Expanding Viral Diversity in Rice Fields by Next-Generation Sequencing by Wang Haoran, Chen Guoqing, Feng Guozhong

Subjects: “…next-generation sequencing…”
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Developing transcriptomic biomarkers for TAVO412 utilizing next generation sequencing analyses of preclinical tumor models by Ying Jin, Peng Chen, Huajun Zhou, Guangmao Mu, Simin Wu, Zhengxia Zha, Bin Ma, Chao Han, Mark L. Chiu, Mark L. Chiu

“…ConclusionsIn implementing precision medicine by leveraging preclinical model data, a predictive transcriptomic biomarker empowered by next-generation sequencing was identified that could optimize the selection of patients that may benefit most from TAVO412 treatment. …”
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New insights into the phylogeny and infrageneric taxonomy of Saussurea based on hybrid capture phylogenomics (Hyb-Seq) by Liansheng Xu, Zhuqiu Song, Tian Li, Zichao Jin, Buyun Zhang, Siyi Du, Shuyuan Liao, Xingjie Zhong, Yousheng Chen

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Fast In-House Next-Generation Sequencing in the Diagnosis of Metastatic Non-small Cell Lung Cancer: A Hospital Budget Impact Analysis by Ubong Silas, Maximilian Blüher, Antonia Bosworth Smith, Rhodri Saunders

“…**Objective:** To investigate the impact of a next-generation sequencing (NGS) machine in the hospital that would allow for in-house NGS testing of metastatic non-small cell lung cancer (mNSCLC) in a US setting. …”
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Editorial: Consanguinity and rare genetic neurological diseases by Suzanne Lesage, Mustafa A. Salih

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Diagnostic Accuracy of Next Generation Sequencing Panel using Circulating Tumor DNA in Patients with Advanced Non-Small Cell Lung Cancer: A Systematic Review and Meta-Analysis by Mariana M. Sebastião, Rodrigo S. Ho, João Paulo V. de Carvalho, Micha Nussbaum

“…**Background/Objectives:** Until now, no meta-analysis has been published to evaluate the diagnostic performance of next-generation sequencing (NGS) panel using circulating tumor (ctDNA) in patients with advanced non-small cell lung cancer (aNSCLC). …”
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Genetics in prenatal diagnosis by Karen Mei Xian Lim, Aniza Puteri Mahyuddin, Arundhati Tushar Gosavi, Mahesh Choolani

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Homologous recombination deficiency test validation in patients with high-grade advanced ovarian cancer by Angelica Nogueira Rodrigues, Andreza Karine de Barros Almeida Souto, Diocésio Alves Pinto de Andrade, Larissa Müller Gomes, Sandra Satie Koide, Renata de Godoy e Silva, Bruno Batista de Souza, Juliana Doblas Massaro, Andréia Cristina de Melo, Andrea Morais Borges, Camila Giro, Carlos Augusto Vasconcelos de Andrade, Cesar Martins da Costa, Daniel Luiz Gimenes, Eduardo Caminha Bandeira de Mello, Fernanda Cesar de Oliveira, Frederico Müller de Toledo Lima, Gabriel Lima Lopes, Gustavo de Oliveira Bretas, Gustavo Guerra Jacob, Herika Lucia da Costa Silva, Juliana Ferrari Notaro, Lara Ladislau Alves, Marcos Veloso Moitinho, Mirian Cristina da Silva, Roberto Abramoff, Thais Amaral da Cunha Rauber, Rodrigo Dienstmann, Fernanda Christtanini Koyama

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Genomic analysis of the SMN1 gene region in patients with clinically diagnosed spinal muscular atrophy: a retrospective observational study by Tamaki Kato, Mamoru Yokomura, Yutaka Osawa, Kensuke Matsuo, Yuji Kubo, Taihei Homma, Kayoko Saito

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Advanced NGS analysis of cell-free tumor DNA supports clonal relation to primary high-grade B-cell lymphoma lesion and CNS relapse despite MRI negativity by Veronika Navrkalova, Andrea Mareckova, Jakub Porc, Samuel Hricko, Viera Hrabcakova, Jarmila Kissova, Sona Kundova, Marie Jarosova, Sarka Pospisilova, Jana Kotaskova, Andrea Janikova

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A case report of confirmed difficult pulmonary tuberculosis based on the hybrid capture-based tNGS method by Weiqian Chen, Huimin Chen, Ze Liu, Xinle Chi, Yaomeng Chen, Huan Ye, Wenjie Huang, Chenlei Cao, Wei Weng

“…Currently, with the increasing popularity, iteration, and decreasing costs of Next-generation sequencing (NGS) testing technology, NGS is being more widely applied in the diagnosis of pulmonary tuberculosis. …”
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Assembly-free reads accurate identification (AFRAID) approach outperforms other methods of DNA barcoding in the walnut family (Juglandaceae) by Yanlei Liu, Kai Chen, Lihu Wang, Xinqiang Yu, Chao Xu, Zhili Suo, Shiliang Zhou, Shuo Shi, Wenpan Dong

“…Our method, which uses next generation sequencing to generate partial chloroplast genomes, reveals that DNA barcode regions are not necessarily fixed, accelerating the process of species identification.…”
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Pengkontruksian Bidirected Overlap Graph untuk Perakitan Sekuens DNA by Wisnu Ananta Kusuma, Albert Adrianus

“…Tahapan ini diperlukan untuk merakit atau menyambungkan kembali fragmen-fragmen DNA (reads) yang dihasilkan oleh Next Generation Sequencing menjadi genom yang utuh. Masalah perakitan DNA ini dapat direpresentasikan sebagai masalah Shortest Common Superstring (SCS). …”
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A stratified two-stage tumor molecular profiling algorithm to identify clinically actionable molecular alterations in pancreatic cancer☆ by S. Hussung, D. Akhoundova, C. Pistoni, D. Lenggenhager, A. Töpfer, C. Pauli, B. Pestalozzi, C. Britschgi, M. Zoche, M. Rechsteiner, H. Moch, A. Weber, R. Fritsch

“…Moreover, the magnitude of benefit and the cost-effectiveness of comprehensive next-generation sequencing panels for PC are under debate. Materials and methods: We implemented a stratified two-stage TMP algorithm for advanced PC. …”
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T-cell receptor beta variable gene polymorphism predicts immune-related adverse events during checkpoint blockade immunotherapy by Linghua Wang, Siqing Fu, Aung Naing, Funda Meric-Bernstam, Carl Morrison, Joud Hajjar, Mingxuan Xu, Anas Alshawa, Bettzy Stephen, Ying Yuan, Jordi Rodon Ahnert, Abdulrazzak Zarifa, Shrutii Sarda, Timothy Looney, Sapna P Patel, Geoffrey M Lowman, Dzifa Yawa Duose, Jeffrey M Conroy, Evan Kwiatkowski

“…However, the repetitive nature of the TCRB locus and incomplete genome assembly has hampered the evaluation of TRBV polymorphisms in the past.Patients and methods We used a novel method for long-amplicon next generation sequencing of rearranged TCRB chains from peripheral blood total RNA to evaluate the link between TRBV polymorphisms and irAEs in patients treated with immunotherapy for cancer. …”
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Melanoma genomics – will we go beyond BRAF in clinics? by Justyna Mirek, Wiesław Bal, Magdalena Olbryt

“…Abstract In the era of next-generation sequencing, the genetic background of cancer, including melanoma, appears to be thoroughly established. …”
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Acute Necrotizing Fasciitis Caused by Rhizopus Infection in a Patient with Diabetes and Pulmonary Tuberculosis: A Case Report by Huang X, Qiu J, Pan L, Wang C, Tang C

“…Metagenomic next-generation sequencing (mNGS) facilitated a swift diagnosis, identifying R. oryzae in blood and drainage samples. …”
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Comparison of Endometrial Microbiota Results Between Patients with Unexplained Infertility and Fertile Patients through 16s rRNA Sequencing by Gonca Ozten Dere, Cagman Tan, Sezcan Mumusoglu, Pinar Zarakolu, Gurkan Bozdag

“…Endometrial samples were collected and analyzed through next-generation sequencing of the bacteria-specific 16S ribosome gene. …”
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GLI1-altered mesenchymal tumor involving the parietal pleura: case report and literature review by Yuanli Zhong, Baizhou Li, Gangping Wang, Yuqing Liu, Zhenwei Chen

“…Immunohistochemical staining demonstrated positivity for CD56, S-100, and SMA. Next-generation sequencing (NGS) revealed a PTCH1-GLI1 fusion. …”
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Tracking the genetic diversity of SARS-CoV-2 variants in Nicaragua throughout the COVID-19 pandemic by Gerald Vásquez Alemán, Cristhiam Cerpas, Jose G. Juarez, Hanny Moreira, Sonia Arguello, Josefina Coloma, Eva Harris, Aubree Gordon, Shannon N. Bennett, Ángel Balmaseda

“…This study characterizes the genomic diversity of SARS-CoV-2 in Nicaragua from March 2020 through December 2022, utilizing 1064 genomes obtained via next-generation sequencing. These sequences were selected nationwide and analyzed for variant classification, lineage predominance, and phylogenetic diversity. …”
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