Results 131 to 140 of about 273,042 (329)

Inferring processes underlying B-cell repertoire diversity

, 2015
We quantify the VDJ recombination and somatic hypermutation processes in human B-cells using probabilistic inference methods on high-throughput DNA sequence repertoires of human B-cell receptor heavy chains.
Aleksandra M. Walczak, Curtis G. Callan, Dunn-Walters DK, Janeway C, Quentin Marcou, Shapiro GS, Shiokawa S, Stryer L, Thierry Mora, Yuval Elhanati, Zachary Sethna   +10 more
core   +1 more source

A Unique Chimeric RNA: ERCC1‐iASPP Drives Benzo[a]pyrene‐Induced Lung Carcinogenesis via Dual Coding and Non‐Coding Mechanisms

Advanced Science, EarlyView.
The chimeric RNA ERCC1‐iASPP possesses dual coding and non‐coding functions, synergistically accelerating the process of cellular malignant transformation. Abstract Genetic variation at 19q13.3 critically modulates chemical carcinogen‐induced lung carcinogenesis, particularly in mediating the activity of benzo[a]pyrene (B[a]P), a major polycyclic ...
Mingming Shan, Mingyang Xiao, Liang Zhang, Shen Wang, Jiahang Wu, Kang Cao, Yujin Li, Guopei Zhang, Junwei Xie, Xiaobo Lu   +9 more
wiley   +1 more source

A mutate-and-map protocol for inferring base pairs in structured RNA

, 2013
Chemical mapping is a widespread technique for structural analysis of nucleic acids in which a molecule's reactivity to different probes is quantified at single-nucleotide resolution and used to constrain structural modeling.
CS Chow, D Moazed, DH Mathews, EE Regulski, JB Lucks, JG Underwood, JP Staley, KA Wilkinson, M Kertesz, M Mandal, N Kulshina, NB Leontis, P Cordero, P Cordero, P Rocca-Serra, P Tijerina, PJ Lukavsky, R Rydzanicz, RC Spitale, RF Gesteland, S Mitra, S Washietl, S Yoon, SA Mortimer, SE Wells, SM Vasa, SW Brostoff, VD Sood, W Kladwang, W Kladwang, W Kladwang, W Kladwang, Y Rhee   +32 more
core   +1 more source

Additional file 5: of Uncommon nucleotide excision repair phenotypes revealed by targeted high-throughput sequencing

, 2016
Clinical pictures of patients #8 (A) and #9 (B) (mutated in ERCC8(CSA)). (PPTX 403 kb)
Calmels, Nadège, Greff, Géraldine, Obringer, Cathy, Kempf, Nadine, Gasnier, Claire, Tarabeux, Julien, Miguet, Marguerite, Baujat, Geneviève, Bessis, Didier, Bretones, Patricia, Cavau, Anne, Digeon, Béatrice, Doco-Fenzy, Martine, Doray, Bérénice, Feillet, François, Gardeazabal, Jesus, Gener, Blanca, Julia, Sophie, Llano-Rivas, Isabel, Mazur, Artur, Michot, Caroline, Renaldo-Robin, Florence, Rossi, Massimiliano, Sabouraud, Pascal, Keren, Boris, Depienne, Christel, Muller, Jean, Jean-Louis Mandel, Laugel, Vincent   +28 more
openaire   +1 more source

HTGTS‐TCR‐Seq for Profiling of Mouse and Human T‐Cell Receptor α and β Gene Rearrangements and Diversity

Advanced Science, EarlyView.
HTGTS‐TCR‐seq is an efficient and cost‐effective method for profiling TCRα and TCRβ rearrangements using only a few primers. It captures both productive and nonproductive recombination events, minimizes primer bias, and reveals stage‐specific and age‐related repertoire changes in mice, as well as conserved features in human peripheral T cells ...
Rui Luo, Yawei Song, Meichen Wang, Longhao Zou, Fangtai Jiao, Tiange Yang, Guangchuan Wang, Zhuoyi Liang, Wei Wu, Hai‐Qiang Dai   +9 more
wiley   +1 more source

Metagenome sequencing-based strain-level and functional characterization of supragingival microbiome associated with dental caries in children

Journal of Oral Microbiology, 2019
Studies of the microbiome associated with dental caries have largely relied on 16S rRNA sequence analysis, which is associated with PCR biases, low taxonomic resolution, and inability to accurately study functions.
Nezar Noor Al-Hebshi, Divyashri Baraniya, Tsute Chen, Jennifer Hill, Sumant Puri, Marisol Tellez, Nur A. Hasan, Rita R. Colwell, Amid Ismail   +8 more
doaj   +1 more source

Comprehensive sequence-to-function mapping of cofactor-dependent RNA catalysis in the glmS ribozyme. [PDF]

, 2020
Massively parallel, quantitative measurements of biomolecular activity across sequence space can greatly expand our understanding of RNA sequence-function relationships. We report the development of an RNA-array assay to perform such measurements and its
Andreasson, Johan OL, Block, Steven M, Greenleaf, William J, Savinov, Andrew   +3 more
core  

The Tumor‐to‐Endothelial Transfer of FTO Promotes Vascular Remodeling and Metastasis in Nasopharyngeal Carcinoma

Advanced Science, EarlyView.
Integrated omics analysis of matched primary and liver metastatic NPC tumors reveals a unique NOTCH1+ CSC subpopulation exhibiting enhanced stemness properties and tumorigenic capacity. With in vitro and in vivo assays, exosomal transfer of tumor‐derived FTO from NOTCH1+ cells to the endothelium promotes vascular permeability and metastatic potential ...
Chun Wu, Xuefei Liu, Liwen Gu, Jingru Lian, Yuting Wang, Yixin Cheng, Lianhui Duan, Guanyin Huang, Siqi Chen, Boxi Zhao, Sailan Liu, Yufan Yang, Shuqian Zheng, Zijian Lu, Wanping Guo, Jianyang Hu, Wenjing Wang, Zhixiang Zuo, Haiqiang Mai, LinQuan Tang, Songfa Zhang, Feiqiu Wen, Xin Hong, Ling Guo   +23 more
wiley   +1 more source

The unseen world: environmental microbial sequencing and identification methods for ecologists [PDF]

, 2014
Archaea, bacteria, microeukaryotes, and the viruses that infect them (collectively “microorganisms”) are foundational components of all ecosystems, inhabiting almost every imaginable environment and comprising the majority of the planet’s organismal and ...
Aronson, Emma, Izard, Jacques, Klatt, Christian, Zhou, Jizhong, Zimmerman, Naupaka   +4 more
core   +1 more source

Additional file 7: of Uncommon nucleotide excision repair phenotypes revealed by targeted high-throughput sequencing

, 2016
Clinical picture and molecular results of patients #17 (mutated in ERCC3(XPB)). A: clinical picture of patient #17. B: Patient #17 reads alignment (thanks to Alamut Visual) showing that both mutations c.296 T > C and c.325C > T were never observed on the same read. Forward reads are in green and reverse reads are in blue. (PPTX 477 kb)
Calmels, Nadège, Greff, Géraldine, Obringer, Cathy, Kempf, Nadine, Gasnier, Claire, Tarabeux, Julien, Miguet, Marguerite, Baujat, Geneviève, Bessis, Didier, Bretones, Patricia, Cavau, Anne, Digeon, Béatrice, Doco-Fenzy, Martine, Doray, Bérénice, Feillet, François, Gardeazabal, Jesus, Gener, Blanca, Julia, Sophie, Llano-Rivas, Isabel, Mazur, Artur, Michot, Caroline, Renaldo-Robin, Florence, Rossi, Massimiliano, Sabouraud, Pascal, Keren, Boris, Depienne, Christel, Muller, Jean, Jean-Louis Mandel, Laugel, Vincent   +28 more
openaire   +1 more source