cran: STAR | Projects | Ecosyste.ms: Papers

10.3390/cancers12123693

Proper Read Filtering Method to Adequately Analyze Whole-Transcriptome Sequencing and RNA Based Immune Repertoire Sequencing Data for Tumor Milieu Research
Cited by: 1
Author(s): Sung Young Lee, Seulki Song, Sung Soo Yoon, Youngil Koh, Hongseok Yun
Software Mentions: 1
Published: almost 6 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

10.1186/s13148-015-0087-z

Epigenetic reprogramming of melanoma cells by vitamin C treatment
Cited by: 69
Author(s): Christopher B. Gustafson, Chao Yang, Kevin M. Dickson, Hongwei Shao, Derek Van Booven, J. William Harbour, Zhao Jun Liu, Gaofeng Wang
Software Mentions: 1
Published: over 11 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

10.1186/s12967-021-02837-y

The role of transcriptomic biomarkers of endometrial receptivity in personalized embryo transfer for patients with repeated implantation failure
Cited by: 23
Author(s): Anbang He, Yangyun Zou, Cheng Wan, Jing Zhao, Qiong Zhang, Zhongyuan Yao, Tian Fen, Hong Wu, Xi Huang, Jing Fu, Chunxu Hu, Yue Sun, Lanbo Xiao, Tianli Yang, Zhaojuan Hou, Xin Dong, Sijia Lü, Yanping Li
Software Mentions: 1
Published: over 5 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

10.1523/JNEUROSCI.0986-17.2017

Graded Elevation of c-Jun in Schwann CellsIn Vivo: Gene Dosage Determines Effects on Development, Remyelination, Tumorigenesis, and Hypomyelination
Cited by: 62
Author(s): Shaline V. Fazal, Jose A. Gomez-Sanchez, Laura Wagstaff, Nicolò Musner, G. Otto, Martin Janz, Rhona Mirsky, Kristján R. Jessen
Software Mentions: 1
Published: almost 9 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 5 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

10.1186/1471-2199-11-48

High-affinity consensus binding of target RNAs by the STAR/GSG proteins GLD-1, STAR-2 and Quaking
Cited by: 12
Author(s): Andrew B. Carmel, Jerry Wu, Katrina A. Lehmann-Blount, James R. Williamson
Software Mentions: 1
Published: almost 17 years ago

10.3389/fcell.2020.581882

Mitochondrial RNA in Alzheimer’s Disease Circulating Extracellular Vesicles
Cited by: 26
Author(s): Kyoung Mi Kim, Qiong Meng, Olivia Perez de, Maja Mustapić, Ann‐Lii Cheng, Erden Eren, Gautam Kundu, Yulan Piao, Rachel Munk, William H. Wood, Supriyo De, Ji Heon Noh, Michaël Delannoy, Lesley Cheng, Kotb Abdelmohsen, Dimitrios Kapogiannis, Myriam Gorospe
Software Mentions: 1
Published: almost 6 years ago

10.1186/s13148-021-01023-7

BRG1 knockdown inhibits proliferation through multiple cellular pathways in prostate cancer
Cited by: 11
Author(s): Katherine A. Giles, Cathryn M. Gould, Joanna Achinger-Kawecka, Scott G. Page, Georgia R. Kafer, Samuel Rogers, Phuc-Loi Luu, Anthony J. Cesare, Susan J. Clark, Phillippa C. Taberlay
Software Mentions: 1
Published: over 5 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

10.4274/jtgga.galenos.2021.2020.0187

Hey Siri! Perform a type 3 hysterectomy. Please watch out for the ureter!” What is autonomous surgery and what are the latest developments?
Cited by: 4
Author(s): İsmail Burak Gültekin, Emine Karabük, Mehmet Köse
Software Mentions: 1
Published: over 5 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

10.3390/v13010050

Astrovirus-Associated Polioencephalomyelitis in an Alpaca
Cited by: 9
Author(s): Leonore Küchler, Isabelle Rüfli, Michel C. Koch, Melanie M. Hierweger, Ronja V. Kauer, Céline Louise Boujon, Monika Hilbe, Anna Oevermann, Patrik Zanolari, Torsten Seuberlich, Corinne Gurtner
Software Mentions: 1
Published: almost 6 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: almost 10 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 10 years ago

10.3389/fcell.2019.00289

Genome-Wide Analysis of Circular RNAs Mediated ceRNA Regulation in Porcine Embryonic Muscle Development
Cited by: 37
Author(s): Linjun Hong, Tao Gu, Yanjuan He, Chunmei Zhou, Qun Hu, Xingwang Wang, Enqin Zheng, Sixiu Huang, Zheng Xu, Jie Yang, Huaqiang Yang, Zicong Li, Dewu Liu, Guangyan Cai, Zhenfang Wu
Software Mentions: 1
Published: almost 7 years ago

10.1155/2020/6065736

Identification of a Modified HOXB9 mRNA in Breast Cancer
Cited by: 1
Author(s): Ayako Nakashoji, Tetsu Hayashida, Yuko Kawai, Masayuki Kikuchi, Rurina Watanuki, Takamichi Yokoe, Tomoko Seki, Maiko Takahashi, Kazuhiro Miyao, Shigeo Yamaguchi, Yuko Kitagawa
Software Mentions: 1
Published: over 6 years ago

10.1016/j.isci.2018.11.012

Ultradian Rhythms in the Transcriptome of Neurospora crassa
Cited by: 14
Author(s): Bharath Ananthasubramaniam, Axel Diernfellner, Michael Brunner, Hanspeter Herzel
Software Mentions: 1
Published: almost 8 years ago

10.3390/v12090952

Kaposi’s Sarcoma-Associated Herpesvirus Reactivation by Targeting of a dCas9-Based Transcription Activator to the ORF50 Promoter
Cited by: 3
Author(s): Endrit Elbasani, Francesca Falasco, Silvia Gramolelli, Veijo Nurminen, Thomas Guenther, Jere Weltner, Diego Balboa, Adam Grundhoff, Timo Otonkoski, Päivi M. Ojala
Software Mentions: 1
Published: about 6 years ago

10.3389/fgene.2021.700469

Identification of Candidate Genes Regulating the Seed Coat Color Trait in Sesame (Sesamum indicum L.) Using an Integrated Approach of QTL Mapping and Transcriptome Analysis
Cited by: 8
Author(s): Chun Li, Yinghui Duan, Hongmei Miao, Ming Jun, Libin Wei, Haiyang Zhang
Software Mentions: 1
Published: about 5 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

10.1038/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

10.3389/fcell.2021.602450

Onecut Regulates Core Components of the Molecular Machinery for Neurotransmission in Photoreceptor Differentiation
Cited by: 4
Author(s): Quirino Attilio Vassalli, Chiara Colantuono, Valeria Nittoli, Anna Ferraioli, Giulia Fasano, Federica Berruto, Maria Luisa Chiusano, Robert N. Kelsh, Paolo Sordino, Annamaria Locascio
Software Mentions: 1
Published: over 5 years ago

10.3390/v12070710

Bioinformatics Pipeline for Human Papillomavirus Short Read Genomic Sequences Classification Using Support Vector Machine
Cited by: 4
Author(s): Alexandre Lomsadze, Tengguo Li, Mangalathu S. Rajeevan, Elizabeth R. Unger, Mark Borodovsky
Software Mentions: 1
Published: over 6 years ago

10.1016/j.isci.2020.101698

The Rigor and Transparency Index Quality Metric for Assessing Biological and Medical Science Methods
Cited by: 36
Author(s): Joe Menke, Martijn Roelandse, İbrahim Burak Özyurt, Maryann E. Martone, Anita Bandrowski
Software Mentions: 1
Published: almost 6 years ago

10.1186/s12864-020-6643-8

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

10.1038/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

10.3389/fcell.2021.663148

CircRNF111 Protects Against Insulin Resistance and Lipid Deposition via Regulating miR-143-3p/IGF2R Axis in Metabolic Syndrome
Cited by: 12
Author(s): Xihua Lin, Ying Du, Weina Lu, Weiwei Gui, Shuiya Sun, Yiyi Zhu, Gangliang Wang, Daniel Turunen Eserberg, Fenping Zheng, Jiaheng Zhou, Fang Wu, Hong Li
Software Mentions: 1
Published: about 5 years ago

10.1186/s12874-019-0895-5

Using research networks to generate trustworthy qualitative public health research findings from multiple contexts
Cited by: 14
Author(s): Lot Nyirenda, Meghan Bruce Kumar, Sally Theobald, Malabika Sarker, Musonda Simwinga, Moses Kumwenda, Cheryl Johnson, Karin Hatzold, Elizabeth L. Corbett, Euphemia L Sibanda, Miriam Taegtmeyer
Software Mentions: 1
Published: over 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 9 years ago

10.1186/s12911-021-01476-z

What matters when exploring fidelity when using health IT to reduce disparities?
Cited by: 3
Author(s): Margaret A. Handley, Jenifer Landeros, Cindie Wu, Adriana Najmabadi, Daniela Vargas, Priyanka Athavale
Software Mentions: 1
Published: over 5 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

10.7554/eLife.44702

CNS myelination and remyelination depend on fatty acid synthesis by oligodendrocytes
Cited by: 82
Author(s): Penelope Dimas, Laura Montani, Jorge A. Pereira, Daniel Antunes Moreno, Martin Trötzmüller, Joanne Gerber, Clay F. Semenkovich, Harald Köfeler, Ueli Suter
Software Mentions: 1
Published: over 7 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

10.1186/s12911-018-0680-0

SwissMTB: establishing comprehensive molecular cancer diagnostics in Swiss clinics
Cited by: 17
Author(s): Franziska Singer, Anja Irmisch, Nora C. Toussaint, Linda Grob, Jochen Singer, Thomas Thurnherr, Niko Beerenwinkel, Mitchell P. Levesque, Reinhard Dummer, Luca Quagliata, Sacha I. Rothschild, Andreas Wicki, Christian Beisel, Daniel J. Stekhoven
Software Mentions: 1
Published: almost 8 years ago

10.7554/eLife.39304

An ancient germ cell-specific RNA-binding protein protects the germline from cryptic splice site poisoning
Cited by: 20
Author(s): Ingrid Ehrmann, James H Crichton, Matthew R. Gazzara, Katherine James, Yilei Liu, Sushma Nagaraja Grellscheid, Tomaž Curk, Dirk G. de Rooij, Jannetta S. Steyn, Simon Cockell, Ian R. Adams, Yoseph Barash, David Elliott
Software Mentions: 1
Published: over 7 years ago

10.3389/fgene.2020.00173

Computational Detection of Known Pathogenic Gene Fusions in a Normal Tissue Database and Implications for Genetic Disease Research
Cited by: 6
Author(s): Gavin R. Oliver, Garrett Jenkinson, Eric W. Klee
Software Mentions: 1
Published: over 6 years ago

10.1098/rsob.180110

mmi1 and rep2 mRNAs are novel RNA targets of the Mei2 RNA-binding protein during early meiosis in Schizosaccharomyces pombe
Cited by: 11
Author(s): K. Mukherjee, Bruce Futcher, Janet Leatherwood
Software Mentions: 1
Published: about 8 years ago

10.3390/v12030327

Metagenomic Detection of Two Vientoviruses in a Human Sputum Sample
Cited by: 10
Author(s): Fernando Lázaro-Perona, Elias Dahdouh, Sergio Román-Soto, Sonia Jiménez-Rodríguez, Carlos Rodríguez-Antolín, Fernando Calle, Alexander Agrifoglio, Francisco Javier Membrillo, Julio García-Rodríguez, Jesús Mingorance
Software Mentions: 1
Published: over 6 years ago

10.1186/s12863-019-0765-5

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

10.1186/1471-2407-10-566

Raloxifene inhibits tumor growth and lymph node metastasis in a xenograft model of metastatic mammary cancer
Cited by: 14
Author(s): Masa‐Aki Shibata, Junji Morimoto, Eiko Shibata, Hitomi Kurose, Kanako Akamatsu, Zhong‐Lian Li, Moriaki Kusakabe, Masahide Ohmichi, Yoshinori Otsuki
Software Mentions: 1
Published: almost 16 years ago

10.3389/fcell.2020.587107

Low-Level Mouse DNA in Conditioned Medium Generates False Positive Cross-Species Contamination Results in Human Organoid Cultures
Cited by: 2
Author(s): Margaret S Bohm, Michael K. Dame, Joseph R. Boyd, Kevin Su, Angeline Wu, Durga Attili, Vi Chu, Justin A. Colacino, Jason R. Spence
Software Mentions: 1
Published: almost 6 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 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: over 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: over 9 years ago

10.3390/v12010071

Single-Cell Analysis Uncovers a Vast Diversity in Intracellular Viral Defective Interfering RNA Content Affecting the Large Cell-to-Cell Heterogeneity in Influenza A Virus Replication
Cited by: 19
Author(s): Sascha Young Kupke, Lam-Ha Ly, Stefan T. Börno, Alexander Ruff, Bernd Timmermann, Martin Vingron, Stefan A. Haas, Udo Reichl
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: about 9 years ago

10.1016/j.isci.2021.103013

Brain hierarchy score: Which deep neural networks are hierarchically brain-like?
Cited by: 29
Author(s): Soma Nonaka, Kei Majima, Shuntaro C. Aoki, Yukiyasu Kamitani
Software Mentions: 1
Published: about 5 years ago

10.3390/v11030287

Non-Pathogenic Mopeia Virus Induces More Robust Activation of Plasmacytoid Dendritic Cells than Lassa Virus
Cited by: 8
Author(s): Justine Schaeffer, Stéphanie Reynard, Xavier Carnec, Natalia Pietrosemoli, Marie‐Agnès Dillies, Sylvain Baize
Software Mentions: 1
Published: over 7 years ago

10.1016/j.isci.2021.103080

Prediction and identification of synergistic compound combinations against pancreatic cancer cells
Cited by: 2
Author(s): Yasaman KalantarMotamedi, Ran Joo Choi, Siang-Boon Koh, Jo L. Bramhall, Tai-Ping Fan, Andreas Bender
Software Mentions: 1
Published: about 5 years ago

10.1186/s12885-020-07081-z

MiR-34c downregulation leads to SOX4 overexpression and cisplatin resistance in nasopharyngeal carcinoma
Cited by: 18
Author(s): Pierre-Antoine Bissey, Mona Teng, Jacqueline H. Law, Wei Shi, Jeff Bruce, Valentin Petit, Sai Wah Tsao, Kenneth W. Yip, Feifei Liu
Software Mentions: 1
Published: over 6 years ago

Projects: cran: STAR

Science Score: 100/100

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Papers Mentioning STAR 5,759