cran: STAR | Projects | Ecosyste.ms: Papers

10.1186/s13073-020-00746-1

The rate and spectrum of mosaic mutations during embryogenesis revealed by RNA sequencing of 49 tissues
Cited by: 21
Author(s): Francesc Muyas, Luís Zapata, Roderic Guigó, Stephan Ossowski
Software Mentions: 1
Published: over 6 years ago

10.1186/s13059-021-02399-8

LIQA: long-read isoform quantification and analysis
Cited by: 37
Author(s): Yu Hu, Fang Li, Xuelian Chen, Jiang Zhong, Mingyao Li, Kai Wang
Software Mentions: 1
Published: over 5 years ago

10.1186/s13059-021-02350-x

Intergenic RNA mainly derives from nascent transcripts of known genes
Cited by: 13
Author(s): Antonella Federico, Julian A. Zagalak, Jan Attig, Jernej Ule, Nicholas M. Luscombe
Software Mentions: 1
Published: over 5 years ago

10.1186/s13059-020-02180-3

Massive gene presence-absence variation shapes an open pan-genome in the Mediterranean mussel
Cited by: 89
Author(s): Marco Gerdol, Rebeca Moreira, Fernando Cruz, Jèssica Gómez‐Garrido, Anna Vlasova, Umberto Rosani, Paola Venier, Miguel A. Naranjo‐Ortiz, Maria Murgarella, Samuele Greco, Pablo Balseiro, André Corvelo, Leonor Frías, Marta Gut, Toni Gabaldón, Alberto Pallavicini, Carlos Canchaya, Beatriz Novoa, Tyler Alioto, David Posada, António Figueras
Software Mentions: 1
Published: almost 6 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 13 years ago

10.1186/s13059-020-02094-0

Single-cell RNA-seq analysis reveals ploidy-dependent and cell-specific transcriptome changes in Arabidopsis female gametophytes
Cited by: 52
Author(s): Qingxin Song, Atsumi Ando, Ning Jiang, Yoko Ikeda, Z Jeffrey Chen
Software Mentions: 1
Published: about 6 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 7 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: over 5 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: over 5 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: over 5 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 5 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 5 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: about 6 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 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 6 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 6 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 6 years ago

10.5808/GI.2019.17.1.e3

Identification of ERBB Pathway-Activated Cells in Triple-Negative Breast Cancer
Cited by: 8
Author(s): Soo Young Cho
Software Mentions: 1
Published: over 7 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 6 years ago

10.5808/GI.2019.17.3.e32

Comparison of the MGISEQ-2000 and Illumina HiSeq 4000 sequencing platforms for RNA sequencing
Cited by: 29
Author(s): Sol A Jeon, Jong‐Lyul Park, Jong-Hwan Kim, Jeong Hwan Kim, Yong‐Sung Kim, Jin Cheon Kim, Seon‐Young Kim
Software Mentions: 1
Published: almost 7 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: about 7 years ago

10.5808/GI.2020.18.1.e10

Accelerating next generation sequencing data analysis: an evaluation of optimized best practices for Genome Analysis Toolkit algorithms
Cited by: 29
Author(s): Karl R. Franke, Erin L. Crowgey
Software Mentions: 1
Published: over 6 years ago

10.1016/j.gpb.2016.02.003

Profiling and Validation of the Circular RNA Repertoire in Adult Murine Hearts
Cited by: 74
Author(s): Tobias Jakobi, Lisa F. Czaja-Hasse, Richard Reinhardt, Christoph Dieterich
Software Mentions: 1
Published: about 10 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 6 years ago

10.1016/j.gpb.2020.10.005

Chinese Glioma Genome Atlas (CGGA): A Comprehensive Resource with Functional Genomic Data from Chinese Glioma Patients
Cited by: 384
Author(s): Zheng Zhao, Kenan Zhang, Qiangwei Wang, Guanzhang Li, Fan Zeng, Ying Zhang, Fan Wu, Rui‐Chao Chai, Zheng Wang, Chuanbao Zhang, Wei Zhang, Zhaoshi Bao, Tao Jiang
Software Mentions: 1
Published: over 5 years ago

10.1186/s13742-015-0105-2

Colib’read on galaxy: a tools suite dedicated to biological information extraction from raw NGS reads
Cited by: 2
Author(s): Yvan Le Bras, Olivier Collin, Cyril Monjeaud, Vincent Lacroix, Éric Rivals, Claire Lemaitre, Vincent Miele, Gustavo Sacomoto, Camille Marchet, Bastien Cazaux, Amal Zine El Aabidine, Leena Salmela, Susete Alves‐Carvalho, Alexan Andrieux, Raluca Uricaru, Pierre Peterlongo
Software Mentions: 1
Published: over 10 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 7 years ago

10.1093/gigascience/gix012

RED-ML: a novel, effective RNA editing detection method based on machine learning
Cited by: 27
Author(s): Heng Xiong, Dongbing Liu, Qiye Li, Mengyue Lei, Liqin Xu, Liang Wu, Zongji Wang, Shancheng Ren, Wangsheng Li, Min Xia, Lihua Lü, Haorong Lu, Yong Hou, Shida Zhu, Xin Liu, Ying Sun, Jian Wang, Huanming Yang, Kui Wu, Xun Xu, Leo J. Lee
Software Mentions: 1
Published: over 9 years ago

10.1093/gigascience/gix035

A high-coverage draft genome of the mycalesine butterfly Bicyclus anynana
Cited by: 45
Author(s): Reuben W. Nowell, Benjamin Elsworth, Vicencio Oostra, Bas J. Zwaan, Christopher W. Wheat, Marjo Saastamoinen, Ilik J. Saccheri, Arjen E Van’t Hof, Bethany R. Wasik, Heidi Connahs, Muhammad Aslam, Sujai Kumar, Richard Challis, Antónia Monteiro, Paul M. Brakefield, Mark Blaxter
Software Mentions: 1
Published: over 9 years ago

10.1093/gigascience/gix122

VaDiR: an integrated approach to Variant Detection in RNA
Cited by: 14
Author(s): Lisa Neums, Seiji Suenaga, Peter Beyerlein, Sara Anders, Devin C. Koestler, Andrea Mariani, Jeremy Chien
Software Mentions: 1
Published: almost 9 years ago

10.1093/gigascience/giy008

Draft genome assembly of the Bengalese finch, Lonchura striata domestica, a model for motor skill variability and learning
Cited by: 12
Author(s): Bradley M. Colquitt, David G. Mets, Michael S. Brainard
Software Mentions: 1
Published: over 8 years ago

10.1093/gigascience/giy010

The genome sequence and transcriptome of Potentilla micrantha and their comparison to Fragaria vesca (the woodland strawberry)
Cited by: 37
Author(s): Matteo Buti, Marco Moretto, Elena Barghini, Flavia Mascagni, Lucia Natali, Matteo Brilli, Alexandre Lomsadze, Paolo Sonego, L. Giongo, Michael Alonge, Riccardo Velasco, Claudio Varotto, Nada Šurbanovski, Mark Borodovsky, J. A. Ward, Kristof Engelen, Andrea Cavallini, Alessandro Cestaro, Daniel J. Sargent
Software Mentions: 1
Published: over 9 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 7 years ago

10.1093/gigascience/gix081

Transcriptional mapping of the primary somatosensory cortex upon sensory deprivation
Cited by: 8
Author(s): Koen Kole, Yutaro Komuro, Jan Provazník, Jelena Pistolic, Vladimı́r Beneš, Paul Tiesinga, Tansu Celikel
Software Mentions: 1
Published: about 9 years ago

10.3390/genes9120619

RNA Modification Level Estimation with pulseR
Cited by: 1
Author(s): Etienne Boileau, Christoph Dieterich
Software Mentions: 1
Published: almost 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 8 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 9 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: about 9 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: almost 6 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: about 6 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: over 6 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 6 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: almost 7 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: almost 7 years ago

10.1371/journal.ppat.1009908

Human parainfluenza virus type 1 regulates cholesterol biosynthesis and establishes quiescent infection in human airway cells
Cited by: 1
Author(s): Yoichi Kurebayashi, Shringkhala Bajimaya, Masahiro Watanabe, Nicholas Lim, Michael M. Lutz, Megan M Dunagan, Toru Takimoto
Software Mentions: 1
Published: about 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: over 5 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: over 7 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: about 8 years ago

10.3390/polym12020467

Methods for Determining the Thermal Transfer in Phase-Changing Materials (PCMs)
Cited by: 2
Author(s): Vasile Bendic, Dan Dobrotă, Ionel Simion, Emilia Bălan, Nicoleta-Elisabeta Pascu, Dana Iuliana Tilina
Software Mentions: 1
Published: over 6 years ago

10.3390/polym12051148

Epoxy-Anhydride Vitrimers from Aminoglycidyl Resins with High Glass Transition Temperature and Efficient Stress Relaxation
Cited by: 26
Author(s): Michael Giebler, Clemens Sperling, Simon Kaiser, Ivica Đuretek, Sandra Schlögl
Software Mentions: 1
Published: over 6 years ago

10.3390/polym12081642

Synthesis and Characterisation of Acrylic Resin-Al Powder Composites Suitable for Additive Manufacturing
Cited by: 4
Author(s): J. J. Relinque, Ismael Romero‐Ocaña, Francisco J. Navas‐Martos, Francisco Delgado, Manuel Domínguez, S. I. Molina
Software Mentions: 1
Published: about 6 years ago

10.3390/polym12092136

3D Printed Silicone Meniscus Implants: Influence of the 3D Printing Process on Properties of Silicone Implants
Cited by: 29
Author(s): Eric Luis, Houwen Matthew Pan, Anil K. Bastola, Ram Bajpai, Swee Leong Sing, Juha Song, Wai Yee Yeong
Software Mentions: 1
Published: about 6 years ago

10.3390/polym13152503

Kinetical Study, Thermo-Mechanical Characteristics and Recyclability of Epoxidized Camelina Oil Cured with Antagonist Structure (Aliphatic/Aromatic) or Functionality (Acid/Amine) Hardeners
Cited by: 10
Author(s): Chiara Di Mauro, Aratz Genua, Alice Mija
Software Mentions: 1
Published: about 5 years ago

10.1089/pop.2017.0109

Need for Comprehensive Health Care Quality Measures for Older Adults
Cited by: 16
Author(s): MacLeodStephanie, SchwebkeKay, HawkinsKevin, RuizJoann, HooEmma, S YehCharlotte
Software Mentions: 1
Published: about 8 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 10 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: over 5 years ago

10.1073/pnas.1721434116

Microglia are effector cells of CD47-SIRPα antiphagocytic axis disruption against glioblastoma
Cited by: 166
Author(s): Gregor Hütter, Johanna Theruvath, Claus Moritz Graef, Michael Zhang, Matthew K. Schoen, Eva Maria Manz, Mariko L. Bennett, Andrew Olson, Tej D. Azad, Rahul Sinha, Carmel T. Chan, Suzana Assad Kahn, Sharareh Gholamin, Christy Wilson, Gerald A. Grant, Joy Q. He, Irving L. Weissman, Siddhartha Mitra, Samuel Cheshier
Software Mentions: 1
Published: over 7 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 5 years ago

10.1073/pnas.1907031116

An influenza virus-triggered SUMO switch orchestrates co-opted endogenous retroviruses to stimulate host antiviral immunity
Cited by: 73
Author(s): Nora Schmidt, Patricia Domingues, Filip Gołębiowski, Corinna Patzina, Michael H. Tatham, Ronald T. Hay, Benjamin G. Hale
Software Mentions: 1
Published: about 7 years ago

10.1073/pnas.1908252116

Extracellular RNA in a single droplet of human serum reflects physiologic and disease states
Cited by: 43
Author(s): Zixu Zhou, Qiuyang Wu, Zhangming Yan, Haizi Zheng, Chien-Ju Chen, Yuan Liu, Zhijie Qi, Riccardo Calandrelli, Zhe Chen, Shu Chien, Hua Su, Sheng Zhong
Software Mentions: 1
Published: about 7 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: almost 10 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 7 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 6 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: over 8 years ago

10.3389/fmicb.2020.603509

Differential Expression of Viral Transcripts From Single-Cell RNA Sequencing of Moderate and Severe COVID-19 Patients and Its Implications for Case Severity
Cited by: 30
Author(s): Teng Liu, Peilin Jia, Bingliang Fang, Zhongming Zhao
Software Mentions: 1
Published: almost 6 years ago

10.3389/fmicb.2017.01424

Aspergillus niger Secretes Citrate to Increase Iron Bioavailability
Cited by: 27
Author(s): Dorett I Odoni, Merlijn P van Gaal, Tom Schonewille, Juan Antonio Tamayo-Ramos, Vítor A. P. Martins dos Santos, María Suárez-Diez, Peter J. Schaap
Software Mentions: 1
Published: about 9 years ago

10.1073/pnas.2026605118

An introgressed gene causes meiotic drive inNeurospora sitophila
Cited by: 22
Author(s): Jesper Svedberg, Aaron A. Vogan, Nicholas A. Rhoades, Dilini Sarmarajeewa, David J. Jacobson, Martin Lascoux, Thomas M. Hammond, Hanna Johannesson
Software Mentions: 1
Published: over 5 years ago

10.3389/fmicb.2018.00826

The Algicidal Fungus Trametes versicolor F21a Eliminating Blue Algae via Genes Encoding Degradation Enzymes and Metabolic Pathways Revealed by Transcriptomic Analysis
Cited by: 14
Author(s): Wei Dai, Xiaolin Chen, Xuewen Wang, Zimu Xu, Xueyan Gao, Chaosheng Jiang, Ruining Deng, Guomin Han
Software Mentions: 1
Published: over 8 years ago

10.1073/pnas.2100694118

Longer or shorter spines: Reciprocal trait evolution in stickleback via triallelic regulatory changes in Stanniocalcin2a
Cited by: 14
Author(s): Garrett A. Roberts Kingman, David Lee, Felicity C. Jones, Danielle Desmet, Michael A. Bell, David M. Kingsley
Software Mentions: 1
Published: about 5 years ago

10.3389/fmicb.2021.613697

Evaluation of Host Immune Response in Diabetic Foot Infection Tissues Using an RNA Sequencing-Based Approach
Cited by: 3
Author(s): Fatemah Sadeghpour Heravi, Martha Zakrzewski, Hamidreza Aboulkheyr Estarabadi, Karen Vickery, Honghua Hu
Software Mentions: 1
Published: over 5 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: almost 12 years ago

10.1002/pros.23823

TMPRSS2‐ERG fusions linked to prostate cancer racial health disparities: A focus on Africa
Cited by: 23
Author(s): James Blackburn, Stefano Vecchiarelli, Erin E. Heyer, Sean Patrick, Ruth J. Lyons, Weerachai Jaratlerdsiri, Smit van Zyl, M. S. Bornman, Tim R. Mercer, Vanessa M. Hayes
Software Mentions: 1
Published: over 7 years ago

10.1007/s13238-016-0254-9

The key role of CYC2 during meiosis in Tetrahymena thermophila
Cited by: 11
Author(s): Qianlan Xu, Ruo–Yu Wang, Amr R. Ghanam, Guangwu Yan, Wei Miao, Xiaoyuan Song
Software Mentions: 1
Published: over 10 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 10 years ago

10.1186/s12864-016-3414-7

Genome-wide standing variation facilitates long-term response to bidirectional selection for antibody response in chickens
Cited by: 20
Author(s): Mette Lillie, Zheya Sheng, Christa F. Honaker, Ben Dorshorst, C. M. Ashwell, P. B. Siegel, Örjan Carlborg
Software Mentions: 1
Published: over 9 years ago

10.1186/s12864-020-6643-8

A large-scale comparative study of isoform expressions measured on four platforms
Cited by: 6
Author(s): Wei Zhang, Raphael Petegrosso, Ju Young Chang, Jiao Sun, Jeongsik Yong, Jeremy Chien, Rui Kuang
Software Mentions: 1
Published: over 6 years ago

10.1007/s11136-018-2039-5

Quality of life and service satisfaction in outpatients with severe or non-severe mental illness diagnoses
Cited by: 14
Author(s): Marian Ådnanes, Jorid Kalseth, Solveig Osborg Ose, Torleif Ruud, Jorun Rugkåsa, Stephen Puntis
Software Mentions: 1
Published: almost 8 years ago

10.7554/eLife.60259

Caenorhabditis elegans methionine/S-adenosylmethionine cycle activity is sensed and adjusted by a nuclear hormone receptor
Cited by: 33
Author(s): Gabrielle E. Giese, Melissa Walker, Olga Ponomarova, Hefei Zhang, Xuhang Li, Gregory Minevich, Albertha J.M. Walhout
Software Mentions: 1
Published: almost 6 years ago

10.1080/15476286.2020.1827619

SID-2 negatively regulates development likely independent of nutritional dsRNA uptake
Cited by: 2
Author(s): Fabian Braukmann, David Jordan, Benjamin H. Jenkins, Albert Koulman, Eric A. Miska
Software Mentions: 1
Published: almost 6 years ago

10.3389/fmicb.2019.02168

Global Analysis of Cell Wall Genes Revealed Putative Virulence Factors in the Dermatophyte Trichophyton rubrum
Cited by: 15
Author(s): Maíra Pompeu Martins, Larissa Gomes Silva, Antônio Rossi, Pablo Rodrigo Sanches, Larissa Daniela Ribeiro de Souza, Nilce Maria Martinez-Rossi
Software Mentions: 1
Published: almost 7 years ago

10.3389/fmicb.2021.712564

Overexpression of mqsR in Xylella fastidiosa Leads to a Priming Effect of Cells to Copper Stress Tolerance
Cited by: 3
Author(s): Isis Gabriela Barbosa Carvalho, Marcus V. Merfa, Natália Sousa Teixeira-Silva, Paula Maria Moreira Martins, Marco Aurélio Takita, Alessandra Alves de Souza
Software Mentions: 1
Published: almost 5 years ago

10.3389/fmicb.2020.611080

Cold Adaptation Mechanisms of a Snow Alga Chlamydomonas nivalis During Temperature Fluctuations
Cited by: 7
Author(s): Zhao Peng, Gai Liu, Kaiyao Huang
Software Mentions: 1
Published: over 5 years ago

10.1098/rsos.200625

Transcriptome analysis identified long non-coding RNAs involved in the adaption of yak to high-altitude environments
Cited by: 6
Author(s): Jinwei Xin, Zhixin Chai, Chengfu Zhang, Yumei Yang, Qiang Zhang, Yong Zhu, Hanwen Cao, Cidan Yang Ji, Jincheng Zhong, Qiumei Ji
Software Mentions: 1
Published: about 6 years ago

10.1186/s12863-019-0765-5

Meta-analysis of GWA studies provides new insights on the genetic architecture of skin pigmentation in recently admixed populations
Cited by: 27
Author(s): Frida Lona-Durazo, Natalia Hernandez‐Pacheco, Shaohua Fan, Tongwu Zhang, Jiyeon Choi, Michael A. Kovacs, Stacie K. Loftus, Phuong Le, Melissa Edwards, César Fortes-Lima, Celeste Eng, Scott Huntsman, Donglei Hu, Enrique Javier Gómez-Cabezas, Lilia C. Marín-Padrón, Jonas Grauholm, Ole Mors, Esteban G. Burchard, Heather L. Norton, William J. Pavan, Kevin M. Brown, Sarah A. Tishkoff, María Pino-Yanes, Sandra Beleza, Beatriz Marcheco-Teruel, Esteban J. Parra
Software Mentions: 1
Published: about 7 years ago

10.1186/1471-2296-10-20

Stemming the Tide of Antibiotic Resistance (STAR): A protocol for a trial of a complex intervention addressing the 'why' and 'how' of appropriate antibiotic prescribing in general practice
Cited by: 27
Author(s): Sharon Anne Simpson, Christopher Collett Butler, Kerenza Hood, David Cohen, Frank David John Dunstan, Meirion Rhys Evans, Stephen Rollnick, Linda Moore, Monika Hare, Marie Bekkers, J. D. Evans
Software Mentions: 1
Published: over 17 years ago

10.1186/s12958-021-00715-2

Whole blood RNA sequencing reveals a differential transcriptomic profile associated with cervical insufficiency: a pilot study
Cited by: 4
Author(s): Ga Hyun Son, So Yeon Choi, Yeon-Ji Ju, Keun-Young Lee, Jae Jun Lee, Ji-Eun Song, Youngmi Kim, Sung Taek Park
Software Mentions: 1
Published: over 5 years ago

10.3389/fmicb.2019.01650

The Tsetse Fly Displays an Attenuated Immune Response to Its Secondary Symbiont, Sodalis glossinidius
Cited by: 15
Author(s): Katrien Trappeniers, Irina Matetovici, Jan Van Den Abbeele, Linda De Vooght
Software Mentions: 1
Published: about 7 years ago

10.3389/fmicb.2020.568891

Editorial: MALDI-TOF MS Application for Susceptibility Testing of Microorganisms
Cited by: 4
Author(s): Karsten Becker, Sören Schubert
Software Mentions: 1
Published: almost 6 years ago

10.3389/fmicb.2019.02305

Microbial Metabolic Capacity for Intestinal Folate Production and Modulation of Host Folate Receptors
Cited by: 81
Author(s): Melinda A. Engevik, Christina N. Morra, Daniel Röth, Kristen A. Engevik, Jennifer K. Spinler, Sridevi Devaraj, Sue E. Crawford, Mary K. Estes, Markus Kalkum, James Versalovic
Software Mentions: 1
Published: almost 7 years ago

10.3389/fnint.2021.652218

Editorial: Sensory Processing Across the Lifespan: A 25-Year Initiative to Understand Neurophysiology, Behaviors, and Treatment Effectiveness for Sensory Processing
Cited by: 4
Author(s): Lucy Miller, Elysa J. Marco, Robyn Chu, Stephen Camarata
Software Mentions: 1
Published: over 5 years ago

10.3389/fimmu.2021.638469

Subversion of Host Innate Immunity by Rickettsia australis via a Modified Autophagic Response in Macrophages
Cited by: 9
Author(s): Jeremy Bechelli, Claire Smalley Rumfield, David H. Walker, Steven G. Widen, Kamil Khanipov, Rong Fang
Software Mentions: 1
Published: over 5 years ago

10.3389/fimmu.2021.723196

HCV Cure With Direct-Acting Antivirals Improves Liver and Immunological Markers in HIV/HCV-Coinfected Patients
Cited by: 11
Author(s): Óscar Brochado-Kith, Isidoro Martı́nez, Juan Berenguer, Juan González‐García, Sergio Salgüero, Daniel Sepúlveda‐Crespo, Cristina Díez, Víctor Hontañón, Luis Ibáñez‐Samaniego, Leire Pérez‐Latorre, Amanda Fernández‐Rodríguez, María Ángeles Jiménez-Sousa, Salvador Resino
Software Mentions: 1
Published: about 5 years ago

10.3389/fimmu.2019.02889

HSV-2 Cellular Programming Enables Productive HIV Infection in Dendritic Cells
Cited by: 7
Author(s): Elisa Crisci, Cecilia Svanberg, Rada Ellegård, Mohammad Khalid, Julia Hellblom, Kazuki Okuyama, Paramita Bhattacharya, Sofia Nyström, Esaki Muthu Shankar, Kristina Eriksson, Marie Larsson
Software Mentions: 1
Published: almost 7 years ago

10.3389/fimmu.2019.03033

Single Eye mRNA-Seq Reveals Normalisation of the Retinal Microglial Transcriptome Following Acute Inflammation
Cited by: 14
Author(s): Oliver H. Bell, David A Copland, Amy Ward, Lindsay B. Nicholson, Clemens Lange, Colin J Chu, Andrew D. Dick
Software Mentions: 1
Published: over 6 years ago

10.3389/fimmu.2021.629391

Small Intestinal Tuft Cell Activity Associates With Energy Metabolism in Diet-Induced Obesity
Cited by: 6
Author(s): Pankaj Arora, Daniel S. Andersen, Janne Marie Moll, Niels Banhos Danneskiold‐Samsøe, Liqin Xu, Biaofeng Zhou, Georgios Kladis, Philipp Rausch, Christopher T. Workman, Karsten Kristiansen, Susanne Brix
Software Mentions: 1
Published: over 5 years ago

10.1186/1471-2296-11-34

Enhancing the quality of antibiotic prescribing in Primary Care: Qualitative evaluation of a blended learning intervention
Cited by: 42
Author(s): Marie-Jet Bekkers, Sharon Anne Simpson, Frank David John Dunstan, Kerenza Hood, Monika Hare, J. D. Evans, Christopher Collett Butler
Software Mentions: 1
Published: over 16 years ago

10.1186/s12931-018-0778-z

Altered lung biology of healthy never smokers following acute inhalation of E-cigarettes
Cited by: 89
Author(s): Michelle R. Staudt, Jacqueline Salit, Robert J. Kaner, Charleen Hollmann, Ronald G. Crystal
Software Mentions: 1
Published: over 8 years ago

10.18632/aging.102024

Mitofusin 2 plays a role in oocyte and follicle development, and is required to maintain ovarian follicular reserve during reproductive aging
Cited by: 49
Author(s): Man Zhang, Muhammed Burak Bener, Zongliang Jiang, Tianren Wang, Ecem Esencan, Richard T. Scott, Tamás L. Horváth, Emre Seli
Software Mentions: 1
Published: over 7 years ago

10.3389/fimmu.2019.00455

The Concerted Action of E2-2 and HEB Is Critical for Early Lymphoid Specification
Cited by: 13
Author(s): Thibault Bouderlique, Lucía Peña-Pérez, Shabnam Kharazi, Miriam Hils, Xiaoze Li, Aleksandra Krstić, Annick De Paepe, Christian Schachtrup, Charlotte Gustafsson, Dan Holmberg, Christian Schachtrup, Robert Månsson
Software Mentions: 1
Published: over 7 years ago

10.3389/fimmu.2018.00899

Complement-Opsonized HIV-1 Alters Cross Talk Between Dendritic Cells and Natural Killer (NK) Cells to Inhibit NK Killing and to Upregulate PD-1, CXCR3, and CCR4 on T Cells
Cited by: 12
Author(s): Rada Ellegård, Mohammad Khalid, Cecilia Svanberg, Hanna Holgersson, Ylva Thoren, Mirja Karolina Wittgren, Jorma Hinkula, Sofia Nyström, Esaki M. Shankar, Marie Larsson
Software Mentions: 1
Published: over 8 years ago

Projects: cran: STAR

Science Score: 100/100

Bonuses:

Papers Mentioning STAR 5,759