Results 121 to 130 of about 2,597,991 (390)

Construction of a chromosome-scale long-read reference genome assembly for potato

GigaScience, 2020
Background Worldwide, the cultivated potato, Solanum tuberosum L., is the No. 1 vegetable crop and a critical food security crop. The genome sequence of DM1–3 516 R44, a doubled monoploid clone of S. tuberosum Group Phureja, was published in 2011 using a
Gina M. Pham, J. Hamilton, Joshua C. Wood, Joseph T Burke, Hainan Zhao, Brieanne Vaillancourt, Shujun Ou, Jiming Jiang, C. R. Buell   +8 more
semanticscholar   +1 more source

Beware of mis-assembled genomes [PDF]

Bioinformatics, 2005
With hundreds of genomes now in GenBank, researchers might be forgiven for assuming that genome sequence data are correct, at least at a large scale. Certainly there might be errors at some small rate, perhaps 1 in 50 000 or 100 000 bases (Schmutz et al., 2004; Read et al., 2002), but at a large scale these genomes are put together correctly, are not ...
Steven L, Salzberg, James A, Yorke
openaire   +2 more sources

Plasma extrachromosomal circular DNA as a biomarker in EGFR‐targeted therapy of non‐small cell lung cancer

Molecular Oncology, EarlyView.
Detection of extrachromosomal circular DNA (eccDNA) in plasma samples from EGFR‐mutated non‐small cell lung cancer patients. Plasma was collected before and during treatment with the EGFR‐tyrosine kinase inhibitor osimertinib. Plasma eccDNA was detected in all cancer samples, and the presence of the EGFR gene on eccDNA serves as a potential biomarker ...
Simone Stensgaard, Sarmad Mehmood, Eva Boysen Fynboe Ebert, Peter Meldgaard, Anindya Dutta, Boe S. Sorensen   +5 more
wiley   +1 more source

Survivin and Aurora Kinase A control cell fate decisions during mitosis

Molecular Oncology, EarlyView.
Aurora A interacts with survivin during mitosis and regulates its centromeric role. Loss of Aurora A activity mislocalises survivin, the CPC and BubR1, leading to disruption of the spindle checkpoint and triggering premature mitotic exit, which we refer to as ‘mitotic slippage’.
Hana Abdelkabir, Shalitha Wickrama Arachchige, Sally P. Wheatley   +2 more
wiley   +1 more source

Capture of complete ciliate chromosomes in single sequencing reads reveals widespread chromosome isoforms

BMC Genomics, 2019
Background Whole-genome shotgun sequencing, which stitches together millions of short sequencing reads into a single genome, ushered in the era of modern genomics and led to a rapid expansion of the number of genome sequences available.
Kelsi A. Lindblad, Jananan S. Pathmanathan, Sandrine Moreira, John R. Bracht, Robert P. Sebra, Elizabeth R. Hutton, Laura F. Landweber   +6 more
doaj   +1 more source

Kermit: linkage map guided long read assembly

Algorithms for Molecular Biology, 2019
Background  With long reads getting even longer and cheaper, large scale sequencing projects can be accomplished without short reads at an affordable cost.
Riku Walve, Pasi Rastas, Leena Salmela
doaj   +1 more source

Chromosome-scale genome assembly of sweet cherry (Prunus avium L.) cv. Tieton obtained using long-read and Hi-C sequencing

Horticulture Research, 2020
Sweet cherry (Prunus avium) is an economically significant fruit species in the genus Prunus. However, in contrast to other important fruit trees in this genus, only one draft genome assembly is available for sweet cherry, which was assembled using only ...
Jiawei Wang, Weizhen Liu, Dongzi Zhu, Po Hong, Shizhong Zhang, Shijun Xiao, Yue Tan, Xin Chen, Li Xu, X. Zong, Lisi Zhang, Hairong Wei, Xiaohui Yuan, Qingzhong Liu   +13 more
semanticscholar   +1 more source

In vitro models of cancer‐associated fibroblast heterogeneity uncover subtype‐specific effects of CRISPR perturbations

Molecular Oncology, EarlyView.
Development of therapies targeting cancer‐associated fibroblasts (CAFs) necessitates preclinical model systems that faithfully represent CAF–tumor biology. We established an in vitro coculture system of patient‐derived pancreatic CAFs and tumor cell lines and demonstrated its recapitulation of primary CAF–tumor biology with single‐cell transcriptomics ...
Elysia Saputra, Shamsudheen Karuthedath Vellarikkal, Lixia Li, Hong Sun, Khoa Nguyen, Amber Montano, Suchitra Natarajan, Federica Piccioni, Alex Michael Tamburino, Xin Yu, Aleksandra Katarzyna Olow   +10 more
wiley   +1 more source

Effect of chemotherapy on passenger mutations in metastatic colorectal cancer

Molecular Oncology, EarlyView.
Changes in passenger mutation load and predicted immunotherapy response after chemotherapy treatment. Tumor cells rich with passenger mutations have increased sensitivity to chemotherapy. Correlation of passenger mutations with neoantigen load suggests highly mutated clones promote a more effective response to immunotherapy, and therefore, first‐line ...
Marium T. Siddiqui, Matthew A. Cottam, Muhammad Bilal Mirza, Keeli B. Lewis, Kristen K. Ciombor, Mary Kay Washington, Kamran Idrees   +6 more
wiley   +1 more source

Genome Assemblies of Two Ormosia Species: Gene Duplication Related to Their Evolutionary Adaptation [PDF]

, 2023
Panpan Liu, En-Ping Yu, Zongjian Tan, Hongmei Sun, Wei-Guang Zhu, Zheng‐Feng Wang, Honglin Cao   +6 more
openalex   +1 more source