Ecosyste.ms: Papers

An open API service providing mapping between scientific papers and software projects that are mentioned in them.
All mentions data is based on the CZI Software Mentions dataset.

Projects: cran: STAR

https://packages.ecosyste.ms/registries/cran.r-project.org/packages/STAR

Spike Train Analysis with R
6 versions
Latest release: about 12 years ago
3 dependent packages
0 downloads

Papers Mentioning STAR 5,759

10.1038/s41597-020-0558-8
Meta-analytic approach for transcriptome profiling of herpes simplex virus type 1
Cited by: 7
Author(s): Dóra Tombácz, Gábor Torma, Gábor Gulyás, Norbert Moldován, M Snyder, Zsolt Boldogkői
Software Mentions: 1
Published: over 4 years ago
10.3390/ijms21207466
The BDNF rs6265 Polymorphism is a Modifier of Cardiomyocyte Contractility and Dilated Cardiomyopathy
Cited by: 5
Author(s): F Raucci, Anand Prakash Singh, Jonathan H. Soslow, Larry W. Markham, Lin Zhong, Wejdan Aljafar, Natasja Lessiohadi, Cassandra P. Awgulewitsch, Prachi Umbarkar, Qinkun Zhang, Presley L. Cannon, Maciej S. Buchowski, Joseph T. Roland, Erica J. Carrier, W. Bryan Burnette, Antonis K. Hatzopoulos, Hind Lal, Cristi L. Galindo
Software Mentions: 1
Published: about 4 years ago
10.1038/s41597-019-0226-z
Transcriptomic profiling of sesame during waterlogging and recovery
Cited by: 15
Author(s): Komivi Dossa, Jun You, Linhai Wang, Yanxin Zhang, Donghua Li, Rong Zhou, Jingyin Yu, Xin Wei, Xiaodong Zhu, Shiyang Jiang, Yuan Gao, Marie Ali Mmadi
Software Mentions: 1
Published: about 5 years ago
10.1038/s41597-019-0022-9
Multi-year whole-blood transcriptome data for the study of onset and progression of Parkinson’s Disease
Cited by: 7
Author(s): Matthew Valentine, Kosuke Hashimoto, Takeshi Fukuhara, Sachio Saiki, Keiichi Ishikawa, Nobutaka Hattori
Software Mentions: 1
Published: over 5 years ago
10.26508/lsa.201800157
MBNL1 alternative splicing isoforms play opposing roles in cancer
Cited by: 34
Author(s): Tommaso Tabaglio, Diana Low, Winnie Koon Lay Teo, Pierre-Alexis Goy, Piotr Cywoniuk, Heike Wollmann, Jessica Ho, Damien Tan, Joey Aw, Andrea Pavesi, Krzysztof Sobczak, Dave Keng Boon Wee, Ernesto Guccione
Software Mentions: 1
Published: about 6 years ago
10.1016/j.xpro.2020.100126
Introducing the Stem Cell ASCL2 Reporter STAR into Intestinal Organoids
Cited by: 3
Author(s): Maria C. Heinz, Koen C. Oost, Hugo J.G. Snippert
Software Mentions: 1
Published: almost 4 years ago
10.1038/s41598-020-75102-9
Umbilical cord tissue is a robust source for mesenchymal stem cells with enhanced myogenic differentiation potential compared to cord blood
Cited by: 14
Author(s): Sanjay Mishra, Jayesh Kumar Sevak, Anamica Das, Aneeshkumar G. Arimbasseri, Shinjini Bhatnagar, Suchitra D. Gopinath
Software Mentions: 1
Published: about 4 years ago
10.1186/s12284-017-0161-6
Association Mapping of Yield and Yield-related Traits Under Reproductive Stage Drought Stress in Rice (Oryza sativa L.)
Cited by: 64
Author(s): B. P. Mallikarjuna Swamy, Noraziyah Abd Aziz Shamsudin, Site Noorzuraini Abd Rahman, Ramil Mauleon, R Wickneswari V Ratnam, Ma Teresa Sta Cruz, Arvind Kumar
Software Mentions: 1
Published: over 7 years ago
10.1590/0104-1169.3523.2537
Cultural adaptation, content validity and inter-rater reliability of the "STAR Skin Tear Classification System"
Cited by: 27
Author(s): Kelly Cristina Strazzieri-Pulido, Vera Lúcia Conceição de Gouveia Santos, Keryln Carville
Software Mentions: 1
Published: almost 10 years ago
10.3390/ijms21218322
LINC00973 Induces Proliferation Arrest of Drug-Treated Cancer Cells by Preventing p21 Degradation
Cited by: 4
Author(s): Dmitry S. Karpov, Pavel Spirin, Andrei O. Zheltukhin, Vera V. Tutyaeva, Olga L. Zinovieva, E. N. Grineva, Vera A. Matrosova, George S. Krasnov, Anastasiya V. Snezhkina, Anna V. Kudryavtseva, Vladimir Prassolov, T. D. Mashkova, Н. А. Лисицын
Software Mentions: 1
Published: about 4 years ago
10.1186/s12977-020-00535-z
Interferon regulatory factor 4 as a therapeutic target in adult T-cell leukemia lymphoma
Cited by: 8
Author(s): Daniel A. Rauch, Sydney L. Olson, John C. S. Harding, Hemalatha Sundaramoorthi, Youngsoo Kim, Tianyuan Zhou, A. Robert MacLeod, Grant A. Challen, Lee Ratner
Software Mentions: 1
Published: about 4 years ago
10.1186/s12977-016-0267-8
Characterization of novel Bovine Leukemia Virus (BLV) antisense transcripts by deep sequencing reveals constitutive expression in tumors and transcriptional interaction with viral microRNAs
Cited by: 57
Author(s): Keith Durkin, Nicolas Rosewick, Maria Artesi, Vincent Hahaut, Philip Griebel, Natasa Arsic, Arsène Burny, Michel Georges, Anne Van den Broeke
Software Mentions: 1
Published: over 8 years ago
10.1186/s12931-021-01854-1
The “can do, do do” concept in individuals with chronic obstructive pulmonary disease: an exploration of psychological mechanisms
Cited by: 10
Author(s): Johannes Carl, Konrad Schultz, Thomas Janssens, Andreas von Leupoldt, Klaus Pfeifer, Wolfgang Geidl
Software Mentions: 1
Published: about 3 years ago
10.1371/journal.pone.0141214
Identification and Characterization of Circular RNAs As a New Class of Putative Biomarkers in Human Blood
Cited by: 503
Author(s): Sebastian Memczak, Panagiotis Papavasileiou, Oliver Peters, Nikolaus Rajewsky
Software Mentions: 1
Published: about 9 years ago
10.1038/s41598-020-76904-7
Transcriptomic analysis of micropapillary high grade T1 urothelial bladder cancer
Cited by: 3
Author(s): Michaela Bowden, Rosa Nadal, Chensheng W. Zhou, Lillian Werner, Justine A. Barletta, Núria Juanpere, Josep Lloreta, Silvia Hernández‐Llodrà, Juan Moróte, Inés de Torres, Anna Orsola, Paloma Cejas, Henry W. Long, Joaquim Bellmunt
Software Mentions: 1
Published: about 4 years ago
10.1038/s41598-020-76870-0
Inactivation of mediator complex protein 22 in podocytes results in intracellular vacuole formation, podocyte loss and premature death
Cited by: 1
Author(s): Patricia Q. Rodriguez, David Unnersjö‐Jess, Sonia Zambrano, Jing Guo, Katja Möller-Hackbarth, Hans Blom, Timo Jahnukainen, Lwaki Ebarasi, Jaakko Patrakka
Software Mentions: 1
Published: about 4 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 6 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 3 years ago
10.1038/s41375-021-01121-8
Asxl1 C-terminal mutation perturbs neutrophil differentiation in zebrafish
Cited by: 11
Author(s): Fang Xiao, Song’en Xu, Yiyue Zhang, Jin Xu, Zhibin Huang, Wei Liu, Shunqing Wang, Kuangyu Yen, Wenqing Zhang
Software Mentions: 1
Published: almost 4 years ago
10.1038/s41598-020-76621-1
Phylogenetic analysis of cell-cycle regulatory proteins within the Symbiodiniaceae
Cited by: 1
Author(s): Lucy M. Gorman, Shaun P. Wilkinson, Sheila A. Kitchen, Clinton A. Oakley, Arthur R. Grossman, Virginia M. Weis, Simon K. Davy
Software Mentions: 1
Published: about 4 years ago
10.1038/s41598-020-77638-2
Identifying chromatin features that regulate gene expression distribution
Cited by: 3
Author(s): Thanutra Zhang, Robert T. Foreman, Roy Wollman
Software Mentions: 1
Published: almost 4 years ago
10.1038/s41598-020-77694-8
Application of multi-omics technology for the elucidation of anti-pneumococcal activity of 3-acyl-2-phenylamino-1,4-dihydroquinolin-4-one (APDQ) derivative against Streptococcus pneumoniae
Cited by: 0
Author(s): Sangyeop Lee, Hayoung Lee, Sung Ho Yun, Sangmi Jun, Yujeong Lee, Wooyoung Kim, Edmond Changkyun Park, Joonyoung Baek, Yoonna Kwak, Soojin Noh, Gon Seo, Soojin Jang, Chul Min Park, Kyung Sik Kim
Software Mentions: 1
Published: almost 4 years ago
10.1038/s41598-020-77816-2
Transcriptomic analysis of tobacco-flavored E-cigarette and menthol-flavored E-cigarette exposure in the human middle ear
Cited by: 2
Author(s): Jae‐Jun Song, Yoon Young Go, Jong Kyou Lee, Bum Sang Lee, Su Kyoung Park, Harry Jung, Jun Ho Lee, Jiwon Chang
Software Mentions: 1
Published: almost 4 years ago
10.1038/s41598-020-77840-2
Wide-ranging transcriptomic analysis of Poncirus trifoliata, Citrus sunki, Citrus sinensis and contrasting hybrids reveals HLB tolerance mechanisms
Cited by: 17
Author(s): Maiara Curtolo, Inaiara de Souza Pacheco, Leonardo Pires Boava, Marco Aurélio Takita, Laís Moreira Granato, Diogo Manzano Galdeano, Alessandra Alves de Souza, Mariângela Cristofani–Yaly, Marcos Antônio Machado
Software Mentions: 1
Published: almost 4 years ago
10.1038/s41375-021-01376-1
CXCR4 hyperactivation cooperates with TCL1 in CLL development and aggressiveness
Cited by: 4
Author(s): Richard T. Lewis, H. Carlo Maurer, Nikita Singh, Irene González-Menéndez, Matthias Wirth, Markus Schick, Zhang Le, Konstandina Isaakidis, Anna Katharina Scherger, Veronika Schulze, Junyan Lu, Thorsten Zenz, Katja Steiger, Roland Rad, Leticia Quintanilla-Martı́nez, Marion Espéli, Karl Balabanian, Ulrich Keller, Stefan Habringer
Software Mentions: 1
Published: over 3 years ago
10.1371/journal.pone.0078586
Rapid Kill—Novel Endodontic Sealer and Enterococcus faecalis
Cited by: 27
Author(s): Nurit Beyth, Dana Kesler Shvero, Nathan Zaltsman, Yael Houri‐Haddad, Itzhak Abramovitz, Michael Perez Davidi, Ervin I. Weiss
Software Mentions: 1
Published: about 11 years ago
10.3390/ijms21228785
Human Thymic CD10+ PD-1+ Intraepithelial Lymphocyte Precursors Acquire Interleukin-15 Responsiveness at the CD1a– CD95+ CD28– CCR7– Developmental Stage
Cited by: 7
Author(s): Lore Billiet, Glenn Goetgeluk, Sarah Bonte, Stijn De Munter, Laurenz De Cock, Melissa Pille, Joline Ingels, Hanne Jansen, Karin Weening, Filip Van Nieuwerburgh, Tessa Kerre, Tom Taghon, Georges Leclercq, Bart Vandekerckhove
Software Mentions: 1
Published: about 4 years ago
10.3390/ijms22179618
Pathogenic Effects of Mineralocorticoid Pathway Activation in Retinal Pigment Epithelium
Cited by: 9
Author(s): Jérémie Canonica, Min Zhao, Tatiana Favez, Emmanuelle Gélizé, Laurent Jonet, Laura Kowalczuk, Justine Guégan, Damien Le Menuet, Say Viengchareun, Marc Lombès, Eric Pussard, Yvan Arsenijévic, Francine Béhar-Cohen
Software Mentions: 1
Published: about 3 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 4 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: about 4 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: about 6 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 8 years ago
10.1002/pros.23823
<i>TMPRSS2‐ERG</i> 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 5 years ago
10.1073/pnas.2100694118
Longer or shorter spines: Reciprocal trait evolution in stickleback via triallelic regulatory changes in <i>Stanniocalcin2a</i>
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: over 3 years ago
10.1371/journal.pone.0221109
Antibiotic treatment of Chlamydia-induced cystitis in the koala is linked to expression of key inflammatory genes in reactive oxygen pathways
Cited by: 5
Author(s): Samuel Phillips, Bonnie Chaban, Ammar Aziz, Wendy Bergen, Rosemary Booth, Michael Pyne, Peter Timms
Software Mentions: 1
Published: over 5 years ago
10.1371/journal.pone.0177340
Metagenomic sequencing complements routine diagnostics in identifying viral pathogens in lung transplant recipients with unknown etiology of respiratory infection
Cited by: 52
Author(s): Dagmara W. Lewandowska, Peter W. Schreiber, Macé M. Schuurmans, Bettina Ruehe, Osvaldo Zagordi, Cornelia Bayard, Michael Greiner, Fabienne D. Geissberger, Riccarda Capaul, Andrea Zbinden, Jürg Böni, Christian Benden, Nicolas J. Mueller, Alexandra Trkola, Michael Huber
Software Mentions: 1
Published: over 7 years ago
10.1371/journal.pone.0129183
Weighted Statistical Binning: Enabling Statistically Consistent Genome-Scale Phylogenetic Analyses
Cited by: 104
Author(s): Shamsuzzoha Bayzid, Siavash Mirarab, Bastien Boussau, Tandy Warnow
Software Mentions: 1
Published: over 9 years ago
10.1073/pnas.2026605118
An introgressed gene causes meiotic drive in<i>Neurospora sitophila</i>
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 3 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 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: over 5 years ago
10.1038/s41598-020-80691-6
Short prolactin isoforms are expressed in photoreceptors of canine retinas undergoing retinal degeneration
Cited by: 3
Author(s): Raghavi Sudharsan, Leonardo Murgiano, Hsin‐Yao Tang, Timothy W. Olsen, Venkata R M Chavali, Gustavo D. Aguirre, William A. Beltran
Software Mentions: 1
Published: almost 4 years ago
10.1038/s41598-020-79005-7
Quantitative trait loci and transcriptome signatures associated with avian heritable resistance to Campylobacter
Cited by: 8
Author(s): Androniki Psifidi, Andreas Kranis, Lisa Rothwell, Abi Bremner, Kay Russell, Diego Robledo, Stephen J. Bush, Mark Fife, Paul Hocking, Georgios Banos, David Hume, Jim Kaufman, Richard Bailey, Santiago Avendaño, Kellie Watson, Pete Kaiser, Mark P. Stevens
Software Mentions: 1
Published: almost 4 years ago
10.1038/s41598-020-80653-y
Transfer of oral bacteria to the fetus during late gestation
Cited by: 4
Author(s): Kevin Yu, Michelle Rodriguez, Zubin Paul, Elizabeth M. Gordon, Tongjun Gu, Kelly C. Rice, Eric W. Triplett, Maureen Keller‐Wood, Charles E. Wood
Software Mentions: 1
Published: almost 4 years ago
10.1371/journal.pone.0134958
A Biochemical Approach to Understand the Pathogenesis of Advanced Pulmonary Arterial Hypertension: Metabolomic Profiles of Arginine, Sphingosine-1-Phosphate, and Heme of Human Lung
Cited by: 38
Author(s): Yidan Zhao, Lei Chu, Kathleen Watson Lin, Elise Granton, Li Yin, Jiming Peng, Michael Hsin, Licun Wu, Amy Yu, Thomas K. Waddell, Shaf Keshavjee, John Granton, Marc de Perrot
Software Mentions: 1
Published: about 9 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: almost 6 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: over 6 years ago
10.1371/journal.pone.0254709
Comparative transcriptome analysis of unripe and ripe banana (cv. Nendran) unraveling genes involved in ripening and other related processes
Cited by: 5
Author(s): Karambir Kaur, Praveen Awasthi, Siddharth Tiwari
Software Mentions: 1
Published: over 3 years ago
10.1371/journal.pone.0229030
Interaction of field realistic doses of clothianidin and Varroa destructor parasitism on adult honey bee (Apis mellifera L.) health and neural gene expression, and antagonistic effects on differentially expressed genes
Cited by: 26
Author(s): Nuria Morfin, Paul H. Goodwin, Ernesto Guzmán-Novoa
Software Mentions: 1
Published: almost 5 years ago
10.1038/s41598-021-81060-7
CD14+ monocytes repress gamma globin expression at early stages of erythropoiesis
Cited by: 2
Author(s): Steven Heshusius, Esther Heideveld, Marieke von Lindern, Emile van den Akker
Software Mentions: 1
Published: almost 4 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: over 3 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 4 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: over 4 years ago
10.21307/jofnem-2019-052
Genome Announcement: The Draft Genomes of Two Radopholus similis populations from Costa Rica
Cited by: 5
Author(s): Catherine L. Wram, Cedar Hesse, Sulochana K. Wasala, Dana K. Howe, Amy B. Peetz, Dee R. Denver, Danny A. Humphreys-Pereira, Inga A. Zasada
Software Mentions: 1
Published: almost 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 4 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: almost 5 years ago
10.1038/s41598-021-81774-8
Pericytes contribute to the islet basement membranes to promote beta-cell gene expression
Cited by: 21
Author(s): Lina Sakhneny, Alona Epshtein, Limor Landsman
Software Mentions: 1
Published: almost 4 years ago
10.1186/s12984-020-00790-3
A comprehensive scheme for the objective upper body assessments of subjects with cerebellar ataxia
Cited by: 11
Author(s): Ha Manh Tran, Khoa D. Nguyen, Pubudu N. Pathirana, Malcolm Horne, Laura Power, David J. Szmulewicz
Software Mentions: 1
Published: almost 4 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 3 years ago
10.1038/s41598-021-82658-7
Arrayed CRISPR reveals genetic regulators of tau aggregation, autophagy and mitochondria in Alzheimer’s disease model
Cited by: 11
Author(s): Lishu Duan, Mufeng Hu, Joseph A. Tamm, Yelena Y. Grinberg, Fang Shen, Yating Chai, Hualin Simon Xi, Lauren Gibilisco, Brinda Ravikumar, Vivek Gautam, Eric Karran, Matthew Townsend, Robert V. Talanian
Software Mentions: 1
Published: almost 4 years ago
10.1186/s12974-020-01842-0
Stress-induced NLRP3 inflammasome activation negatively regulates fear memory in mice
Cited by: 56
Author(s): Yuan Dong, Shuoshuo Li, Yiming Lu, Xiaoheng Li, Yuhe Liao, Zhixin Peng, Yunfeng Li, Lin Hou, Zengqiang Yuan, Jinbo Cheng
Software Mentions: 1
Published: over 4 years ago
10.1038/s41598-021-82737-9
Adaptor Template Oligo-Mediated Sequencing (ATOM-Seq) is a new ultra-sensitive UMI-based NGS library preparation technology for use with cfDNA and cfRNA
Cited by: 1
Author(s): Thomas L. Dunwell, Simon Christopher Dailey, Anine Larsen Ottestad, Jihang Yu, Philipp Becker, Sarah Scaife, Susan D. Richman, Henry M. Wood, Hayley L Slaney, Daniel Bottomley, Xiangsheng Yang, Hui Xiao, Sissel Gyrid Freim Wahl, Bjørn Henning Grønberg, Hong Dai, Guoliang Fu
Software Mentions: 1
Published: almost 4 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: over 7 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: almost 8 years ago
10.1371/journal.pone.0197105
Rapamycin-independent IGF2 expression in Tsc2-null mouse embryo fibroblasts and human lymphangioleiomyomatosis cells
Cited by: 7
Author(s): Blanca E. Himes, Kseniya Obraztsova, Lurong Lian, Maya Shumyatcher, Ryan W. Rue, Elena N. Atochina‐Vasserman, Stella K. Hur, Marisa S. Bartolomei, Jilly F. Evans, Vera P. Krymskaya
Software Mentions: 1
Published: over 6 years ago
10.1371/journal.pone.0130228
A Modelling Framework to Assess the Effect of Pressures on River Abiotic Habitat Conditions and Biota
Cited by: 19
Author(s): Jochem Kail, Björn Guse, Johannes Radinger, Maria Schröder, Jens Kiesel, Maarten G. Kleinhans, F. Schuurman, Nicola Fohrer, Daniel Hering, Christian Wolter
Software Mentions: 1
Published: over 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: almost 7 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 7 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 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 7 years ago
10.3390/ijms22189865
Alternative Splicing Regulation of Low-Frequency Genetic Variants in Exon 2 of TREM2 in Alzheimer’s Disease by Splicing-Based Aggregation
Cited by: 10
Author(s): Seonggyun Han, Yirang Na, Insong Koh, Kwangsik Nho, Younghee Lee
Software Mentions: 1
Published: about 3 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: almost 9 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: almost 4 years ago
10.1371/journal.pone.0127871
A Novel Chitin Binding Crayfish Molar Tooth Protein with Elasticity Properties
Cited by: 9
Author(s): Jenny Tynyakov, Shmuel Bentov, Shai Abehsera, Isam Khalaila, Rivka Manor, Lihie Katzir Abilevich, Shalva Weil, Eliahu D. Aflalo, Amir Sagi
Software Mentions: 1
Published: over 9 years ago
10.1038/s41598-021-84058-3
Adipose-derived mesenchymal stem cells differentiate into heterogeneous cancer-associated fibroblasts in a stroma-rich xenograft model
Cited by: 26
Author(s): Yoshihiro Miyazaki, Tatsuya Oda, Yuki Inagaki, Hiroko Kushige, Yutaka Saitō, Nobuhito Mori, Yoichiro Takayama, Yutaro Kumagai, Toutai Mitsuyama, Yasuyuki S. Kida
Software Mentions: 1
Published: over 3 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: over 8 years ago
10.1371/journal.pone.0224062
Correction: A comparative study of RNA-Seq and microarray data analysis on the two examples of rectal-cancer patients and Burkitt Lymphoma cells
Cited by: 0
Author(s): Alexander Wolff, Michaela Bayerlová, Jochen Gaedcke, Dieter Kube, Tim Beißbarth
Software Mentions: 1
Published: about 5 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 4 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: about 5 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 5 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
10.1186/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
10.1038/s41598-021-84981-5
ATP signaling in the integrative neural center of Aplysia californica
Cited by: 3
Author(s): János Győri, Andrea B. Kohn, Daria Y. Romanova, Leonid L. Moroz
Software Mentions: 1
Published: over 3 years ago
10.1038/s41375-018-0108-y
Kinase domain activation through gene rearrangement in multiple myeloma
Cited by: 26
Author(s): Gareth J. Morgan, Jie He, Ruslana G. Tytarenko, Purvi Patel, Owen Stephens, Shan Zhong, Shayu Deshpande, Michael Bauer, Niels Weinhold, Carolina Schinke, Leo Rasche, Mark Bailey, Siraj M. Ali, Jeff Ross, Vincent A. Miller, P. J. Stephens, Sharmilan Thanendrarajan, Maurizio Zangari, Frits van Rhee, Tariq I. Mughal, Faith E. Davies, Brian A. Walker
Software Mentions: 1
Published: over 6 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
10.1093/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: over 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
10.1093/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 4 years ago
10.1038/s41598-021-85704-6
Metabolomics analysis of follicular fluid coupled with oocyte aspiration reveals importance of glucocorticoids in primate periovulatory follicle competency
Cited by: 8
Author(s): Sweta Ravisankar, Kelsey E. Brooks, Mark K. Murphy, Nash Redmayne, Jae-Yong Ryu, Jason M. Kinchen, Shawn L. Chavez, Jon D. Hennebold
Software Mentions: 1
Published: over 3 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
10.1038/s41375-020-01043-x
IDH1/2 mutations in acute myeloid leukemia patients and risk of coronary artery disease and cardiac dysfunction—a retrospective propensity score analysis
Cited by: 24
Author(s): Badder Kattih, Amir Shirvani, Piroska Klement, Abel Martin Garrido, Razif Gabdoulline, Alessandro Liebich, Maximilian Brandes, Anuhar Chaturvedi, Timon Seeger, Felicitas Thol, Gudrun Göhring, Brigitte Schlegelberger, Robert Geffers, David John, Udo Bavendiek, Johann Bauersachs, Arnold Ganser, Joerg Heineke, Michael Heuser
Software Mentions: 1
Published: about 4 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
10.1371/journal.pone.0218381
Transcriptome analysis identified aberrant gene expression in pollen developmental pathways leading to CGMS in cotton (Gossypium hirsutum L.)
Cited by: 20
Author(s): Rasmieh Hamid, Hassan Marashi, R. S. Tomar, Saeid Malekzadeh-Shafaroudi, Pritesh Sabara
Software Mentions: 1
Published: over 5 years ago
10.1371/journal.pone.0250149
Estimating COVID-19 cases in Makkah region of Saudi Arabia: Space-time ARIMA modeling
Cited by: 25
Author(s): Fuad A. Awwad, Moataz A. Mohamoud, Mohamed R. Abonazel
Software Mentions: 1
Published: over 3 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
10.1371/journal.pone.0169614
Expression of Calgranulin Genes S100A8, S100A9 and S100A12 Is Modulated by n-3 PUFA during Inflammation in Adipose Tissue and Mononuclear Cells
Cited by: 22
Author(s): Rachana Shah, Chenyi Xue, Hanrui Zhang, Sony Tuteja, Mingyao Li, Muredach P. Reilly, Jane F. Ferguson
Software Mentions: 1
Published: almost 8 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
10.1038/s41598-021-86908-6
CDC2-like (CLK) protein kinase inhibition as a novel targeted therapeutic strategy in prostate cancer
Cited by: 15
Author(s): Simon Uzor, Sean Porazinski, Ling Li, Bethany Clark, Masahiko Ajiro, Kei Iida, Masatoshi Hagiwara, Abdullah A. Alqasem, Claire M Perks, Ian Wilson, Sebastian Oltean, Michael Ladomery
Software Mentions: 1
Published: over 3 years ago
10.1038/s41598-021-87353-1
The impact of indole-3-lactic acid on immature intestinal innate immunity and development: a transcriptomic analysis
Cited by: 17
Author(s): Wuyang Huang, Ky Young Cho, Di Meng, W. Allan Walker
Software Mentions: 1
Published: over 3 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