Results 41 to 50 of about 258,562 (263)

A Variable Polyglutamine Repeat Affects Subcellular Localization and Regulatory Activity of a Populus ANGUSTIFOLIA Protein. [PDF]

, 2018
Polyglutamine (polyQ) stretches have been reported to occur in proteins across many organisms including animals, fungi and plants. Expansion of these repeats has attracted much attention due their associations with numerous human diseases including ...
Barry, Kerrie, Bryan, Anthony C, Chen, Jin-Gui, Guo, Jianjun, Jacobson, Daniel, Jawdy, Sara, Muchero, Wellington, Ranjan, Priya, Schmutz, Jeremy, Singan, Vasanth, Tuskan, Gerald A, Weighill, Deborah, Zhang, Jin   +12 more
core   +1 more source

Characterizing the composition of iPSC derived cells from bulk transcriptomics data with CellMap

Scientific Reports, 2022
Induced pluripotent stem cell (iPSC) derived cell types are increasingly employed as in vitro model systems for drug discovery. For these studies to be meaningful, it is important to understand the reproducibility of the iPSC-derived cultures and their ...
Zhengyu Ouyang, Nathanael Bourgeois-Tchir, Eugenia Lyashenko, Paige E. Cundiff, Patrick F. Cullen, Ravi Challa, Kejie Li, Xinmin Zhang, Fergal Casey, Sandra J. Engle, Baohong Zhang, Maria I. Zavodszky   +11 more
doaj   +1 more source

Systematic comparison of single-cell and single-nucleus RNA-sequencing methods

Nature Biotechnology, 2020
The scale and capabilities of single-cell RNA-sequencing methods have expanded rapidly in recent years, enabling major discoveries and large-scale cell mapping efforts. However, these methods have not been systematically and comprehensively benchmarked.
Jiarui Ding, Xian Adiconis, Sean K. Simmons, Monika S. Kowalczyk, Cynthia C. Hession, Nemanja D. Marjanovic, Travis K. Hughes, Marc H. Wadsworth, Tyler Burks, Lan T. Nguyen, John Y. H. Kwon, Boaz Barak, William Ge, Amanda J. Kedaigle, Shaina Carroll, Shuqiang Li, Nir Hacohen, Orit Rozenblatt-Rosen, Alex K. Shalek, Alexandra-Chloé Villani, Aviv Regev, Joshua Z. Levin   +21 more
openaire   +3 more sources

Simultaneous profiling of transcriptome and DNA methylome from a single cell. [PDF]

, 2016
BackgroundSingle-cell transcriptome and single-cell methylome technologies have become powerful tools to study RNA and DNA methylation profiles of single cells at a genome-wide scale. A major challenge has been to understand the direct correlation of DNA
An, Qin, Du, Guizhen, Fan, Guoping, Hu, Ganlu, Hu, Youjin, Huang, Kevin, Wang, Cun-Yu, Xue, Jinfeng, Xue, Zhigang, Zhu, Xianmin   +9 more
core   +3 more sources

Characterization of nuclear polyadenylated RNA-binding proteins in Saccharomyces cerevisiae. [PDF]

, 1994
To study the functions of heterogeneous nuclear ribonucleoproteins (hnRNPs), we have characterized nuclear polyadenylated RNA-binding (Nab) proteins from Saccharomyces cerevisiae.
Datar, KV, Paddy, MR, Swanson, MS, Swedlow, JR, Wilson, SM   +4 more
core   +1 more source

FUS mutant human motoneurons display altered transcriptome and microRNA pathways with implications for ALS pathogenesis [PDF]

, 2017
The FUS gene has been linked to amyotrophic lateral sclerosis (ALS). FUS is a ubiquitous RNA-binding protein, and the mechanisms leading to selective motoneuron loss downstream of ALS-linked mutations are largely unknown.
Alfano, Vincenzo, Bozzoni, Irene, Colantoni, Alessio, DE SANTIS, Riccardo, DE TURRIS, Valeria, Peruzzi, Giovanna, Rosa, Alessandro, Santini, Laura   +7 more
core   +2 more sources

Integrative analyses of transcriptome sequencing identify novel functional lncRNAs in esophageal squamous cell carcinoma. [PDF]

, 2017
Long non-coding RNAs (lncRNAs) have a critical role in cancer initiation and progression, and thus may mediate oncogenic or tumor suppressing effects, as well as be a new class of cancer therapeutic targets. We performed high-throughput sequencing of RNA
Ai, B, Bai, X-F, Cao, H-H, Feng, C-C, He, J-Z, Huang, G-W, Koeffler, HP, Lei, F, Li, C-Q, Li, E-M, Li, M, Li, S, Li, X, Li, X-C, Liao, L-D, Lin, D-C, Liu, Y-J, Shen, J-H, Tang, Z-D, Wang, L-D, Wang, M-R, Wang, Q-Y, Wang, S-H, Wu, B-L, Wu, J-Y, Wu, Z-Y, Xu, L-Y, Xu, Y-J, Xue, Y-J, Zhang, J, Zhao, J-M, Zheng, C-P, Zhu, Y   +32 more
core   +1 more source

The how and why of lncRNA function: An innate immune perspective. [PDF]

, 2020
Next-generation sequencing has provided a more complete picture of the composition of the human transcriptome indicating that much of the "blueprint" is a vastness of poorly understood non-protein-coding transcripts.
Carpenter, Susan, Covarrubias, Sergio, Robinson, Elektra K   +2 more
core  

Improved protocol for single-nucleus RNA-sequencing of frozen human bladder tumor biopsies

Nucleus, 2022
AbstractThis paper provides a laboratory workflow for single-nucleus RNA-sequencing (snRNA-seq) including a protocol for gentle nuclei isolation from fresh frozen tumor biopsies, making it possible to analyze biobanked material. To develop this protocol, we used non-frozen and frozen human bladder tumors and cell lines.
Sofie S. Schmøkel, Iver Nordentoft, Sia V. Lindskrog, Philippe Lamy, Michael Knudsen, Jørgen Bjerggaard Jensen, Lars Dyrskjøt   +6 more
openaire   +3 more sources

Understanding and evaluating ambiguity in single-cell and single-nucleus RNA-sequencing

, 2023
Recently, a new modification has been proposed by Hjörleifsson and Sullivanet al. to the model used to classify the splicing status of reads (as spliced (mature), unspliced (nascent), or ambiguous) in single-cell and single-nucleus RNA-seq data. Here, we evaluate both the theoretical basis and practical implementation of the proposed method.
Dongze He, Charlotte Soneson, Rob Patro
openaire   +2 more sources