Results 141 to 150 of about 28,777,576 (349)

GENESUS: A two-step sequence design program for DNA nanostructure self-assembly

BioTechniques, 2014
DNA has been recognized as an ideal material for bottom-up construction of nanometer scale structures by self-assembly. The generation of sequences optimized for unique self-assembly (GENESUS) program reported here is a straightforward method for ...
Takanobu Tsutsumi, Takeshi Asakawa, Akemi Kanegami, Takao Okada, Tomoko Tahira, Kenshi Hayashi   +5 more
doaj   +1 more source

Comprehensive, integrated, and phased whole-genome analysis of the primary ENCODE cell line K562

bioRxiv, 2017
K562 is one of the most widely used cell lines in biomedical research. It is one of three tier-one cell lines of ENCODE, and one of the cell lines most commonly used for large-scale CRISPR/Cas9 geneediting screens.
Bo Zhou, Steve S. Ho, S. Greer, Xiaowei Zhu, John M. Bell, Joseph G. Arthur, Noah Spies, Xianglong Zhang, Seunggyu Byeon, Reenal Pattni, Noa Ben-Efraim, Michael S. Haney, R. Haraksingh, Giltae Song, Hanlee P. Ji, Dimitri Perrin, W. Wong, A. Abyzov, A. Urban   +18 more
semanticscholar   +1 more source

CCDC80 suppresses high‐grade serous ovarian cancer migration via negative regulation of B7‐H3

Molecular Oncology, EarlyView.
PAX8 is a lineage‐specific master regulator of transcription in high‐grade serous ovarian cancer (HGSC) progression. We show for the first time that PAX8 facilitates proliferation and metastasis by repressing the cell autonomous tumor suppressor CCDC80 and inducing B7‐H3 expression.
Aya Saleh, Nitzan Medina‐Itzhaki, Milena Chekov, Eden Gal‐Swisa, Roba Gabesh‐Wahabi, Inbar Savyon, Inna Naroditsky, Hilary A. Kenny, Basem Fares, Lina Korsensky, Einav Girsh, Liron Berger, Ruth Perets   +12 more
wiley   +1 more source

Systematically developing a registry of splice-site creating variants utilizing massive publicly available transcriptome sequence data

Nature Communications
Genomic variants causing abnormal splicing play important roles in genetic disorders and cancer development. Among them, variants that cause the formation of novel splice-sites (splice-site creating variants, SSCVs) are particularly difficult to identify
Naoko Iida, Ai Okada, Yoshihisa Kobayashi, Kenichi Chiba, Yasushi Yatabe, Yuichi Shiraishi   +5 more
doaj   +1 more source

Genome Evolution and Innovation across the Four Major Lineages of Cryptococcus gattii

mBio, 2015
Cryptococcus gattii is a fungal pathogen of humans, causing pulmonary infections in otherwise healthy hosts. To characterize genomic variation among the four major lineages of C.
Rhys A. Farrer, Christopher A. Desjardins, Sharadha Sakthikumar, Sharvari Gujja, Sakina Saif, Qiandong Zeng, Yuan Chen, Kerstin Voelz, Joseph Heitman, Robin C. May, Matthew C. Fisher, Christina A. Cuomo   +11 more
doaj   +1 more source

PGAweb: A Web Server for Bacterial Pan-Genome Analysis

Frontiers in Microbiology, 2018
An astronomical increase in microbial genome data in recent years has led to strong demand for bioinformatic tools for pan-genome analysis within and across species.
Xinyu Chen, Yadong Zhang, Zhewen Zhang, Yongbing Zhao, Chen Sun, Ming Yang, Jinyue Wang, Qian Liu, Baohua Zhang, Meili Chen, Jun Yu, Jiayan Wu, Zhong Jin, Jingfa Xiao   +13 more
semanticscholar   +1 more source

E2A selectively regulates TGF‐β–induced apoptosis in KRAS‐mutant non‐small cell lung cancer

Molecular Oncology, EarlyView.
Ability to induce apoptosis by TGF‐β is frequently lost in advanced lung adenocarcinoma despite intact TGF‐β signaling. We identify E2A as a mutant KRAS–dependent mediator of resistance to TGF‐β–induced apoptosis. TGF‐β induces E2A via SMAD3 in mutant KRAS cells, and E2A silencing restores apoptosis and enhances radiation response in cell lines ...
Sergei Chuikov, Shiva Krishna Katkam, Zhefan Wang, Venkateshwar G. Keshamouni   +3 more
wiley   +1 more source

Rapid phylogenetic analysis of large samples of recombinant bacterial whole genome sequences using Gubbins

Nucleic Acids Research, 2014
The emergence of new sequencing technologies has facilitated the use of bacterial whole genome alignments for evolutionary studies and outbreak analyses.
N. Croucher, A. Page, T. Connor, Aidan J. Delaney, Jacqueline A. Keane, S. Bentley, J. Parkhill, S. Harris   +7 more
semanticscholar   +1 more source

CD47 promotes mitogen‐activated protein kinase and epithelial‐to‐mesenchymal transition molecular programs to drive prometastatic phenotypes in non‐small cell lung cancer

Molecular Oncology, EarlyView.
Beyond its role in immune evasion, this study identified that CD47 drives tumor‐intrinsic signaling in non‐small cell lung cancer (NSCLC). Transcriptomic profiling and functional studies revealed that CD47 regulates cell adhesion, migration, and metastasis through an ERK–EMT signaling axis.
Asa P.Y. Lau, Lilian G. Zhai, Ryunosuke Hoshi, Zackary Rousseau, Abraam Zakhary, Yin Fang Wu, Rola M. Saleeb, Heyu Ni, Kelsie L. Thu   +8 more
wiley   +1 more source

HMGB1 prefers to interact with structural RNAs and regulates rRNA methylation modification and translation in HeLa cells

BMC Genomics
Background High-mobility group B1 (HMGB1) is both a DNA binding nuclear factor modulating transcription and a crucial cytokine that mediates the response to both infectious and noninfectious inflammation such as autoimmunity, cancer, trauma, and ischemia
Meimei Liao, Jiarui Cao, Wen Chen, Mengwei Wang, Zhihui Jin, Jia Ye, Yijun Ren, Yaxun Wei, Yaqiang Xue, Dong Chen, Yi Zhang, Sen Chen   +11 more
doaj   +1 more source