Bovo, Samuele Schiavo, Giuseppina Ribani, Anisa Utzeri, Valerio J. Taurisano, Valeria Ballan, Mohamad Muñoz, Maria Alves, Estefania Araujo, Jose P. Bozzi, Riccardo
...
Published in
Scientific Reports
Coronaviruses silently circulate in human and animal populations, causing mild to severe diseases. Therefore, livestock are important components of a “One Health” perspective aimed to control these viral infections. However, at present there is no example that considers pig genetic resources in this context. In this study, we investigated the varia...
Chalifour, Bridget Li, Jingchun
Published in
Animal Microbiome
BackgroundThe Rocky Mountainsnail (Oreohelix strigosa) is a terrestrial gastropod of ecological importance in the Rocky Mountains of western United States and Canada. Across the animal kingdom, including in gastropods, gut microbiomes have profound effects on the health of the host. Current knowledge regarding snail gut microbiomes, particularly th...
Xia, Peiyi Zhang, Lan Li, Pan Liu, Enjie Li, Wencai Zhang, Jianying Li, Hui Su, Xiaoxing Jiang, Guozhong
Published in
Journal of Translational Medicine
BackgroundComplex kinase rearrangement, a mutational process involving one or two chromosomes with clustered rearrangement breakpoints, interferes with the accurate detection of kinase fusions by DNA-based next-generation sequencing (NGS). We investigated the characteristics of complex ALK rearrangements in non-small cell lung cancers using multipl...
Lopes, Déborah Romaskevis Gomes de Souza Duarte, Márcio La Reau, Alex J. Chaves, Ibrahim Zuniga de Oliveira Mendes, Tiago Antônio Detmann, Edenio Bento, Cláudia Braga Pereira Mercadante, Maria Eugênia Zerlotti Bonilha, Sarah Figueiredo Martins Suen, Garret
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Published in
Journal of Animal Science and Biotechnology
BackgroundRuminants rely upon a complex community of microbes in their rumen to convert host-indigestible feed into nutrients. However, little is known about the association between the rumen microbiota and feed efficiency traits in Nellore (Bos indicus) cattle, a breed of major economic importance to the global beef market. Here, we compare the co...
Kameoka, Shoichiro Motooka, Daisuke Watanabe, Satoshi Kubo, Ryuichi Jung, Nicolas Midorikawa, Yuki Shinozaki, Natsuko O. Sawai, Yu Takeda, Aya K. Nakamura, Shota
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Published in
BMC Genomics
Background16S rRNA gene amplicon sequencing (16S analysis) is widely used to analyze microbiota with next-generation sequencing technologies. Here, we compared fecal 16S analysis data from 192 Japanese volunteers using the modified V1–V2 (V12) and the standard V3–V4 primer (V34) sets to optimize the gut microbiota analysis protocol.ResultsQIIME1 an...
Wang, Biao Yang, Bin Wu, Wei Liu, Xuan Li, Haiqian
Published in
BMC Cancer
The purpose of this study was to analyze the association between next-generation sequencing (NGS) genotypic profiles and conventional clinicopathologic characteristics in patients with acute myeloid leukemia (AML) with NPM1 mutation (NPM1mut). We selected 238 NPM1mut patients with available NGS information on 112 genes related to blood diseases usi...
Goren, Emily Wang, Chong He, Zhulin Sheflin, Amy M. Chiniquy, Dawn Prenni, Jessica E. Tringe, Susannah Schachtman, Daniel P. Liu, Peng
Published in
BMC Bioinformatics
BackgroundMicrobiome studies have uncovered associations between microbes and human, animal, and plant health outcomes. This has led to an interest in developing microbial interventions for treatment of disease and optimization of crop yields which requires identification of microbiome features that impact the outcome in the population of interest....
Bill, Marius Mrózek, Krzysztof Giacopelli, Brian Kohlschmidt, Jessica Nicolet, Deedra Papaioannou, Dimitrios Eisfeld, Ann-Kathrin Kolitz, Jonathan E. Powell, Bayard L. Carroll, Andrew J.
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Published in
Journal of Hematology & Oncology
Recently, a novel knowledge bank (KB) approach to predict outcomes of individual patients with acute myeloid leukemia (AML) was developed using unbiased machine learning. To validate its prognostic value, we analyzed 1612 adults with de novo AML treated on Cancer and Leukemia Group B front-line trials who had pretreatment clinical, cytogenetics, an...
Escudeiro, Carla Pinto, Carla Vieira, Joana Peixoto, Ana Pinto, Pedro Pinheiro, Manuela Santos, Catarina Guerra, Joana Lisboa, Susana Santos, Rui
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Published in
Familial cancer
Breast cancer is the most frequent event in Li-Fraumeni syndrome associated with germline TP53 variants. Some studies have shown that breast cancers in women with Li-Fraumeni syndrome are commonly HER2-positive, suggesting that HER2 amplification or over-expression in a young woman may be a useful criterion to test for germline variants in the TP53...
Liu, Chang
Published in
Human immunology
Next-generation sequencing (NGS) has been widely adopted for clinical HLA typing and advanced immunogenetics researches. Current methodologies still face challenges in resolving cis-trans ambiguity involving distant variant positions, and the turnaround time is affected by testing volume and batching. Nanopore sequencing may become a promising addi...
