Cerulean: A hybrid assembly using high throughput short and long reads
, 2013 Genome assembly using high throughput data with short reads, arguably, remains an unresolvable task in repetitive genomes, since when the length of a repeat exceeds the read length, it becomes difficult to unambiguously connect the flanking regions.
D.R. Zerbino +14 more
core +1 more source
Pyrosequencing/Sanger Plant Genome Assembly (Limitations, Problems And Solutions) - On The Way To Cucumber (Cucumis sativus L. cv. Borszczagowski) Draft Genome Sequence Publishing [PDF]
, 2010 Genome sequencing give us an opportunity to broaden the range and improve the quality of omics studies. New sequencing technologies make it possible to achieve the sequencing reads fast and cheap.
Rafal Woycicki, Zbigniew Przybecki
core +2 more sources
TIGER: tiled iterative genome assembler [PDF]
BMC Bioinformatics, 2012 Abstract Background With the cost reduction of the next-generation sequencing (NGS) technologies, genomics has provided us with an unprecedented opportunity to understand fundamental questions in biology and elucidate human diseases.
Wu, Xiao-Long +5 more
openaire +2 more sources
Reciprocal control of viral infection and phosphoinositide dynamics
FEBS Letters, EarlyView.Phosphoinositides, although scarce, regulate key cellular processes, including membrane dynamics and signaling. Viruses exploit these lipids to support their entry, replication, assembly, and egress. The central role of phosphoinositides in infection highlights phosphoinositide metabolism as a promising antiviral target.
Marie Déborah Bancilhon, Bruno Mesmin
wiley +1 more source
Assessing genome assembly quality using the LTR Assembly Index (LAI)
Nucleic Acids Research, 2018 Assembling a plant genome is challenging due to the abundance of repetitive sequences, yet no standard is available to evaluate the assembly of repeat space.
Shujun Ou, Jinfeng Chen, Ning Jiang
semanticscholar +1 more source
Do Read Errors Matter for Genome Assembly?
, 2016 While most current high-throughput DNA sequencing technologies generate short reads with low error rates, emerging sequencing technologies generate long reads with high error rates.
Courtade, Thomas +2 more
core +1 more source
An improved Plasmodium cynomolgi genome assembly reveals an unexpected methyltransferase gene expansion. [PDF]
, 2017 Background: Plasmodium cynomolgi, a non-human primate malaria parasite species, has been an important model parasite since its discovery in 1907. Similarities in the biology of P.
Berriman, Matt +7 more
core +2 more sources
By dawn or dusk—how circadian timing rewrites bacterial infection outcomes
FEBS Letters, EarlyView.The circadian clock shapes immune function, yet its influence on infection outcomes is only beginning to be understood. This review highlights how circadian timing alters host responses to the bacterial pathogens Salmonella enterica, Listeria monocytogenes, and Streptococcus pneumoniae revealing that the effectiveness of immune defense depends not only
Devons Mo +2 more
wiley +1 more source
Phytochrome activates the plastid-encoded RNA polymerase for chloroplast biogenesis via nucleus-to-plastid signaling. [PDF]
, 2019 Light initiates chloroplast biogenesis by activating photosynthesis-associated genes encoded by not only the nuclear but also the plastidial genome, but how photoreceptors control plastidial gene expression remains enigmatic.
Blaha, Gregor M +6 more
core +2 more sources
Genome-Directed Cell Nucleus Assembly
Biology, 2022 The cell nucleus is frequently considered a cage in which the genome is placed to protect it from various external factors. Inside the nucleus, many functional compartments have been identified that are directly or indirectly involved in implementing genomic DNA’s genetic functions.
Sergey V. Razin, Sergey V. Ulianov
openaire +3 more sources