cran: STAR | Projects | Ecosyste.ms: Papers

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 4 years ago

10.3390/ijms19082162

Molecular Mode of Action of Asteriscus graveolens as an Anticancer Agent
Cited by: 10
Author(s): Zainab Tayeh, Nativ Dudai, Alona Schechter, Vered Chalifa‐Caspi, Simon Barak, Rivka Ofir
Software Mentions: 1
Published: over 6 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 3 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 4 years ago

10.1128/mSystems.00204-20

Overexpression of the Small RNA PA0805.1 in Pseudomonas aeruginosa Modulates the Expression of a Large Set of Genes and Proteins, Resulting in Altered Motility, Cytotoxicity, and Tobramycin Resistance
Cited by: 13
Author(s): Shannon R. Coleman, Maren L. Smith, Victor Spicer, Ying Lao, Neeloffer Mookherjee, Robert E. W. Hancock
Software Mentions: 1
Published: over 4 years ago

10.3390/cancers13040656

Transcriptomic Analyses of MYCN-Regulated Genes in Anaplastic Wilms’ Tumour Cell Lines Reveals Oncogenic Pathways and Potential Therapeutic Vulnerabilities
Cited by: 3
Author(s): Marianna Szemes, Zsombor Melegh, Jacob Bellamy, Ji Hyun Park, Biyao Chen, Alexander Greenhough, Daniel Catchpoole, Karim Malik
Software Mentions: 1
Published: almost 4 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 4 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 4 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 5 years ago

10.1128/mSystems.00898-20

Endogenous Metabolites Released by Sanitized Sprouting Alfalfa Seed Inhibit the Growth of Salmonella enterica
Cited by: 2
Author(s): Ga-Hee Ban, Yue Dai, Tao Huan, Alfred Ke, Pascal Delaquis, Siyun Wang
Software Mentions: 1
Published: over 3 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: over 3 years ago

10.3390/cancers13174388

The Clinical Utility of Optical Genome Mapping for the Assessment of Genomic Aberrations in Acute Lymphoblastic Leukemia
Cited by: 29
Author(s): Jonathan Lukas Lühmann, Marie Stelter, Marie Wolter, J. McA. Kater, Jana Lentes, Anke Bergmann, Maximilian Schieck, Gudrun Göhring, Anja Möricke, Gunnar Cario, Markéta Žaliová, Martin Schrappe, Brigitte Schlegelberger, Martin Stanulla, Doris Steinemann
Software Mentions: 1
Published: about 3 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: over 6 years ago

10.3390/ijms19082341

Treatment of Periodontal Ligament Stem Cells with MOR and CBD Promotes Cell Survival and Neuronal Differentiation via the PI3K/Akt/mTOR Pathway
Cited by: 26
Author(s): Veronica Lanza Cariccio, Domenico Scionti, Antonio Raffa, Renato Iori, Federica Pollastro, Francesca Diomede, Placido Bramantı, Oriana Trubiani, Emanuela Mazzon
Software Mentions: 1
Published: over 6 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 5 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: over 3 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: almost 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 3 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 5 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: over 6 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 9 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 6 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 7 years ago

10.1093/gbe/evab178

The Genome of the Haptophyte Diacronema lutheri (Pavlova lutheri, 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: over 3 years ago

10.1038/s41598-017-12179-9

RNA-Seq Analyses Identify Frequent Allele Specific Expression and No Evidence of Genomic Imprinting in Specific Embryonic Tissues of Chicken
Cited by: 29
Author(s): Zhuo Zhu, Susan J. Lamont, Behnam Abasht
Software Mentions: 1
Published: about 7 years ago

10.3390/cancers13184515

Transcriptome of Male Breast Cancer Matched with Germline Profiling Reveals Novel Molecular Subtypes with Possible Clinical Relevance
Cited by: 2
Author(s): Veronica Zelli, Valentina Silvestri, Virginia Valentini, Agostino Bucalo, P. Rizzolo, Ines Zanna, Simonetta Bianchi, Anna Coppa, Giuseppe Giannini, Laura Cortesi, Daniele Calistri, Maria Grazia Tibiletti, Stephen B. Fox, kCon Fab, Domenico Palli, Laura Ottini
Software Mentions: 1
Published: about 3 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: about 4 years ago

10.1038/s41598-017-13835-w

HIV-1 viral protein R (Vpr) induces fatty liver in mice via LXRα and PPARα dysregulation: implications for HIV-specific pathogenesis of NAFLD
Cited by: 27
Author(s): Neeti Agarwal, Dinakar Iyer, Chiara Gabbi, Pradip Kumar Saha, Sanjeet G. Patel, Qianxing Mo, Benny Hung-Junn Chang, Biman Goswami, Ulrich S. Schubert, Jeffrey B. Kopp, Dorothy E. Lewis, Ashok Balasubramanyam
Software Mentions: 1
Published: about 7 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: about 3 years ago

10.1016/j.cell.2019.10.015

Long-Term Culture Captures Injury-Repair Cycles of Colonic Stem Cells
Cited by: 127
Author(s): Yi Wang, I-Ling Chiang, Thomas O’Hara, Satoru Fujii, Jiye Cheng, Brian D. Muegge, Aaron M. Ver Heul, Nathan D. Han, Qiuhe Lu, Sidong Xiong, Feidi Chen, Chin‐Wen Lai, Hana Jáňová, Renee Wu, Charles E. Whitehurst, Kelli L. VanDussen, Ta‐Chiang Liu, Jeffrey I. Gordon, L. David Sibley, Thaddeus S. Stappenbeck
Software Mentions: 1
Published: about 5 years ago

10.1038/s41598-017-09517-2

Hypertension Susceptibility Loci are Associated with Anthracycline-related Cardiotoxicity in Long-term Childhood Cancer Survivors
Cited by: 20
Author(s): Michelle A.T. Hildebrandt, Monica E. Reyes, Xifeng Wu, Xia Pu, Kara Thompson, Jianchao Ma, Andrew P. Landstrom, Alanna C. Morrison, Joann L. Ater
Software Mentions: 1
Published: about 7 years ago

10.1038/s41598-017-10044-3

Establishment and genomic characterization of the new chordoma cell line Chor-IN-1
Cited by: 14
Author(s): Roberta Bosotti, Paola Magnaghi, Sebastiano Di Bella, Liviana Cozzi, Carlo Cusi, Fabio Bozzi, Nicola Beltrami, Giovanni Carapezza, Dario Ballinari, Nadia Amboldi, Rosita Lupi, Alessio Somaschini, Laura Raddrizzani, Barbara Salom, Arturo Galvani, Silvia Stacchiotti, Elena Tamborini, Antonella Isacchi
Software Mentions: 1
Published: about 7 years ago

10.1038/s41598-017-14264-5

A total transcriptome profiling method for plasma-derived extracellular vesicles: applications for liquid biopsies
Cited by: 50
Author(s): María Galli de Amorim, Renan Valieris, Rodrigo Duarte Drummond, Melissa Pool Pizzi, Vanessa M. Freitas, Rita Sinigaglia‐Coimbra, George A. Calin, Renata Pasqualini, Wadih Arap, Israel Tojal da Silva, Emmanuel Dias‐Neto, Diana Noronha Nunes
Software Mentions: 1
Published: about 7 years ago

10.1016/j.cell.2021.02.040

Archaeogenomic distinctiveness of the Isthmo-Colombian area
Cited by: 24
Author(s): Marco Rosario Capodiferro, Bethany Aram, Alessandro Raveane, Nicola Rambaldi Migliore, Giulia Colombo, Linda Ongaro, Javier Rivera, Tomás Mendizábal, Iosvany Hernández-Mora, Maribel Tribaldos, Ugo A. Perego, Hongjie Li, Christiana L. Scheib, Alessandra Modi, Alberto Gómez-Carballa, Viola Grugni, Gianluca Lombardo, Garrett Hellenthal, Juan Miguel Pascale, Francesco Bertolini, Gaetano S. Grieco, Cristina Cereda, Martina Lari, David Caramelli, Luca Pagani, Mait Metspalu, Ronny Friedrich, Corina Knipper, Anna Olivieri, Antonio Salas, Richard G. Cooke, Francesco Montinaro, Jorge Motta, Antonio Torroni, Juan Guillermo Martín, Ornella Semino, Ripan S. Malhi, Alessandro Achilli
Software Mentions: 1
Published: over 3 years ago

10.1038/s41598-017-08320-3

Genome-wide identification and expression profiling of long non-coding RNAs in auditory and vestibular systems
Cited by: 19
Author(s): Kathy Ushakov, Tal Koffler-Brill, Aviv Rom, Kobi Perl, Igor Ulitsky, Karen B. Avraham
Software Mentions: 1
Published: over 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 3 years ago

10.7554/eLife.65104

Nucleo-cytoplasmic shuttling of splicing factor SRSF1 is required for development and cilia function
Cited by: 24
Author(s): Fiona Haward, Magdalena M. Maslon, Patricia L Yeyati, Nicolás Bellora, Jan N. Hansen, Stuart Aitken, Jennifer Lawson, Alex von Kriegsheim, Dagmar Wachten, Pleasantine Mill, Ian R. Adams, Javier F. Cáceres
Software Mentions: 1
Published: over 3 years ago

10.3390/cancers12051104

Genetic and Immune Changes Associated with Disease Progression under the Pressure of Oncolytic Therapy in A Neuroblastoma Outlier Patient
Cited by: 11
Author(s): Lidia Franco-Luzón, Sandra García-Mulero, Rebeca Sanz‐Pamplona, Gustavo J. Melén, David Ruano, Álvaro Lassaletta, Luís Madero, África González‐Murillo, Manuel Ramı́rez
Software Mentions: 1
Published: over 4 years ago

10.1093/gbe/evaa195

Comprehensive Transcriptome of the Maize Stalk Borer,Busseola fusca, from Multiple Tissue Types, Developmental Stages, and Parasitoid Wasp Exposures
Cited by: 1
Author(s):
Software Mentions: 1
Published: about 4 years ago

10.3390/ijms20071689

A Transcriptomic Insight into the Impact of Colon Cancer Cells on Mast Cells
Cited by: 10
Author(s): Yingxin Yu, Bart R. Blokhuis, Johan Garssen, Frank A. Redegeld
Software Mentions: 1
Published: over 5 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: about 5 years ago

10.1038/s41598-017-16892-3

Decreased miRNA expression in Klinefelter syndrome
Cited by: 16
Author(s): Laura Cimino, Michele Salemi, Rossella Cannarella, Rosita A. Condorelli, Giorgio Giurato, Giovanna Marchese, Sandro La Vignera, Aldo E. Calogero
Software Mentions: 1
Published: almost 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: over 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: over 5 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: over 7 years ago

10.1038/s41598-017-17475-y

The Human Blood-Nerve Barrier Transcriptome
Cited by: 30
Author(s): Steven P. Palladino, E. Scott Helton, Preti Jain, Chaoling Dong, Michael R. Crowley, David K. Crossman, Eroboghene E. Ubogu
Software Mentions: 1
Published: almost 7 years ago

10.1038/s41598-017-17665-8

A Novel Cell Line Based Orthotopic Xenograft Mouse Model That Recapitulates Human Hepatoblastoma
Cited by: 25
Author(s): Sarah E. Woodfield, Yan Shi, Roma H. Patel, Jingling Jin, Angela Major, Stephen F. Sarabia, Zbigniew Starosolski, Barry Zorman, Siddharth Gupta, Zhenghu Chen, Aryana M. Ibarra, Karl Dimiter Bissig, Ketan B. Ghaghada, Pavel Sumazin, Dolores López‐Terrada, Sanjeev A. Vasudevan
Software Mentions: 1
Published: almost 7 years ago

10.1038/s41598-017-18397-5

Primed primary metabolism in systemic leaves: a functional systems analysis
Cited by: 55
Author(s): Jens Schwachtje, Axel Fischer, Alexander Erban, Joachim Kopka
Software Mentions: 1
Published: almost 7 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: over 7 years ago

10.1016/j.cell.2018.06.019

A Complete Electron Microscopy Volume of the Brain of Adult Drosophila melanogaster
Cited by: 667
Author(s): Zhihao Zheng, J. Scott Lauritzen, Eric Perlman, Camenzind G. Robinson, Matthew Nichols, Daniel E. Milkie, Omar Torrens, J. W. Price, Corey B. Fisher, Nadiya Sharifi, Steven A. Calle-Schuler, Lucia Kmecova, Iqbal J. Ali, Bill Karsh, Eric T. Trautman, John A. Bogovic, Philipp Hanslovsky, Gregory Jefferis, Michael Kazhdan, Khaled Khairy, Stephan Saalfeld, Richard D. Fetter, Davi D. Bock
Software Mentions: 1
Published: over 6 years ago

10.7554/eLife.23202

Tsc2 disruption in mesenchymal progenitors results in tumors with vascular anomalies overexpressing Lgals3
Cited by: 11
Author(s): Peter Klover, Rajesh L. Thangapazham, Jirō Katō, Wang Jian, Stasia A. Anderson, Victoria Hoffmann, Wendy K. Steagall, Shaowei Li, Elizabeth A McCart, Neera Nathan, Joshua D. Bernstock, Matthew D. Wilkerson, Clifton L. Dalgard, Joel Moss, Thomas N. Darling
Software Mentions: 1
Published: over 7 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: over 7 years ago

10.1038/s41598-018-19173-9

NIPBL+/− haploinsufficiency reveals a constellation of transcriptome disruptions in the pluripotent and cardiac states
Cited by: 24
Author(s): Jason A. Mills, Pamela S. Herrera, Maninder Kaur, Lanfranco Leo, Deborah McEldrew, Jesus A Tintos-Hernández, Ramakrishnan Rajagopalan, Alyssa Gagne, Zhe Zhang, Xilma R. Ortiz-González, Ian D. Krantz
Software Mentions: 1
Published: almost 7 years ago

10.1002/ece3.2547

Diversification in wild populations of the model organism Anolis carolinensis : 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: about 8 years ago

10.1038/s41598-018-19581-x

The microRNA regulatory landscape of MSC-derived exosomes: a systems view
Cited by: 248
Author(s): Scott Ferguson, Jinli Wang, Christine J Lee, Maixian Liu, Sriram Neelamegham, John M. Canty, Juliane Nguyen
Software Mentions: 1
Published: almost 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 6 years ago

10.1038/s41598-018-19855-4

Biologically active constituents of the secretome of human W8B2+ cardiac stem cells
Cited by: 15
Author(s): Shuai Nie, Xin Wang, Priyadharshini Sivakumaran, Mark M.W. Chong, Xin Liu, Tara Karnezis, Nadeeka Bandara, Kaloyan Takov, Cameron J. Nowell, Stephen Wilcox, Mitch Shambrook, Andrew Hill, Nicole C. Harris, Andrew Newcomb, Pádraig Strappe, Ramin Shayan, Damián Hernández, J. E. M. Clarke, Eric Hanssen, Sean M. Davidson, Gregory J. Dusting, Alice Pébay, Joshua W. K. Ho, Nicholas A. Williamson, Shiang Y. Lim
Software Mentions: 1
Published: almost 7 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: almost 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: over 7 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 11 years ago

10.1038/s41598-018-21104-7

Complete Transcriptome Profiling of Normal and Age-Related Macular Degeneration Eye Tissues Reveals Dysregulation of Anti-Sense Transcription
Cited by: 40
Author(s): Young Ho Kim, Gregory R. Grant, Anita S. Bowman, Naqi Haider, Harini V. Gudiseva, Venkata R M Chavali
Software Mentions: 1
Published: almost 7 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 6 years ago

10.1038/s41598-018-21190-7

Characterization of viral RNA splicing using whole-transcriptome datasets from host species
Cited by: 11
Author(s): Chengran Zhou, Shanlin Liu, Wenhui Song, Shiqi Luo, Guanliang Meng, Chentao Yang, Hua Yang, Jinmin Ma, Liang Wang, Shan Gao, Jian Wang, Huanming Yang, Yun Zhao, Hui Wang, Xin Zhou
Software Mentions: 1
Published: almost 7 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: over 7 years ago

10.3390/cancers10100379

Identification of the Transcription Factor Relationships Associated with Androgen Deprivation Therapy Response and Metastatic Progression in Prostate Cancer
Cited by: 16
Author(s): Nikhil Sharma, Kathryn L. Pellegrini, Véronique Ouellet, Felipe Giuste, S. Ramalingam, Kenneth A. Watanabe, Éloïse Adam-Granger, Lucresse Fossouo, Sungyong You, Michael R. Freeman, Paula M. Vertino, Karen N. Conneely, Adeboye O. Osunkoya, Dominique Trudel, Anne‐Marie Mes‐Masson, John A. Petros, Fred Saad, Carlos S. Moreno
Software Mentions: 1
Published: about 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: over 7 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 7 years ago

10.1111/eva.12917

Population genetic structure and predominance of cyclical parthenogenesis in the bird cherry‐oat aphidRhopalosiphum padiin 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: almost 5 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 7 years ago

10.1038/s41598-018-23749-w

De novo draft assembly of the Botrylloides leachii genome provides further insight into tunicate evolution
Cited by: 34
Author(s): Simon Blanchoud, Kim Rutherford, Lisa Zondag, Neil J. Gemmell, Megan J. Wilson
Software Mentions: 1
Published: over 6 years ago

10.3390/cancers12020307

Genomic Landscape of Young-Onset Bladder Cancer and Its Prognostic Implications on Adult Bladder Cancer
Cited by: 3
Author(s): Sangjun Im, Chang‐Keun Sung, Kun Suk Kim, Nam Hoon Cho, Young Min Kim, Ghee Young Kwon, Kyung Chul Moon, Song‐Yi Choi, Jae Sung Lim, Yeong Jin Choi, Soo Jin Jung, So Dug Lim, Sung Hyun Paick, Ok Jun Lee, Ho Won Kang, Seo Hee Rha, Hyeon-Shik Hwang, Ja Min Park, Sun Young Yoon, Jeesoo Chae, Jaeyong Choi, Jong‐Il Kim, Yong Mee Cho
Software Mentions: 1
Published: almost 5 years ago

10.1038/s41598-018-24298-y

Accurate identification of RNA editing sites from primitive sequence with deep neural networks
Cited by: 12
Author(s): Zhangyi Ouyang, Feng Liu, Chenghui Zhao, Chao Ren, Gaole An, Chuan Mei, Xiaochen Bo, Wenjie Shu
Software Mentions: 1
Published: over 6 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 7 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: over 3 years ago

10.1038/s41426-018-0039-8

Bordetella pertussis 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 6 years ago

10.3390/ijms21082762

Ileal Transcriptome Profiles of Japanese Quail Divergent in Phosphorus Utilization
Cited by: 7
Author(s): Michael Oster, Henry Reyer, Nares Trakooljul, Frank Weber, Xi Liu, Eduard Muráni, Siriluck Ponsuksili, M. Rodehutscord, Jörn Bennewitz, Klaus Wimmers
Software Mentions: 1
Published: over 4 years ago

10.3390/ijms20184387

Differential Regulation of Anthocyanins in Green and Purple Turnips Revealed by Combined De Novo Transcriptome and Metabolome Analysis
Cited by: 62
Author(s): Hongmei Zhuang, Qian Lei, Huifang Liu, Hongwei Han, Qiang Wang, Zhonghua Tang, Yanming Ma, Hao Wang
Software Mentions: 1
Published: about 5 years ago

10.7150/thno.30707

p300/CBP inhibitor A-485 alleviates acute liver injury by regulating macrophage activation and polarization
Cited by: 39
Author(s): Jinjin Peng, Jiacheng Li, Jing Huang, Pan Xu, Hong Huang, Yanjun Liu, Liang Yu, Yaxi Yang, Bing Zhou, Hualiang Jiang, Kaixian Chen, Yongjun Dang, Yuanyuan Zhang, Cheng Luo, Guangming Li
Software Mentions: 1
Published: almost 6 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 7 years ago

10.7150/thno.35045

Loss of histone macroH2A1 in hepatocellular carcinoma cells promotes paracrine-mediated chemoresistance and CD4+CD25+FoxP3+ regulatory T cells activation
Cited by: 25
Author(s): Oriana Lo Re, Tommaso Mazza, Sebastiano Giallongo, Paola Sanna, Francesca Rappa, Tu Vinh Luong, Giovanni Li Volti, Adela Drovakova, Tania Roskams, Matthias Van Haele, Emmanuel Tsochatzis, Manlio Vinciguerra
Software Mentions: 1
Published: almost 5 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 7 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 7 years ago

10.1016/j.cell.2016.06.020

Genetic Codes with No Dedicated Stop Codon: Context-Dependent Translation Termination
Cited by: 132
Author(s): Estienne C. Swart, Valentina Serra, Giulio Petroni, Mariusz Nowacki
Software Mentions: 1
Published: over 8 years ago

10.7150/thno.45614

Single-cell RNA-Seq reveals the transcriptional landscape and heterogeneity of skin macrophages in Vsir-/- murine psoriasis
Cited by: 26
Author(s): Chenxin Qie, Jingwei Jiang, Wanmei Liu, Xiaofan Hu, Wenting Chen, Xiaoxue Xie, Jun Li
Software Mentions: 1
Published: almost 5 years ago

10.7150/thno.45207

SYTL4 downregulates microtubule stability and confers paclitaxel resistance in triple-negative breast cancer
Cited by: 18
Author(s): Xiyu Liu, Wang Jiang, Ding Ma, Li‐Ping Ge, Yingju Yang, Zongchao Gou, Xiao‐En Xu, Zhi‐Ming Shao
Software Mentions: 1
Published: almost 5 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: over 5 years ago

10.7554/eLife.53889

The E2 Marie Kondo and the CTLH E3 ligase clear deposited RNA binding proteins during the maternal-to-zygotic transition
Cited by: 24
Author(s): Michael Zavortink, Lauren N. Rutt, Svetlana Dzitoyeva, Jesslyn C Henriksen, Chloe Barrington, Danielle Y Bilodeau, Miranda Wang, Xiao Xiao Chen, Olivia S. Rissland
Software Mentions: 1
Published: over 4 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 3 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: about 4 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 3 years ago

10.7150/thno.53474

Nasal administration of mitochondria reverses chemotherapy-induced cognitive deficits
Cited by: 46
Author(s): Jenolyn F. Alexander, Alexandre V. Seua, Luis D. Arroyo, Pradipta Ray, Andi Wangzhou, Laura Lückemann, Manfred Schedlowski, Theodore J. Price, Annemieke Kavelaars, Cobi J. Heijnen
Software Mentions: 1
Published: almost 4 years ago

10.1016/j.cell.2017.09.042

Universal Patterns of Selection in Cancer and Somatic Tissues
Cited by: 959
Author(s): Iñigo Martincorena, Keiran Raine, Moritz Gerstung, Kevin J. Dawson, Kerstin Haase, Peter Van Loo, Helen Davies, Michael R. Stratton, Peter J. Campbell
Software Mentions: 1
Published: about 7 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 4 years ago

10.3390/ijms20184345

Functional Dissection of pri-miR-290~295 in Dgcr8 Knockout Mouse Embryonic Stem Cells
Cited by: 3
Author(s): Ming Shi, Jun Hao, Xiwen Wang, Le‐Qi Liao, Cao H, Yangming Wang
Software Mentions: 1
Published: about 5 years ago

10.1080/22221751.2021.1943537

Naturally circulating pertactin-deficient Bordetella pertussis 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: almost 4 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: almost 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: almost 8 years ago

10.7554/eLife.34985

Reduced expression of C/EBPβ-LIP extends health and lifespan in mice
Cited by: 19
Author(s): Christine Müller, Laura M Zidek, Tobias Ackermann, Tristan de Jong, Peng Liu, Verena Kliche, Mohamad Amr Zaini, Gertrud Kortman, Liesbeth Harkema, Dineke S. Verbeek, Jan Tuckermann, Julia von Maltzahn, Alain de Bruin, Victor Guryev, Zhaoqi Wang, Cornelis F. Calkhoven
Software Mentions: 1
Published: over 6 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: almost 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: over 7 years ago

Projects: cran: STAR

Papers Mentioning STAR 5,759