Results 61 to 70 of about 60,554,138 (296)

A De Novo Genome Assembly Algorithm for Repeats and Nonrepeats [PDF]

BioMed Research International, 2014
Background. Next generation sequencing platforms can generate shorter reads, deeper coverage, and higher throughput than those of the Sanger sequencing. These short reads may be assembled de novo before some specific genome analyses.
Lian, Shuaibin, Li, Qingyan, Dai, Zhiming, Xiang, Qian, Dai, Xianhua   +4 more
openaire   +2 more sources

Whole genome sequence and de novo assembly revealed genomic architecture of Indian Mithun (Bos frontalis)

BMC Genomics, 2019
Background Mithun (Bos frontalis), also called gayal, is an endangered bovine species, under the tribe bovini with 2n = 58 XX chromosome complements and reared under the tropical rain forests region of India, China, Myanmar, Bhutan and Bangladesh ...
Sabyasachi Mukherjee, Zexi Cai, Anupama Mukherjee, Imsusosang Longkumer, Moonmoon Mech, Kezhavituo Vupru, Kobu Khate, Chandan Rajkhowa, Abhijit Mitra, Bernt Guldbrandtsen, Mogens Sandø Lund, Goutam Sahana   +11 more
doaj   +1 more source

Structure‐forward targeting of claudins with synthetic binders

FEBS Letters, EarlyView.
Claudins form the paracellular barriers between epithelial and endothelial tissues at tight junctions and are targets for molecular binders with the goal of modulating barrier permeability. Claudin‐binding molecules are relevant in drug delivery or in altering claudin interactions with disease‐causing proteins.
Alex J. Vecchio
wiley   +1 more source

Effective de novo assembly of fish genome using haploid larvae [PDF]

, 2016
Recent improvements in next-generation sequencing technology have made it possible to do whole genome sequencing, on even non-model eukaryote species with no available reference genomes.
Kobayashi, Takanori, Nomura, Yousuke, Kai, Wataru, Nomura, Kazuharu, Yasuike, Motoshige, Nishiki, Issei, Fujiwara, Atushi, Nakamura, Yoji, Iwasaki, Yuki, Yoshida, Kazunori, Ototake, Mitsuru   +10 more
core   +1 more source

De novo assembly of the carrot mitochondrial genome using next generation sequencing of whole genomic DNA provides first evidence of DNA transfer into an angiosperm plastid genome

BMC Plant Biology, 2012
Background Sequence analysis of organelle genomes has revealed important aspects of plant cell evolution. The scope of this study was to develop an approach for de novo assembly of the carrot mitochondrial genome using next generation sequence data from ...
Iorizzo Massimo, Senalik Douglas, Szklarczyk Marek, Grzebelus Dariusz, Spooner David, Simon Philipp   +5 more
doaj   +1 more source

Can we use it? On the utility of de novo and reference-based assembly of Nanopore data for plant plastome sequencing.

PLoS ONE, 2020
The chloroplast genome harbors plenty of valuable information for phylogenetic research. Illumina short-read data is generally used for de novo assembly of whole plastomes.
Agnes Scheunert, Marco Dorfner, Thomas Lingl, Christoph Oberprieler   +3 more
doaj   +1 more source

Epigenetic reprogramming of lineage switching in cancer

FEBS Letters, EarlyView.
Cancer cells rarely commit to a single identity. Epigenetic mechanisms and tumor microenvironment cues push epithelial cells toward flexible, hybrid states that can shift into mesenchymal, neuroendocrine, or stem‐like fates, driving metastasis, drug resistance, and tumor heterogeneity. Targeting the epigenetic regulators behind these transitions, using
Ezgi Boyvatlı, Burcu Akman, Ezgi Bağırsakçı, Nese Atabey, Serap Erkek‐Ozhan   +4 more
wiley   +1 more source

A comparative evaluation of genome assembly reconciliation tools

Genome Biology, 2017
Background The majority of eukaryotic genomes are unfinished due to the algorithmic challenges of assembling them. A variety of assembly and scaffolding tools are available, but it is not always obvious which tool or parameters to use for a specific ...
Hind Alhakami, Hamid Mirebrahim, Stefano Lonardi   +2 more
doaj   +1 more source

Targeting transcription factors associated with hemoglobinopathies: Lessons from successful interventions and implications for cancer

Molecular Oncology, EarlyView.
This review summarizes the transcription factors, repressive chromatin‐modifying complexes, and epigenetic mechanisms that control fetal hemoglobin repression. Notably, many regulators of γ‐globin silencing also function in transcriptional and epigenetic networks that drive cancer, highlighting opportunities to translate advances in hemoglobinopathy ...
Meigen Yu, Puspa Das, Xing Zhang, Xiaodong Cheng   +3 more
wiley   +1 more source

Visualization and quality assessment of de novo genome assemblies [PDF]

Bioinformatics, 2011
Abstract Summary: Recent technological progress has greatly facilitated de novo genome sequencing. However, de novo assemblies consist in many pieces of contiguous sequence (contigs) arranged in thousands of scaffolds instead of small numbers of chromosomes.
Oksana Riba-Grognuz, Laurent Keller, Laurent Falquet, Ioannis Xenarios, Yannick Wurm   +4 more
openaire   +4 more sources