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Amarjit Saini, Linda Björkhem-Bergman, Johan Boström, Mats Lilja, Michael Melin, Karl Olsson, Lena Ekström, Peter Bergman, Mikael Altun, Eric Rullman and Thomas Gustafsson

primary human myoblasts should be less pronounced with the CC genotype, as a consequence of altered vitamin D-regulated molecular signalling. By analysing the cellular response in relation to altered gene expression using RNA sequencing (RNA-seq), we also

Open access

Lianghui You, Yan Wang, Yao Gao, Xingyun Wang, Xianwei Cui, Yanyan Zhang, Lingxia Pang, Chenbo Ji, Xirong Guo and Xia Chi

detected in our RNA-seq. RNA-sequencing has the advantage of quantifying low-abundance miRNAs without prior sequence knowledge ( 51 ), facilitating a more accurate determination and quantification of ‘unknown’ miRNAs expressed in BAT or miRNAs responsive to

Open access

Elisabet Einarsdottir, Minna Pekkinen, Kaarel Krjutškov, Shintaro Katayama, Juha Kere, Outi Mäkitie and Heli Viljakainen

. This was followed by RNA sequencing using a modified version of the single-cell tagged reverse transcription (STRT) method ( 15 ) described in detail elsewhere ( 16 ). Sequencing The Illumina-compatible library pool was sequenced on four lanes

Open access

June Young Choi, Jin Wook Yi, Jun Hyup Lee, Ra-Yeong Song, Hyeongwon Yu, Hyungju Kwon, Young Jun Chai, Su-jin Kim and Kyu Eun Lee

, somatic mutations and gene expression data derived from RNA sequencing. Pathologic data were re-evaluated using scanned images of the paper-written pathologic documents provided by TCGA-associated hospitals. PTC subtype classification and MACIS scores were

Open access

Stefano Mangiola, Ryan Stuchbery, Patrick McCoy, Ken Chow, Natalie Kurganovs, Michael Kerger, Anthony Papenfuss, Christopher M Hovens and Niall M Corcoran

paired-end reads per sample. Data pre-processing and mapping The RNA-sequencing quality for each sample was controlled using the FastQC algorithm ( 25 ). Reads were trimmed for Illumina adapters and low-quality fragments using the Trimmomatic

Open access

Kylie D Rock, Brian Horman, Allison L Phillips, Susan L McRitchie, Scott Watson, Jocelin Deese-Spruill, Dereje Jima, Susan Sumner, Heather M Stapleton and Heather B Patisaul

adipogenesis. To probe these and other possible modes of action including disruption of 5-HT production and placental inflammation, we employed a diverse range of hypothesis-generating (RNA sequencing and untargeted metabolomics) and targeted (quantitative real

Open access

Jordyn Silverstein, Wesley Kidder, Susan Fisher, Thomas A Hope, Samantha Maisel, Dianna Ng, Jessica Van Ziffle, Chloe E Atreya and Katherine Van Loon

pathogenesis of CRC during pregnancy. The lack of ER and PR expression is further supported by The Cancer Genome Atlas RNA sequencing data for CRC ( 34 ). In evaluating the molecular profiles of the tumors, the most common mutations were in TP53, APC and KRAS

Open access

Anello Marcello Poma, Riccardo Giannini, Paolo Piaggi, Clara Ugolini, Gabriele Materazzi, Paolo Miccoli, Paolo Vitti and Fulvio Basolo

.1089/thy.2016.0605 ) 27 Ritchie ME Phipson B Wu D Hu Y Law CW Shi W Smyth GK. limma powers differential expression analyses for RNA-sequencing and microarray studies . Nucleic Acids Research 2015 43 e47 . ( https

Open access

Barbora Pekova, Sarka Dvorakova, Vlasta Sykorova, Gabriela Vacinova, Eliska Vaclavikova, Jitka Moravcova, Rami Katra, Petr Vlcek, Pavla Sykorova, Daniela Kodetova, Josef Vcelak and Bela Bendlova

unknown; therefore, further investigation is required, for example in PTEN or PIK3CA genes, in which somatic mutations in pediatric PTCs were detected ( 22 ). Furthermore, other fusion genes need to be identified by RNA sequencing, and copy number

Open access

Yali Cheng, Qiaoying Lv, Bingying Xie, Bingyi Yang, Weiwei Shan, Chengcheng Ning, Bing Li, Liying Xie, Chao Gu, Xuezhen Luo, Xiaojun Chen and Qin Zhu

://gepia.cancer-pku.cn ), which could analyze the RNA sequencing expression data of 23 types of cancers and normal samples from the TCGA according to the standard processing pipeline. Statistical analysis SPSS 19.0 (IBM SPSS Software) was used for statistics. Unpaired t