Results 61 to 70 of about 1,474,432 (298)

Evaluating methods for isolating total RNA and predicting the success of sequencing phylogenetically diverse plant transcriptomes. [PDF]

PLoS ONE, 2012
Next-generation sequencing plays a central role in the characterization and quantification of transcriptomes. Although numerous metrics are purported to quantify the quality of RNA, there have been no large-scale empirical evaluations of the major ...
Marc T J Johnson, Eric J Carpenter, Zhijian Tian, Richard Bruskiewich, Jason N Burris, Charlotte T Carrigan, Mark W Chase, Neil D Clarke, Sarah Covshoff, Claude W Depamphilis, Patrick P Edger, Falicia Goh, Sean Graham, Stephan Greiner, Julian M Hibberd, Ingrid Jordon-Thaden, Toni M Kutchan, James Leebens-Mack, Michael Melkonian, Nicholas Miles, Henrietta Myburg, Jordan Patterson, J Chris Pires, Paula Ralph, Megan Rolf, Rowan F Sage, Douglas Soltis, Pamela Soltis, Dennis Stevenson, C Neal Stewart, Barbara Surek, Christina J M Thomsen, Juan Carlos Villarreal, Xiaolei Wu, Yong Zhang, Michael K Deyholos, Gane Ka-Shu Wong   +36 more
doaj   +1 more source

Challenges for the development of automated RNA-seq analyses pipelines

GMS Medizinische Informatik, Biometrie und Epidemiologie, 2023
Background: Transcriptional changes are hallmarks of development and disease. RNA sequencing (RNA-seq) allows qualitative and quantitative RNA expression analysis. Raw RNA-seq data passes through a multi-step computational pipeline to derive meaning from
Beukers, Matthieu, Allmer, Jens
doaj   +1 more source

High-throughput, Efficient, and Unbiased Capture of Small RNAs from Low-input Samples for Sequencing. [PDF]

, 2019
MicroRNAs hold great promise as biomarkers of disease. However, there are few efficient and robust methods for measuring microRNAs from low input samples.
Belair, Cassandra D, Blelloch, Robert H, Chu, Brandon, Cooperberg, Matthew R, Freimer, Jacob W, Hu, Tianyi   +5 more
core   +2 more sources

Structural biology of ferritin nanocages

FEBS Letters, EarlyView.
Ferritin is a conserved iron‐storage protein that sequesters iron as a ferric mineral core within a nanocage, protecting cells from oxidative damage and maintaining iron homeostasis. This review discusses ferritin biology, structure, and function, and highlights recent cryo‐EM studies revealing mechanisms of ferritinophagy, cellular iron uptake, and ...
Eloise Mastrangelo, Flavio Di Pisa
wiley   +1 more source

Virtual Environment for Next Generation Sequencing Analysis [PDF]

, 2012
Next Generation Sequencing technology, on the one hand, allows a more accurate analysis, and, on the other hand, increases the amount of data to process.
Abate, Francesco, Acquaviva, Andrea, Mossucca, L., Provenzano, R., Terzo, Olivier   +4 more
core  

Taxonomy of anaerobic digestion microbiome reveals biases associated with the applied high throughput sequencing strategies [PDF]

, 2018
In the past few years, many studies investigated the anaerobic digestion microbiome by means of 16S rRNA amplicon sequencing. Results obtained from these studies were compared to each other without taking into consideration the followed procedure for ...
Angelidaki, Irini, Campanaro, Stefano, Kougias, Panagiotis G., Treu, Laura, Zhu, Xinyu   +4 more
core   +3 more sources

Transferrin receptor 1‐mediated iron uptake supports thermogenic activation in human cervical‐derived adipocytes

FEBS Letters, EarlyView.
In this study, we found that human cervical‐derived adipocytes maintain intracellular iron level by regulating the expression of iron transport‐related proteins during adrenergic stimulation. Melanotransferrin is predicted to interact with transferrin receptor 1 based on in silico analysis.
Rahaf Alrifai, Mizuki Seo, Gyath Karadsheh, Fachrur Rizal Mahendra, Máté Á Demény, Ferenc Győry, János András Mótyán, László Fésüs, Endre Kristóf, Rini Arianti   +9 more
wiley   +1 more source

Single-cell exon deletion profiling reveals splicing events that shape gene expression and cell state dynamics

Nature Communications
Alternative splicing is a pervasive gene regulatory mechanism critical for diversifying the human proteome. To systematically investigate its role in cell fate determination, we develop scCHyMErA-Seq, a scalable CRISPR-based exon deletion screening ...
Bandana Kumari, Arun Prasath Damodaran, Wilfried M. Guiblet, Mei-Sheng Xiao, Amit K. Behera, Tyler A. On, Carl E. McIntosh, Maxwell Teszler, Chelsee Holloway, Sandra Le, Nikhil Parab, Yongmei Zhao, Michael Aregger, Thomas Gonatopoulos-Pournatzis   +13 more
doaj   +1 more source

Directional RNA deep sequencing sheds new light on the transcriptional response of Anabaena sp strain PCC 7120 to combined-nitrogen deprivation [PDF]

, 2011
Background: Cyanobacteria are potential sources of renewable chemicals and biofuels and serve as model organisms for bacterial photosynthesis, nitrogen fixation, and responses to environmental changes. Anabaena (Nostoc) sp.
Flaherty, Britt L, Van Nieuwerburgh, Filip, Head, Steven R, Golden, James W   +3 more
core   +3 more sources

Tau acetylation at K331 has limited impact on tau pathology in vivo

FEBS Letters, EarlyView.
We mapped tau post‐translational modifications in humanized MAPT knock‐in mice and in amyloid‐bearing double knock‐in mice. Acetylation within the repeat domain, particularly around K331, showed modest increases under amyloid pathology. To test functional relevance, we generated MAPTK331Q knock‐in mice.
Shoko Hashimoto, Yukio Matsuba, Mika Takahashi, Takaomi C. Saido   +3 more
wiley   +1 more source