Patel, Deepak T Stogios, Peter J Jaroszewski, Lukasz Urbanus, Malene L Sedova, Mayya Semper, Cameron Le, Cathy Takkouche, Abraham Ichii, Keita Innabi, Julie
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Legionella pneumophila utilizes the Dot/Icm type IVB secretion system to deliver hundreds of effector proteins inside eukaryotic cells to ensure intracellular replication. Our understanding of the molecular functions of the largest pathogenic arsenal known to the bacterial world remains incomplete. By leveraging advancements in 3D protein structure...
Suomela, Tuulikki Zhang, Liang Vera, Julio Bruns, Heiko Lai, Xin
Published in
Methods in molecular biology (Clifton, N.J.)
MicroRNAs (miRNAs) are small non-coding RNAs that regulate gene expression. They have been associated with several diseases and cancers, including chronic lymphocytic leukemia (CLL). CLL is the most common form of adult leukemia, and its pathogenesis is driven by the deletion of miRNAs, such as the miR-15a/16-1 cluster. In addition to initiating th...
Liu, Jiaxi Verrett, Mya Wieand, Alyssa Burch, Anna Jeon, Ariel Collins, John Yalcin, Cagri Garudadri, Harinath Skalsky, Andrew J Ng, Tse Nga
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As clinical evaluations of neuromuscular disorders such as hypertonia mostly rely on perception-based scales, the imprecise subjective ratings make it difficult to accurately monitor treatment progress. To promote objective evaluation, this work used a multi-modal sensing glove in a double-blind study to enable sensitive monitoring of medication ef...
Wright, Sarah N Colton, Scott Schaffer, Leah V Pillich, Rudolf T Churas, Christopher Pratt, Dexter Ideker, Trey
Advancements in genomic and proteomic technologies have powered the creation of large gene and protein networks ("interactomes") for understanding biological systems. However, the proliferation of interactomes complicates the selection of networks for specific applications. Here, we present a comprehensive evaluation of 45 current human interactome...
Gagaoua, Mohammed Prieto, Nuria Hopkins, David Baldassini, Welder Zhang, Yimin López-Campos, Oscar Albenzio, Marzia Malva, Antonella Della
Ensuring consistent beef eating quality is paramount for meeting consumer demands and sustaining the meat industry. Electrical stimulation (ES) is a post-slaughter intervention used to accelerate post-mortem glycolysis, to avoid cold shortening, to control the tenderization rate of meat through sophisticated physical, chemical and biochemical mecha...
Morgens, David W Gulyas, Leah Mao, Xiaowen Rivera-Madera, Alejandro Souza, Annabelle S Glaunsinger, Britt A
Complex transcriptional control is a conserved feature of both eukaryotes and the viruses that infect them. Despite viral genomes being smaller and more gene dense than their hosts, we generally lack a sense of scope for the features governing the transcriptional output of individual viral genes. Even having a seemingly simple expression pattern do...
Ortega Sanz, Irene
The GitHub repository contains a list of scripts for the analysis of Oxford Nanopore sequencing data, including: - Dorado for barcode classification and basecalling. - NanoPlot and FastQC for read statistics report. - Porechop for adapters removal. - BBMap for read quality filtering. - Flye for read assembly. - Medaka for assembly polishing. - Quas...
Vo, Peter Imai-Leonard, Denise M Yang, Benjamin Briere, Andrew Shao, Andy Casanova, M Isabel Adams, David Amano, Takanori Amarie, Oana Berberovic, Zorana
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PurposeCorneal dysmorphologies (CDs) are typically classified as either regressive degenerative corneal dystrophies (CDtrs) or defective growth and differentiation-driven corneal dysplasias (CDyps). Both eye disorders have multifactorial etiologies. While previous work has elucidated many aspects of CDs, such as presenting symptoms, epidemiology, a...
Liu, Wei Li, Hui-Min Bai, Guangchao
Published in
Nucleosides, nucleotides & nucleic acids
Ferroptosis has recently been shown to play a significant role in the progression of intervertebral disk degeneration (IDD), although the underlying mechanism is still unknown. The objective of this work was to use stringent bioinformatic techniques to clarify the crucial roles played by genes associated with ferroptosis in the emergence of IDD. Fo...
Nguyen, Truong Phan-Xuan Nguyen, Hoang Minh Luu, Loi Phuc Ngo, Dat Quoc Shuangshoti, Shanop Kitkumthorn, Nakarin Keelawat, Somboon
Published in
Pathology, research and practice
Follicular-patterned thyroid tumors (FPTTs) are frequently encountered in thyroid pathology, encompassing follicular adenoma (FA), follicular thyroid carcinoma (FTC), noninvasive follicular thyroid neoplasm with papillary-like nuclear features (NIFTP), and follicular variant of papillary thyroid carcinoma (fvPTC). Recently, a distinct entity termed...