual gene loss with growing ties to the host
Cited by: 5
Author(s): Katharina Mauer, Hanno Schmidt, Matthias Dittrich, Andreas C. Fröbius, Sören Lukas Hellmann, Hans Zischler, Thomas Hankeln, Holger Herlyn
Software Mentions: 1
Published: almost 4 years ago

10.1038/srep26200

Possible mechanisms of host resistance to Haemonchus contortus infection in sheep breeds native to the Canary Islands
Cited by: 57
Author(s): Zhengyu Guo, J. González, Julia N. Hernández, Tom N. McNeilly, Yolanda Corripio-Miyar, David Frew, Tyler Morrison, Peng Yu, Robert W. Li
Software Mentions: 1
Published: about 9 years ago

10.3390/genes12060883

The Combined Human Genotype of Truncating TTN and RBM20 Mutations Is Associated with Severe and Early Onset of Dilated Cardiomyopathy
Cited by: 11
Author(s): Anna Gärtner, Julia Bloebaum, Hendrik Milting, Bärbel Klauke, Katharina Sielemann, Astrid Kassner, Henrik Fox, Michiel Morshuis, Jens Tiesmeier, Uwe Schulz, Ralph Knoell, Jan Gummert, Hendrik Milting
Software Mentions: 1
Published: about 4 years ago

10.1038/srep30311

Transcriptome sequencing wide functional analysis of human mesenchymal stem cells in response to TLR4 ligand
Cited by: 26
Author(s): Sun Hwa Kim, Amitabh Das, Jin Choul Chai, Bert Binas, Mi Ran Choi, Kyoung Sun Park, Young Seek Lee, Kyoung Hwa Jung, Young Gyu Chai
Software Mentions: 1
Published: about 9 years ago

10.1186/1471-2164-14-502

Transposon fingerprinting using low coverage whole genome shotgun sequencing in Cacao (Theobroma cacao L.) and related species
Cited by: 17
Author(s): Sæmundur Sveinsson, Navdeep Gill, Nolan C. Kane, Quentin Cronk
Software Mentions: 1
Published: over 12 years ago

10.1038/srep33209

STAR: a simple TAL effector assembly reaction using isothermal assembly
Cited by: 13
Author(s): Sabine Gogolok, Claudia Garcia-Diaz, Steven M. Pollard
Software Mentions: 1
Published: almost 9 years ago

10.3390/genes12060859

A Global Landscape of Miniature Inverted-Repeat Transposable Elements in the Carrot Genome
Cited by: 2
Author(s): Alicja Macko-Podgórni, Gabriela Machaj, Dariusz Grzebelus
Software Mentions: 1
Published: about 4 years ago

10.1111/acel.12957

Transcription factor networks in aged naïve CD4 T cells bias lineage differentiation
Cited by: 32
Author(s): Bin Hu, Guangjin Li, Zhongde Ye, Claire E. Gustafson, Lu Tian, Cornelia M. Weyand, Jörg J. Goronzy
Software Mentions: 1
Published: about 6 years ago

10.1038/srep34863

Systems-level analysis reveals selective regulation of Aqp2 gene expression by vasopressin
Cited by: 35
Author(s): Pablo Sandoval, J’Neka S. Claxton, Jae Woo Lee, Fahad Saeed, Jason D. Hoffert, Mark A. Knepper
Software Mentions: 1
Published: almost 9 years ago

10.1038/srep35228

Interactome-transcriptome analysis discovers signatures complementary to GWAS Loci of Type 2 Diabetes
Cited by: 17
Author(s): Jing‐Woei Li, Heung‐Man Lee, Ying Wang, Amy Hin-Yan Tong, Kevin Y. Yip, Stephen Kwok‐Wing Tsui, Si Lok, Risa Ozaki, Andrea O. Y. Luk, Alice Pik‐Shan Kong, Wing–Yee So, C. Ronald, Juliana C.N. Chan, Ting-Fung Chan
Software Mentions: 1
Published: almost 9 years ago

10.3390/genes12050771

Genome Expression Dynamics Reveal the Parasitism Regulatory Landscape of the Root-Knot Nematode Meloidogyne incognita and a Promoter Motif Associated with Effector Genes
Cited by: 23
Author(s): Martine Da Rocha, Caroline Bournaud, Julie Dazenière, Peter Thorpe, Marc Bailly‐Bechet, Clément Pellegrin, Arthur Péré, Priscila Grynberg, Laetitia Perfus‐Barbeoch, Sebastian Eves‐van den Akker, Étienne Danchin
Software Mentions: 1
Published: about 4 years ago

10.3390/genes12020166

Genes and SNPs Involved with Scrotal and Umbilical Hernia in Pigs
Cited by: 5
Author(s): Ariene Fernanda Grando Rodrigues, A. M. G. Ibelli, J. de O. Peixoto, Maurício Egídio Cantão, Hellenn Cardoso Oliveira, Igor Ricardo Savoldi, Mayla Regina Souza, M. A. Z. Morés, Luis Carreño, Mônica Corrêa Ledur
Software Mentions: 1
Published: over 4 years ago

10.3390/genes12010053

Mapping the Transcriptional and Fitness Landscapes of a Pathogenic E. coli Strain: The Effects of Organic Acid Stress under Aerobic and Anaerobic Conditions
Cited by: 4
Author(s): Francesca Bushell, John Herbert, Thippeswamy H. Sannasiddappa, Daniel E. Warren, A. Keith Turner, Francesco Falciani, Peter A. Lund
Software Mentions: 1
Published: over 4 years ago

10.1038/srep37235

Nitrogen-induced metabolic changes and molecular determinants of carbon allocation in Dunaliella tertiolecta
Cited by: 49
Author(s): Kenneth Wei Min Tan, Huixin Lin, Hui Shen, Yuan Kun Lee
Software Mentions: 1
Published: over 8 years ago

10.1186/s12864-021-07613-2

Resilience, plasticity and robustness in gene expression during aging in the brain of outbred deer mice
Cited by: 2
Author(s): Elham Soltanmohammadi, Youwen Zhang, Ioulia Chatzistamou, Hippokratis Kiaris
Software Mentions: 1
Published: over 4 years ago

10.1038/srep37412

Gene regulatory networks in neural cell fate acquisition from genome-wide chromatin association of Geminin and Zic1
Cited by: 20
Author(s): Savita Sankar, Dhananjay Yellajoshyula, Bo Zhang, Bryan W. Teets, Nicole B. Rockweiler, Kristen L. Kroll
Software Mentions: 1
Published: over 8 years ago

10.3390/genes11090997

Exploring the Regulatory Potential of Long Non-Coding RNA in Feed Efficiency of Indicine Cattle
Cited by: 12
Author(s): Pâmela Almeida Alexandre, Antônio Reverter, Roberta B. Berezin, Laércio R. Porto-Neto, Gabriela de Cássia Ribeiro, Miguel Henrique de Almeida Santana, José Bento Sterman Ferraz, Heidge Fukumasu
Software Mentions: 1
Published: almost 5 years ago

10.1038/srep38624

Genome maintenance and bioenergetics of the long-lived hypoxia-tolerant and cancer-resistant blind mole rat, Spalax: a cross-species analysis of brain transcriptome
Cited by: 25
Author(s): Assaf Malik, Vered Domankevich, Lijuan Han, Xiaodong Fang, Abraham B. Korol, Aaron Avivi, Imad Shams
Software Mentions: 1
Published: over 8 years ago

10.1038/srep39094

Targeted RNA-Seq profiling of splicing pattern in the DMD gene: exons are mostly constitutively spliced in human skeletal muscle
Cited by: 21
Author(s): Anne-Laure Bougé, Eva M. Murauer, Emmanuelle Beyne, Julie Miro, Jessica Varilh, Magali Taulan, M. Kœnig, Mireille Claustres, Sylvie Tuffery‐Giraud
Software Mentions: 1
Published: over 8 years ago

10.1038/srep40214

Aminophylline suppresses stress-induced visceral hypersensitivity and defecation in irritable bowel syndrome
Cited by: 16
Author(s): Teita Asano, Ken Ichiro Tanaka, Arisa Tada, Hikaru Shimamura, Rikako Tanaka, Hiroki Maruoka, Mitsuko Takenaga, Tohru Mizushima
Software Mentions: 1
Published: over 8 years ago

10.1002/cjp2.158

NTRK fusions in osteosarcoma are rare and non‐functional events
Cited by: 15
Author(s): Baptiste Ameline, Karim H. Saba, Michal Kováč, Linda Magnusson, Olaf Witt, Stefan Bielack, Michaela Nathrath, Karolin Hansén Nord, Daniel Baumhoer
Software Mentions: 1
Published: over 5 years ago

10.3390/genes11070805

Shedding the Light on Litopenaeus vannamei Differential Muscle and Hepatopancreas Immune Responses in White Spot Syndrome Virus (WSSV) Exposure
Cited by: 12
Author(s): Camilla A. Santos, Sónia C. S. Andrade, Jorge M.O. Fernandes, Patrícia D. Freitas
Software Mentions: 1
Published: about 5 years ago

10.3390/genes11070820

RNA-Seq Analysis Reveals Localization-Associated Alternative Splicing across 13 Cell Lines
Cited by: 10
Author(s): Chao Zeng, Michiaki Hamada
Software Mentions: 1
Published: about 5 years ago

10.3390/genes11040380

Time Series RNA-seq in Pigeonpea Revealed the Core Genes in Metabolic Pathways under Aluminum Stress
Cited by: 8
Author(s): Zhaoxu Gao, Biying Dong, Hongyan Cao, Hang He, Qing Yang, Dong Meng, Yujie Fu
Software Mentions: 1
Published: over 5 years ago

10.1186/s12864-021-07748-2

Transcriptomic analysis of caecal tissue in inbred chicken lines that exhibit heritable differences in resistance to Campylobacter jejuni
Cited by: 6
Author(s): Kay Russell, Jacqueline Smith, Abi Bremner, Cosmin Chintoan-Uta, Lonneke Vervelde, Androniki Psifidi, Mark P. Stevens
Software Mentions: 1
Published: about 4 years ago

10.1186/s12864-021-07757-1

SnoRNA copy regulation affects family size, genomic location and family abundance levels
Cited by: 11
Author(s): David Μ. Bergeron, Cédric Laforest, Stacey Carpentier, Annabelle Calvé, Étienne Fafard-Couture, Gabrielle Deschamps-Francoeur, Michelle S. Scott
Software Mentions: 1
Published: about 4 years ago

10.1038/srep43745

Dietary restriction protects against diethylnitrosamine-induced hepatocellular tumorigenesis by restoring the disturbed gene expression profile
Cited by: 16
Author(s): Ting Duan, Wenjie Sun, Mohan Zhang, Juan Ge, Yansu He, Jun Zhang, Yifan Zheng, Wei Yang, Han‐Ming Shen, Jun Yang, Xinqiang Zhu, Peilin Yu
Software Mentions: 1
Published: over 8 years ago

10.1186/s12864-016-3098-z

Anchoring quartet-based phylogenetic distances and applications to species tree reconstruction
Cited by: 24
Author(s): Erfan Sayyari, Siavash Mirarab
Software Mentions: 1
Published: over 8 years ago

10.3390/genes11010009

Intraspecific Diversity in the Cold Stress Response of Transposable Elements in the Diatom Leptocylindrus aporus
Cited by: 14
Author(s): Aikaterini Pargana, Francesco Musacchia, Remo Sanges, Monia Teresa Russo, Maria Immacolata Ferrante, Chris Bowler, Adriana Zingone
Software Mentions: 1
Published: over 5 years ago

10.3390/genes10090671

Twenty-Five Years of Propagation in Suspension Cell Culture Results in Substantial Alterations of the Arabidopsis Thaliana Genome
Cited by: 14
Author(s): Boas Pucker, Christian Rückert, Ralf Stracke, Prisca Viehöver, Jörn Kalinowski, Bernd Weißhaar
Software Mentions: 1
Published: almost 6 years ago

10.3390/genes10010030

Genetic Dissection of Grain Nutritional Traits and Leaf Blight Resistance in Rice
Cited by: 18
Author(s): Gwen Iris Descalsota-Empleo, Abd Aziz Shamsudin Noraziyah, Ian Paul Navea, Chong-Tae Chung, Maria Stefanie Dwiyanti, Reuben Jacob Dicen Labios, Asmuni Mohd Ikmal, Venice Margarette Juanillas, Mary Ann Inabangan-Asilo, Amery Amparado, Russell Reinke, C. M. Vera Cruz, Joong Hyoun Chin, B. P. Mallikarjuna Swamy
Software Mentions: 1
Published: over 6 years ago

10.1038/srep46440

LPS independent activation of the pro-inflammatory receptor Trem1 by C/EBPε in granulocytes
Cited by: 8
Author(s): Hyung Chan Suh, Touati Benoukraf, S. Pavithra, Tong Yin, Qi Cao, Jonathan Said, Stephen Lee, Raymond Boon Tar Lim, Henry Yang, Jacqueline Salotti, Peter F. Johnson, Vikas Madan, H. Phillip Koeffler
Software Mentions: 1
Published: over 8 years ago

10.3390/genes10010050

Comparative Analysis of Developmental Transcriptome Maps of Arabidopsis thaliana and Solanum lycopersicum
Cited by: 18
Author(s): Aleksey A. Penin, Anna V. Klepikova, Artem S. Kasianov, Evgeny S. Gerasimov, Maria D. Logacheva
Software Mentions: 1
Published: over 6 years ago

10.7554/eLife.64094

Correction: Nitric oxide acts as a cotransmitter in a subset of dopaminergic neurons to diversify memory dynamics
Cited by: 0
Author(s): Yoshinori Asou, Robert P. Ray, Xi Long, Daniel Bushey, Karol Cichewicz, Teri-TB Ngo, Brandi Sharp, Christina Christoforou, Amy Hu, Andrew Lemire, Paul W Tillberg, Jay Hirsh, Ashok Litwin-Kumar, Gerald M. Rubin
Software Mentions: 1
Published: almost 5 years ago

10.1038/s41598-017-00575-0

Eμ and 3′RR IgH enhancers show hierarchic unilateral dependence in mature B-cells
Cited by: 17
Author(s): Alexis Saintamand, Christelle Vincent-Fabert, Marie Marquet, Nour Ghazzaui, Virginie Magnone, Eric Pinaud, Michel Cogné, Yves Denizot
Software Mentions: 1
Published: over 8 years ago

10.1186/1471-2164-15-1089

RETRACTED ARTICLE: Species-specific chemosensory gene expression in the olfactory organs of the malaria vector Anopheles gambiae
Cited by: 15
Author(s): Theresa K Hodges, Luciano V. Cosme, Giridhar Athrey, Sharmila Pathikonda, Willem Takken, Michel A. Slotman
Software Mentions: 1
Published: over 10 years ago

10.1038/s41598-017-00801-9

Frequent GU wobble pairings reduce translation efficiency in Plasmodium falciparum
Cited by: 13
Author(s): Sherwin Chan, Jun-Hong Ch’ng, Mats Wahlgren, Jessada Thutkawkorapin
Software Mentions: 1
Published: over 8 years ago

10.1038/s41598-017-01165-w

Low-cost, Low-bias and Low-input RNA-seq with High Experimental Verifiability based on Semiconductor Sequencing
Cited by: 7
Author(s): Zhibiao Mai, Chuan-Le Xiao, Jingjie Jin, Gong Zhang
Software Mentions: 1
Published: over 8 years ago

10.1038/s41598-017-01377-0

Transcriptomic response of durum wheat to nitrogen starvation
Cited by: 103
Author(s): Pasquale Luca Curci, Riccardo Aiese Cigliano, Diana L. Zuluaga, Michela Janni, Walter Sanseverino, Gabriella Sonnante
Software Mentions: 1
Published: over 8 years ago

10.3390/genes9120619

RNA Modification Level Estimation with pulseR
Cited by: 1
Author(s): Etienne Boileau, Christoph Dieterich
Software Mentions: 1
Published: over 6 years ago

10.1038/s41598-017-02520-7

Tropospheric Warming Over The Past Two Decades
Cited by: 20
Author(s): Benjamin D. Santer, Susan Solomon, F. J. Wentz, Qiang Fu, Stephen Po‐Chedley, C. A. Mears, Jeffrey F. Painter, C. Bonfils
Software Mentions: 1
Published: about 8 years ago

10.3390/genes8120401

Using Human iPSC-Derived Neurons to Uncover Activity-Dependent Non-Coding RNAs
Cited by: 3
Author(s): Mainá Bitar, Stefanie Kuiper, Elizabeth O’Brien, Guy Barry
Software Mentions: 1
Published: over 7 years ago

10.3390/genes8100283

Allelic Expression Imbalance in the Human Retinal Transcriptome and Potential Impact on Inherited Retinal Diseases
Cited by: 18
Author(s): Pablo Llavona, Michele Pinelli, Margherita Mutarelli, Veer Singh Marwah, Simone Schimpf-Linzenbold, Sebastian Thaler, Efdal Yoeruek, Jan M. Vetter, Susanne Kohl, Bernd Wissinger
Software Mentions: 1
Published: almost 8 years ago

10.3390/genes8090228

Isoform Sequencing Provides a More Comprehensive View of the Panax ginseng Transcriptome
Cited by: 39
Author(s): Ick-Hyun Jo, Jinsu Lee, Chi Eun Hong, Dong Jin Lee, Wonsil Bae, Sin‐Gi Park, Yong Ju Ahn, Young Chang Kim, Jang Uk Kim, Jung Woo Lee, Dong Yun Hyun, Sung‐Keun Rhee, Chang Pyo Hong, Kyong-Hwan Bang, Hojin Ryu
Software Mentions: 1
Published: almost 8 years ago

10.1534/g3.120.401269

Evidence for the Accumulation of Nonsynonymous Mutations and Favorable Pleiotropic Alleles During Wheat Breeding
Cited by: 6
Author(s): Elie Raherison, Mohammad Mahdi Majidi, Roos Goessen, Nia Hughes, Richard D. Cuthbert, Ron Knox, Lewis Lukens
Software Mentions: 1
Published: over 4 years ago

10.1534/g3.120.401371

The Genome Sequence of the Octocoral Paramuricea clavata – A Key Resource To Study the Impact of Climate Change in the Mediterranean
Cited by: 2
Author(s): J. B. Ledoux, Fernando Cruz, Jèssica Gómez-Garrido, Regina Antoni, Julie Blanc, Daniel Gómez‐Gras, Silvija Kipson, Paula López‐Sendino, Agostinho Antunes, Cristina Linares, Marta Gut, Tyler Alioto, Joaquim Garrabou
Software Mentions: 1
Published: almost 5 years ago

10.1534/g3.120.401151

Long-Read Genome Sequencing and Assembly of Leptopilina boulardi: A Specialist Drosophila Parasitoid
Cited by: 2
Author(s): Shagufta Khan, Divya Tej Sowpati, Arumugam Srinivasan, Mamilla Soujanya, Rakesh K. Mishra
Software Mentions: 1
Published: about 5 years ago

10.1534/g3.120.401117

Behavioral and Transcriptional Response to Selection for Olfactory Behavior inDrosophila
Cited by: 4
Author(s): Elizabeth Brown, John E. Layne, Alexandra R Elchert, Stephanie M. Rollmann
Software Mentions: 1
Published: over 5 years ago

10.1534/g3.119.400529

The de Novo Reference Genome and Transcriptome Assemblies of the Wild Tomato Species Solanum chilense Highlights Birth and Death of NLR Genes Between Tomato Species
Cited by: 32
Author(s): Remco Stam, Tetyana Nosenko, Anja C. Hörger, Wolfgang Stephan, Michael Seidel, José Manuel Monroy Kuhn, Georg Haberer, Aurélien Tellier
Software Mentions: 1
Published: over 5 years ago

10.1038/s41598-017-04333-0

Hypoxia is a Key Driver of Alternative Splicing in Human Breast Cancer Cells
Cited by: 52
Author(s): Jian Han, Jia Li, Jeongwon Ho, Grace Sushin Chia, Hiroyuki Kato, Sudhakar Jha, Henry Yang, Lorenz Poellinger, Kian Leong Lee
Software Mentions: 1
Published: about 8 years ago

10.1038/s41598-017-04356-7

Comprehensive investigation of temporal and autism-associated cell type composition-dependent and independent gene expression changes in human brains
Cited by: 28
Author(s): Qianhui Yu, Zhisong He
Software Mentions: 1
Published: about 8 years ago

10.1038/s41598-017-04654-0

Synergistic cellular effects including mitochondrial destabilization, autophagy and apoptosis following low-level exposure to a mixture of lipophilic persistent organic pollutants
Cited by: 18
Author(s): Nathan Earl Rainey, Ana Šarić, Alexandre Leberre, Etienne Dewailly, Christian Slomianny, Guillaume Vial, Harold I. Zeliger, Patrice X. Petit
Software Mentions: 1
Published: about 8 years ago

10.1534/g3.119.400643

Updated Genome Assembly and Annotation for Metrosideros polymorpha, an Emerging Model Tree Species of Ecological Divergence
Cited by: 3
Author(s): Ayako Izuno, Thomas Wicker, Masaomi Hatakeyama, Dario Copetti, Kentaro Shimizu
Software Mentions: 1
Published: over 5 years ago

10.1038/s41598-017-05720-3

Gene Network Dysregulation in Dorsolateral Prefrontal Cortex Neurons of Humans with Cocaine Use Disorder
Cited by: 36
Author(s): Efrain Ribeiro, Joseph R. Scarpa, Susanna P. Garamszegi, Andrew Kasarskis, Deborah C. Mash, Eric J. Nestler
Software Mentions: 1
Published: about 8 years ago

10.1534/g3.118.200919

The Chromosome-Level Genome Assembly of European Grayling Reveals Aspects of a Unique Genome Evolution Process Within Salmonids
Cited by: 19
Author(s): Tiina Sävilammi, Craig R. Primmer, Srinidhi Varadharajan, René Guyomard, Yann Guiguen, Simen Rød Sandve, Leif Asbjørn Vøllestad, Spiros Papakostas, Sigbjørn Lien
Software Mentions: 1
Published: about 6 years ago

10.1534/g3.118.200373

Event Analysis: Using Transcript Events To Improve Estimates of Abundance in RNA-seq Data
Cited by: 8
Author(s): Jeremy R.B. Newman, Patrick Concannon, Manuel Tardáguila, Ana Conesa, Lauren M. McIntyre
Software Mentions: 1
Published: almost 7 years ago

10.1534/g3.115.024471

Genetic Determinants of RNA Editing Levels of ADAR Targets in Drosophila melanogaster
Cited by: 12
Author(s): Yerbol Z. Kurmangaliyev, Sammi Ali, Sergey V. Nuzhdin
Software Mentions: 1
Published: over 9 years ago

10.3389/fvets.2020.558135

PDA Indolylmaleimides Induce Anti-Tumor Effects in Prostate Carcinoma Cell Lines Through Mitotic Death
Cited by: 3
Author(s): Jan Torben Schille, Ingo Nolte, Julia Beck, Daria Jilani, Catrin Roolf, Anahit Pews‐Davtyan, Arndt Rolfs, Larissa Henze, Matthias Beller, Bertram Brenig, Christian Junghanß, Ekkehard Schütz, Hugo Murua Escobar
Software Mentions: 1
Published: over 4 years ago

10.3389/fvets.2019.00051

Archive Mining Brings to Light a 25-Year Old Astrovirus Encephalitis Case in a Sheep
Cited by: 10
Author(s): Leonore Küchler, Michel C. Koch, Torsten Seuberlich, Céline Louise Boujon
Software Mentions: 1
Published: over 6 years ago

10.1038/s41598-017-06914-5

RNA sequencing reveals resistance of TLR4 ligand-activated microglial cells to inflammation mediated by the selective jumonji H3K27 demethylase inhibitor
Cited by: 28
Author(s): Amitabh Das, Sarder Arifuzzaman, Tae-Ho Yoon, Sun Hwa Kim, Jin Choul Chai, Young Seek Lee, Kyoung Hwa Jung, Young Gyu Chai
Software Mentions: 1
Published: about 8 years ago

10.1186/s12864-015-2349-8

FRAMA: from RNA-seq data to annotated mRNA assemblies
Cited by: 31
Author(s): Martin Bens, Arne Sahm, Marco Groth, Niels Jahn, Michaela Morhart, Susanne Holtze, Thomas B. Hildebrandt, Matthias Platzer, Karol Szafranski
Software Mentions: 1
Published: over 9 years ago

10.3389/fvets.2018.00089

Open Screw Placement in a 1.5 mm LCP Over a Fracture Gap Decreases Fatigue Life
Cited by: 0
Author(s): Sarah G. J. Alwen, Amy S. Kapatkin, Tanya C. Garcia, Joshua Milgram, Susan M. Stover
Software Mentions: 1
Published: about 7 years ago

10.3389/fonc.2020.00982

RNA-Seq Profiling of Serum Exosomal Circular RNAs Reveals Circ-PNN as a Potential Biomarker for Human Colorectal Cancer
Cited by: 67
Author(s): Yan Xie, Juan Li, Peilong Li, Ning Li, Ying Zhang, Helen Binang, Yinghui Zhao, Weili Duan, Yingjie Chen, Yunshan Wang, Du Li, Chuanxin Wang
Software Mentions: 1
Published: about 5 years ago

10.3389/fonc.2020.632187

A-to-I RNA Editing in Cancer: From Evaluating the Editing Level to Exploring the Editing Effects
Cited by: 14
Author(s): Heming Wang, Sinuo Chen, Jiayi Wei, Guangqi Song, Yicheng Zhao
Software Mentions: 1
Published: over 4 years ago

10.3389/fonc.2021.612354

Inhibition of HSP90 as a Strategy to Radiosensitize Glioblastoma: Targeting the DNA Damage Response and Beyond
Cited by: 10
Author(s): Michael Orth, Valérie Albrecht, Karin Seidl, Linda Kinzel, Kristian Unger, Julia Heß, Lisa Kreutzer, Na Sun, Benjamin Stegen, Alexander Nieto, Jessica Maas, Nicolas Winssinger, Anna A. Friedl, Axel Walch, Claus Belka, Horst Zitzelsberger, Maximilian Niyazi, Kirsten Lauber
Software Mentions: 1
Published: over 4 years ago

10.3389/fonc.2021.622244

Patient-Derived Nasopharyngeal Cancer Organoids for Disease Modeling and Radiation Dose Optimization
Cited by: 11
Author(s): Sasidharan Swarnalatha Lucky, Martin Law, Man Tin Lui, Jamie Mong, Jin Shi, Sidney Yu, Do Kun Yoon, Shih Kien Djeng, Ji‐Guang Wang, Chwee Ming Lim, Min Tan
Software Mentions: 1
Published: over 4 years ago

10.3389/fonc.2019.01120

Epstein-Barr Virus BART Long Non-coding RNAs Function as Epigenetic Modulators in Nasopharyngeal Carcinoma
Cited by: 43
Author(s): Rob J. A. Verhoeven, S. Y. Tong, Bobo Wing-Yee Mok, Jiayan Liu, Songtao He, Jingfeng Zong, Yixin Chen, Sai‐Wah Tsao, Maria Li Lung, Honglin Chen
Software Mentions: 1
Published: almost 6 years ago

Projects: cran: STAR

Science Score: 100/100

Bonuses:

Papers Mentioning STAR 5,759