10.3390/cells10092313

The Endothelial Landscape and Its Role in Von Hippel–Lindau Disease
Cited by: 5
Author(s): Isabel de Rojas-P, Virginia Albiñana, Lyudmyla Taranets, Lucía Recio-Poveda, Ángel M. Cuesta, Nikita Popov, Thales Kronenberger, Luisa María Botella
Software Mentions: 1
Published: about 5 years ago

10.15252/embr.201949585

Enzymatic degradation of <scp>RNA</scp> causes widespread protein aggregation in cell and tissue lysates
Cited by: 23
Author(s): Johan Aarum, Claudia Cabrera, T. Alwyn Jones, Shiron Rajendran, Rocco Adiutori, Gavin Giovannoni, Michael R. Barnes, Andrea Malaspina, Denise Sheer
Software Mentions: 1
Published: about 6 years ago

10.1002/ece3.2547

Diversification in wild populations of the model organism <i>Anolis carolinensis</i> : A genome‐wide phylogeographic investigation
Cited by: 20
Author(s): Joseph D. Manthey, Marc Tollis, Alan R. Lemmon, Emily Moriarty Lemmon, Stéphane Boissinot
Software Mentions: 1
Published: almost 10 years ago

10.1002/ece3.2798

Quantifying the responses of biological indices to rare macroinvertebrate taxa exclusion: Does excluding more rare taxa cause more error?
Cited by: 3
Author(s): Zhengda Yu, Hui Wang, Meng Jin, Ming Miao, Qiang Kong, Renqing Wang, Jian Liu
Software Mentions: 1
Published: over 9 years ago

10.1002/ece3.526

Species-time-area and phylogenetic-time-area relationships in tropical tree communities
Cited by: 9
Author(s): Nathan G. Swenson, Xiangcheng Mi, W. John Kress, Jill Thompson, María Uriarte, Jess K. Zimmerman
Software Mentions: 1
Published: over 13 years ago

10.1038/s41426-018-0039-8

<i>Bordetella pertussis</i> pertactin knock-out strains reveal immunomodulatory properties of this virulence factor
Cited by: 22
Author(s): Elise S. Hovingh, Rob Mariman, Luis Solans, Daniëlle Hijdra, Hendrik Jan Hamstra, Ilse Jongerius, Marjolein van Gent, Frits R. Mooi, Camille Locht, Elena Pinelli
Software Mentions: 1
Published: over 8 years ago

10.1080/22221751.2021.1943537

Naturally circulating pertactin-deficient <i>Bordetella pertussis</i> strains induce distinct gene expression and inflammatory signatures in human dendritic cells
Cited by: 5
Author(s): Michiel Kroes, Alberto Miranda Bedate, Elise S. Hovingh, Ronald Jacobi, Corrie S. Schot, Elder Pupo, René H. M. Raeven, Arno A. J. van der Ark, Jos P. M. van Putten, Jelle de Wit, Rob Mariman, Elena Pinelli
Software Mentions: 1
Published: over 5 years ago

10.1530/ERC-17-0131

Loss-of-function mutations in the CABLES1 gene are a novel cause of Cushing’s disease
Cited by: 61
Author(s): Laura C. Hernández-Ramírez, Ryhem Gam, Nuria Valdés, Maya Lodish, Nathan Pankratz, Aurélio Balsalobre, Yves Gauthier, Fábio R. Faucz, Giampaolo Trivellin, Prashant Chittiboina, John Lane, Denise M. Kay, Aggeliki Dimopoulos, Stéphan Gaillard, Mario Néou, Jérôme Bertherat, Guillaume Assié, Villa Clara, James L. Mills, Jacques Drouin, Constantine A. Stratakis
Software Mentions: 1
Published: about 9 years ago

10.1210/endocr/bqaa162

Differential Effects of Voclosporin and Tacrolimus on Insulin Secretion From Human Islets
Cited by: 15
Author(s): Jelena Kolic, Leanne Beet, Peter Overby, Haoning Howard Cen, Evgeniy Panzhinskiy, Daren Ure, Jennifer Cross, Robert B. Huizinga, James D. Johnson
Software Mentions: 1
Published: about 6 years ago

10.1186/s12302-015-0061-6

Rainfed winter wheat cultivation in the North German Plain will be water limited under climate change until 2070
Cited by: 13
Author(s): Nikolai Svoboda, Maximilian Strer, Johannes Hufnagel
Software Mentions: 1
Published: almost 11 years ago

10.3390/epigenomes3010007

An Orphan CpG Island Drives Expression of a let-7 miRNA Precursor with an Important Role in Mouse Development
Cited by: 2
Author(s): Koerner Mv, Kashyap Chhatbar, Shaun Webb, Justyna Cholewa-Waclaw, Jim Selfridge, De Sousa D, Bill Skarnes, Barry Rosen, Mark Thomas, Joanna Bottomley, R Ramires-Solis, Christopher J. Lelliott, David J. Adams, Adrian Bird
Software Mentions: 1
Published: over 7 years ago

10.1530/EJE-17-0277

Inflammatory infiltrates in parathyroid tumors
Cited by: 4
Author(s): Felix Haglund, Björn M. Hallström, Inga-Lena Nilsson, Anders Höög, C. Christofer Juhlin, Catharina Larsson
Software Mentions: 1
Published: almost 9 years ago

10.1007/s00394-017-1527-7

Antitumor activity and expression profiles of genes induced by sulforaphane in human melanoma cells
Cited by: 30
Author(s): Paola Arcidiacono, Francesco Ragonese, Anna Maria Stabile, Alessandra Pistilli, Ekatherina Sh. Kuligina, Mario Rende, Ugo Bottoni, Stefano Calvieri, Andrea Crisanti, Roberta Spaccapelo
Software Mentions: 1
Published: about 9 years ago

10.1007/s00431-019-03374-z

Rethinking ADHD intervention trials: feasibility testing of two treatments and a methodology
Cited by: 5
Author(s): Philippa Fibert, Tessa Peasgood, Clare Relton
Software Mentions: 1
Published: over 7 years ago

10.1155/2019/7543049

Determination of Electroacupuncture Effects on circRNAs in Plasma Exosomes in Diabetic Mice: An RNA-Sequencing Approach
Cited by: 5
Author(s): Yin Shou, Li Hu, Weibo Zhang, Yuan Gao, Ping Xu, Bimeng Zhang
Software Mentions: 1
Published: almost 7 years ago

10.1111/eva.12917

Population genetic structure and predominance of cyclical parthenogenesis in the bird cherry‐oat aphid<i>Rhopalosiphum padi</i>in England
Cited by: 11
Author(s): Ramiro Morales‐Hojas, Asier Gonzalez-Uriarte, Fernando Alvira Iraizoz, Todd M. Jenkins, L. J. Alderson, T. Kruger, M. J. Hall, A. F. C. Greenslade, C. R. Shortall, James R. Bell
Software Mentions: 1
Published: over 6 years ago

10.1002/evl3.241

Adaptive and maladaptive expression plasticity underlying herbicide resistance in an agricultural weed
Cited by: 11
Author(s): Emily B. Josephs, Megan L. Van Etten, Alex Harkess, Adrian E. Platts, Regina S. Baucom
Software Mentions: 1
Published: about 5 years ago

10.1038/s12276-020-00502-w

Lactobacillus fermentum promotes adipose tissue oxidative phosphorylation to protect against diet-induced obesity
Cited by: 10
Author(s): Young‐In Yoon, Gihyeon Kim, Myung‐Giun Noh, Jeong-Hyeon Park, Mongjoo Jang, Sungsoon Fang, Hansoo Park
Software Mentions: 1
Published: about 6 years ago

10.12688/f1000research.44714.1

Draft genome assembly of the biofuel grass crop Miscanthus sacchariflorus
Cited by: 3
Author(s): Jose J De Vega, Iain S. Donnison, Sarah Dyer, Kerrie Farrar
Software Mentions: 1
Published: over 5 years ago

10.12688/f1000research.13580.3

A host subtraction database for virus discovery in human cell line sequencing data
Cited by: 0
Author(s): Jason R. Miller, Kari A. Dilley, Derek M. Harkins, Timothy B. Stockwell, Reed S. Shabman, Granger Sutton
Software Mentions: 1
Published: over 7 years ago

10.1016/j.fcr.2017.10.007

Productivity trade-off with different water regimes and genotypes of rice under non-puddled conditions in Eastern India
Cited by: 23
Author(s): Ipsita Kar, Sudhir Yadav, Amit Kumar Mishra, Basanta Kumar Behera, Chandramani Khanda, Virender Kumar, Ashok Kumar
Software Mentions: 1
Published: over 8 years ago

10.1016/j.fcr.2016.09.011

Yield stability of selected rice breeding lines and donors across conditions of mild to moderately severe drought stress
Cited by: 52
Author(s): Rolando O. Torres, Amelia Henry
Software Mentions: 1
Published: over 8 years ago

10.1002/fsn3.1115

Dual‐frequency ultrasound for ultrasonic‐assisted esterification
Cited by: 21
Author(s): Elahe Abedi, Kiana Pourmohammadi, Sahar Abbasi
Software Mentions: 1
Published: about 7 years ago

10.3389/fmicb.2019.03124

Genomics Evolutionary History and Diagnostics of the Alternaria alternata Species Group Including Apple and Asian Pear Pathotypes
Cited by: 32
Author(s): Andrew D. Armitage, Helen M. Cockerton, S. Sreenivasaprasad, J. W. Woodhall, Charles R. Lane, Richard J. Harrison, John P. Clarkson
Software Mentions: 1
Published: over 6 years ago

10.3389/fmicb.2018.01581

Application of Transcriptomics to Compare the Carbohydrate Active Enzymes That Are Expressed by Diverse Genera of Anaerobic Fungi to Degrade Plant Cell Wall Carbohydrates
Cited by: 44
Author(s): Robert J. Gruninger, Thi Truc Minh Nguyen, Ian D. Reid, Jay Yanke, Pan Wang, D. Wade Abbott, Adrian Tsang, Tim A. McAllister
Software Mentions: 1
Published: about 8 years ago

10.3389/fmicb.2017.00512

An Optimized Method for Extracting Bacterial RNA from Mouse Skin Tissue Colonized by Mycobacterium ulcerans
Cited by: 10
Author(s): Marie Robbe-Saule, Jérèmie Babonneau, Odile Sismeiro, Laurent Marsollier, Estelle Marion
Software Mentions: 1
Published: over 9 years ago

10.3389/fmolb.2021.654387

Evaluation of NTRK Gene Fusion by Five Different Platforms in Triple-Negative Breast Carcinoma
Cited by: 7
Author(s): Shafei Wu, Xiaohua Shi, Xinyu Ren, Kaimi Li, Junyi Pang, Liang Zeng
Software Mentions: 1
Published: about 5 years ago

10.3389/fmolb.2021.726976

Position Specific Alternative Splicing and Gene Expression Profiles Along the Tonotopic Axis of Chick Cochlea
Cited by: 3
Author(s): Heiyeun Koo, Jin-Hee Hwang, Sungbo Jung, Hye-Young Park, Jinwoong Bok, Juw Won Park
Software Mentions: 1
Published: about 5 years ago

10.3389/fmolb.2018.00062

High Quality de Novo Transcriptome Assembly of Croton tiglium
Cited by: 44
Author(s): Markus Haak, Svenja Vinke, Willy Keller, Julian Droste, Christian Rückert, Jörn Kalinowski, Boas Pucker
Software Mentions: 1
Published: about 8 years ago

10.3389/fnmol.2021.720973

PRDM12 Is Transcriptionally Active and Required for Nociceptor Function Throughout Life
Cited by: 6
Author(s): Tomislav Kokotović, Michiel Langeslag, Ewelina M. Lenartowicz, John Manion, Christopher W. Fell, Elham Alehabib, Abbas Tafakhori, Hossein Darvish, Éric Bellefroid, G. Gregory Neely, Michaela Kress, Josef Penninger, Vanja Nagy
Software Mentions: 1
Published: almost 5 years ago

10.3389/fnmol.2018.00463

Transcriptomic Analysis of Zebrafish TDP-43 Transgenic Lines
Cited by: 17
Author(s): Alexandra Lissouba, Meijiang Liao, Edor Kabashi, Pierre Drapeau
Software Mentions: 1
Published: almost 8 years ago

10.3389/fnmol.2020.00154

Gene Expression Profile at the Motor Endplate of the Neuromuscular Junction of Fast-Twitch Muscle
Cited by: 11
Author(s): Kun Huang, Jin Li, Mikako Ito, Jun‐ichi Takeda, Bisei Ohkawara, Tomoo Ogi, Akio Matsubara, Kinji Ohno
Software Mentions: 1
Published: about 6 years ago

10.3389/fnmol.2020.00043

Interference With Complex IV as a Model of Age-Related Decline in Synaptic Connectivity
Cited by: 10
Author(s): Martin Kriebel, Julia Ebel, Florian Battke, Stefan Griesbach, Hansjürgen Volkmer
Software Mentions: 1
Published: over 6 years ago

10.3389/fnmol.2019.00037

Transcriptome Analysis of the Human Tibial Nerve Identifies Sexually Dimorphic Expression of Genes Involved in Pain, Inflammation, and Neuro-Immunity
Cited by: 36
Author(s): Pradipta Ray, Junaid Sarfraz Khan, Andi Wangzhou, Diana Tavares‐Ferreira, Armen N. Akopian, Gregory Dussor, Theodore J. Price
Software Mentions: 1
Published: over 7 years ago

10.3389/fneur.2020.00033

Top Common Differentially Expressed Genes in the Epileptogenic Nucleus of Two Strains of Rodents Susceptible to Audiogenic Seizures: WAR and GASH/Sal
Cited by: 9
Author(s): Samara Damasceno, Ricardo Gómez-Nieto, Norberto García-Cairasco, M.J. Herrero-Turrión, Faustino Marı́n, Dolores E. López
Software Mentions: 1
Published: over 6 years ago

10.3389/fneur.2019.00647

STIR-Net: Deep Spatial-Temporal Image Restoration Net for Radiation Reduction in CT Perfusion
Cited by: 17
Author(s): Yao Xiao, Peng Liu, Yun Liang, Skylar E. Stolte, Pina C. Sanelli, Ajay Gupta, Jana Ivanidze, Ruogu Fang
Software Mentions: 1
Published: about 7 years ago

10.3389/fneur.2020.540878

Involvement of CXCL1/CXCR2 During Microglia Activation Following Inflammation-Sensitized Hypoxic-Ischemic Brain Injury in Neonatal Rats
Cited by: 30
Author(s): Meray Serdar, Karina Kempe, Ralf Herrmann, Daniel Picard, Marc Remke, Josephine Herz, Ivo Bendix, Ursula Felderhoff-Müser, Hemmen Sabir
Software Mentions: 1
Published: almost 6 years ago

10.3389/fnins.2020.00508

Inferior Colliculus Transcriptome After Status Epilepticus in the Genetically Audiogenic Seizure-Prone Hamster GASH/Sal
Cited by: 6
Author(s): Sandra M. Díaz-Rodríguez, Daniel López-López, M.J. Herrero-Turrión, Ricardo Gómez-Nieto, Ángel Canal-Alonso, Dolores E. López
Software Mentions: 1
Published: over 6 years ago

10.3389/fnins.2019.01453

Physical Activity Induces Nucleus Accumbens Genes Expression Changes Preventing Chronic Pain Susceptibility Promoted by High-Fat Diet and Sedentary Behavior in Mice
Cited by: 9
Author(s): Arthur Freitas Brandao, Ivan José Magayewski Bonet, Marco Pagliusi, Gabriel Gerardini Zanetti, Nam Pho, Cláudia Herrera Tambeli, Carlos Amílcar Parada, André Schwambach Vieira, César Renato Sartori
Software Mentions: 1
Published: over 6 years ago

10.3389/fonc.2018.00140

Investigation of Experimental Factors That Underlie BRCA1/2 mRNA Isoform Expression Variation: Recommendations for Utilizing Targeted RNA Sequencing to Evaluate Potential Spliceogenic Variants
Cited by: 6
Author(s): Vanessa Lattimore, John Pearson, Margaret J. Currie, Amanda B. Spurdle, kConFab Investigators, Bridget A. Robinson, Logan C. Walker
Software Mentions: 1
Published: over 8 years ago

10.3389/fonc.2021.620912

Loss of TARBP2 Drives the Progression of Hepatocellular Carcinoma via miR-145-SERPINE1 Axis
Cited by: 6
Author(s): Li Man Li, Chang Chen, Ruo Xi Ran, Jing Huang, Hui Sun, Chang Zeng, Zhou Zhang, Wei Zhang, Song Mei Liu
Software Mentions: 1
Published: about 5 years ago

10.3389/fonc.2021.732644

RNA Sequencing Data for FFPE Tumor Blocks Can Be Used for Robust Estimation of Tumor Mutation Burden in Individual Biosamples
Cited by: 4
Author(s): Maxim Sorokin, Alexander Gorelyshev, Victor Efimov, Evgenia Zotova, Marianna Zolotovskaia, Elizaveta Rabushko, Denis Kuzmin, Alexander Seryakov, Dmitri Kamashev, Xinmin Li, Elena Poddubskaya, Maria Suntsova, Anton Buzdin
Software Mentions: 1
Published: almost 5 years ago

10.3389/fonc.2019.01279

Fry Is Required for Mammary Gland Development During Pregnant Periods and Affects the Morphology and Growth of Breast Cancer Cells
Cited by: 6
Author(s): Yan Liu, Xushen Chen, Zhihong Gong, Hao Zhang, Fudong Fan, Xiaojiang Tang, Jie Wang, Peng Xu, Helmut Zarbl, Xuefeng Ren
Software Mentions: 1
Published: almost 7 years ago

10.3389/fonc.2020.01203

A Greedy Algorithm-Based Stem Cell LncRNA Signature Identifies a Novel Subgroup of Lung Adenocarcinoma Patients With Poor Prognosis
Cited by: 3
Author(s): Seema Khadirnaikar, Annesha Chatterjee, Pranjal Kumar, Sudhanshu Shukla
Software Mentions: 1
Published: about 6 years ago

10.3389/fonc.2020.611467

Identification of STRBP as a Novel JAK2 Fusion Partner Gene in a Young Adult With Philadelphia Chromosome-Like B-Lymphoblastic Leukemia
Cited by: 4
Author(s): Xinyue Zhang, Haiping Dai, Zheng Li, Jia Yin, Xingping Lang, Chen Yang, Sheng Xiao, Mingqing Zhu, Dandan Liu, Hong Liu, Hongjie Shen, Depei Wu, Xiaowen Tang
Software Mentions: 1
Published: over 5 years ago

10.3389/fonc.2015.00016

Therapeutic Re-Activation of Protein Phosphatase 2A in Acute Myeloid Leukemia
Cited by: 23
Author(s): Kavitha Ramaswamy, Barbara Spitzer, Alex Kentsis
Software Mentions: 1
Published: over 11 years ago

10.3389/fonc.2020.01498

Immune-Related Gene Expression and Cytokine Secretion Is Reduced Among African American Colon Cancer Patients
Cited by: 26
Author(s): Jenny Paredes, Jovanny Zabaleta, Jone Garai, Ping Ji, Sayed Imtiaz, Marzia Spagnardi, Joussette I. Alvarado, Li Li, Mubarak Akadri, Kaylene Barrera, María Muñoz-Sagastibelza, Raavi Gupta, Mohamed Alshal, Maksim Agaronov, Henry Talus, Xuefeng Wang, John M. Carethers, Jennie L. Williams, Laura Martello
Software Mentions: 1
Published: about 6 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 7 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 5 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 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 5 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: over 6 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

10.1186/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/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/s13059-021-02399-8

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/s13059-021-02434-8

Specific splice junction detection in single cells with SICILIAN
Cited by: 12
Author(s): Roozbeh Dehghannasiri, Julia Eve Olivieri, Ana Damljanovic, Julia Salzman
Software Mentions: 1
Published: about 5 years ago

10.1093/gbe/evz141

The Genome Sequence of the Anthelmintic-Susceptible New Zealand Haemonchus contortus
Cited by: 25
Author(s): Nikola Palevich, Paul Maclean, Abdul Baten, Richard W. Scott, David M Leathwick
Software Mentions: 1
Published: about 7 years ago

10.1093/gbe/evz176

Multilayered Tuning of Dosage Compensation and Z-Chromosome Masculinization in the Wood White (Leptidea sinapis) Butterfly
Cited by: 4
Author(s): Lars Höök, Luis Leal, Venkat Talla, Niclas Backström
Software Mentions: 1
Published: about 7 years ago

10.1093/gbe/evaa195

Comprehensive Transcriptome of the Maize Stalk Borer,<i>Busseola fusca</i>, from Multiple Tissue Types, Developmental Stages, and Parasitoid Wasp Exposures
Cited by: 1
Author(s):
Software Mentions: 1
Published: about 6 years ago

10.1093/gbe/evaa235

A New Dinoflagellate Genome Illuminates a Conserved Gene Cluster Involved in Sunscreen Biosynthesis
Cited by: 27
Author(s): Eiichi Shoguchi, Girish Beedessee, Kanako Hisata, Isao Tada, Haruhi Narisoko, Noriyuki Satoh, Masanobu Kawachi, Chuya Shinzato
Software Mentions: 1
Published: almost 6 years ago

10.1093/gbe/evab178

The Genome of the Haptophyte <i>Diacronema lutheri</i> (<i>Pavlova lutheri</i>, Pavlovales): A Model for Lipid Biosynthesis in Eukaryotic Algae
Cited by: 5
Author(s): Chris J. Hulatt, René H. Wijffels, Matthew C. Posewitz
Software Mentions: 1
Published: about 5 years ago

10.1186/s13073-015-0152-4

Calling genotypes from public RNA-sequencing data enables identification of genetic variants that affect gene-expression levels
Cited by: 71
Author(s): Patrick Deelen, Daria V. Zhernakova, Mark de Haan, Marijke van der Sijde, Marc Jan Bonder, Juha Karjalainen, K. Joeri van der Velde, Kristin M. Abbott, Jingyuan Fu, Cisca Wijmenga, Richard J. Sinke, Morris A. Swertz, Lude Franke
Software Mentions: 1
Published: over 11 years ago

10.1186/s13073-018-0567-9

Single-cell transcriptome analysis of lineage diversity in high-grade glioma
Cited by: 157
Author(s): Jinzhou Yuan, Hanna Mendes Levitin, Véronique Frattini, Erin C. Bush, Deborah Boyett, Jorge Samanamud, Michele Ceccarelli, Athanassios Dovas, George Zanazzi, Peter Canoll, Jeffrey N. Bruce, Anna Lasorella, Antonio Iavarone, Peter A. Sims
Software Mentions: 1
Published: about 8 years ago

10.1186/s13073-019-0635-9

TCF21 and AP-1 interact through epigenetic modifications to regulate coronary artery disease gene expression
Cited by: 41
Author(s): Quanyi Zhao, Robert Wirka, Trieu Nguyen, Manabu Nagao, Paul Cheng, Clint L. Miller, Juyong Brian Kim, Milos Pjanic, Thomas Quertermous
Software Mentions: 1
Published: over 7 years ago

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

10.5808/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

10.5808/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

10.5808/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

10.1016/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

10.1093/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

10.1093/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

10.1038/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 10 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: over 10 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 10 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: about 10 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 10 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 10 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: almost 10 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: almost 10 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: almost 10 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 9 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 9 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 9 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 9 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 9 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 9 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 9 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 9 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: over 9 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 9 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 9 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 9 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 9 years ago