Results 41 to 50 of about 111,403 (262)

De novo assembly and annotation of the singing mouse genome

BMC Genomics, 2022
Abstract Background Developing genomic resources for a diverse range of species is an important step towards understanding the mechanisms underlying complex traits. Specifically, organisms that exhibit unique and accessible phenotypes-of-interest allow researchers to ...
Samantha K. Smith, Paul W. Frazel, Alireza Khodadadi-Jamayran, Paul Zappile, Christian Marier, Mariam Okhovat, Stuart Brown, Michael A. Long, Adriana Heguy, Steven M Phelps   +9 more
openaire   +3 more sources

A practical comparison of the next-generation sequencing platform and assemblers using yeast genome

Life Science Alliance, 2023
This research analyzes the general and optimal de novo yeast assembly pipeline using the repetitive yeast genome assembly by benchmarking four different sequencing platforms and seven assembly programs.
Min-Seung Jeon, Da Min Jeong, Huijeong Doh, Hyun Ah Kang, Hyungtaek Jung, Seong-il Eyun   +5 more
doaj   +1 more source

Complement Genome Annotation Lift Over Using a Weighted Sequence Alignment Strategy

Frontiers in Genetics, 2019
With the broad application of high-throughput sequencing, more whole-genome resequencing data and de novo assemblies of natural populations are becoming available.
Baoxing Song, Baoxing Song, Baoxing Song, Qing Sang, Hai Wang, Huimin Pei, XiangChao Gan, Fen Wang   +7 more
doaj   +1 more source

A De Novo Genome Sequence Assembly of the Arabidopsis thaliana Accession Niederzenz-1 Displays Presence/Absence Variation and Strong Synteny. [PDF]

PLoS ONE, 2016
Arabidopsis thaliana is the most important model organism for fundamental plant biology. The genome diversity of different accessions of this species has been intensively studied, for example in the 1001 genome project which led to the identification of ...
Boas Pucker, Daniela Holtgräwe, Thomas Rosleff Sörensen, Ralf Stracke, Prisca Viehöver, Bernd Weisshaar   +5 more
doaj   +1 more source

State of the art de novo assembly of human genomes from massively parallel sequencing data

Human Genomics, 2010
Recent studies in human genomes have demonstrated the use of de novo assemblies to identify genetic variations that are difficult for mapping-based approaches.
Li Yingrui, Hu Yujie, Bolund Lars, Wang Jun   +3 more
doaj   +1 more source

Comparing De Novo Genome Assembly: The Long and Short of It

PLoS ONE, 2011
Recent advances in DNA sequencing technology and their focal role in Genome Wide Association Studies (GWAS) have rekindled a growing interest in the whole-genome sequence assembly (WGSA) problem, thereby, inundating the field with a plethora of new formalizations, algorithms, heuristics and implementations.
Giuseppe Narzisi, Bud Mishra
openaire   +4 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

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

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