Results 21 to 30 of about 60,554,138 (296)

De Novo Genome Assembly and Annotation of the Arunachali Yak. [PDF]

Sci Data
The Arunachali yak (Bos grunniens), a high-altitude ruminant endemic to India, is genetically and economically significant for pastoral communities. However, challenges such as population decline, inbreeding, and genetic dilution through crossbreeding threaten its conservation.
Pukhrambam M, Tribhuvan KU, Paul V, Pandey A, Dutta A, Bhadana VP, Dabas S, Ramakrushna GI, Raghavendra KP, Verma P, Prasad YG, Mohanty AK, Rakshit S, Sarkar M.   +13 more
europepmc   +4 more sources

Short read Illumina data for the de novo assembly of a non-model snail species transcriptome (Radix balthica, Basommatophora, Pulmonata), and a comparison of assembler performance [PDF]

, 2011
Background: Until recently, read lengths on the Solexa/Illumina system were too short to reliably assemble transcriptomes without a reference sequence, especially for non-model organisms.
Wheat, Christopher W., Markus Pfenninger, Rotter, Björn, Pfenninger, Markus, Björn Rotter, Christopher W Wheat, Nicolas Krezdorn, Feldmeyer, Barbara, Krezdorn, Nicolas, Rotter, Bjoern, Barbara Feldmeyer   +10 more
core   +2 more sources

In Silico Whole Genome Sequencer and Analyzer (iWGS): a Computational Pipeline to Guide the Design and Analysis of de novo Genome Sequencing Studies

G3: Genes, Genomes, Genetics, 2016
The availability of genomes across the tree of life is highly biased toward vertebrates, pathogens, human disease models, and organisms with relatively small and simple genomes.
Xiaofan Zhou, David Peris, Jacek Kominek, Cletus P. Kurtzman, Chris Todd Hittinger, Antonis Rokas   +5 more
doaj   +1 more source

Effects of GC bias in next-generation-sequencing data on de novo genome assembly. [PDF]

PLoS ONE, 2013
Next-generation-sequencing (NGS) has revolutionized the field of genome assembly because of its much higher data throughput and much lower cost compared with traditional Sanger sequencing. However, NGS poses new computational challenges to de novo genome
Yen-Chun Chen, Tsunglin Liu, Chun-Hui Yu, Tzen-Yuh Chiang, Chi-Chuan Hwang   +4 more
doaj   +1 more source

An improved genome of the model marine alga Ostreococcus tauri unfolds by assessing Illumina de novo assemblies [PDF]

, 2014
Background: Cost effective next generation sequencing technologies now enable the production of genomic datasets for many novel planktonic eukaryotes, representing an understudied reservoir of genetic diversity. O.
Moreau, Hervé, Van De Peer, Yves, Adam Eyre-Walker, Château, Annie, Van de Peer, Y., Stephane Rombauts, Carré, Isabelle, Eyre-Walker, Adam, Rivals, E., Peer, Yves van de, Wendy Schackwitz, Schackwitz, Wendy, Benoit Piégu, Moreau, H., Schackwitz, W., Grimsley, Nigel, Evelyne Derelle, Rombauts, Stephane, Eyre Walker, Adam, Blanc-Mathieu, R., Eyre-Walker, A., Verhelst, B., Blanc-Mathieu, Romain, Bouget, François-Yves, Hervé Moreau, Nigel Grimsley, Rivals, Eric, Piégu, Benoit, Isabelle Carré, François-Yves Bouget, Derelle, Evelyne, Eric Rivals, Carré, I., Gwenaël Piganeau, Derelle, E., Bram Verhelst, Verhelst, Bram, Annie Château, Romain Blanc-Mathieu, Bouget, F.-Y., Château, A., Carré, Isabelle A., Piégu, B., Grimsley, N., Piganeau, G., Rombauts, S., Piganeau, Gwenaël, Blanc Mathieu, Romain, Yves Van de Peer   +48 more
core   +1 more source

Survey of the Applications of NGS to Whole-Genome Sequencing and Expression Profiling [PDF]

Genomics & Informatics, 2012
Recently, the technologies of DNA sequence variation and gene expression profiling have been used widely as approaches in the expertise of genome biology and genetics.
Jong-Sung Lim, Beom-Soon Choi, Jeong-Soo Lee, Chanseok Shin, Tae-Jin Yang, Jae-Sung Rhee, Jae-Seong Lee, Ik-Young Choi   +7 more
doaj   +1 more source

De novo assembly of a 40 Mb eukaryotic genome from short sequence reads: Sordaria macrospora, a model organism for fungal morphogenesis [PDF]

, 2010
Filamentous fungi are of great importance in ecology, agriculture, medicine, and biotechnology. Thus, it is not surprising that genomes for more than 100 filamentous fungi have been sequenced, most of them by Sanger sequencing.
Kück Ulrich, Espagne, Eric, Jason E Stajich, Kempken, Frank, Ines Engh, Stefanie Pöggeler, Frank Kempken, Ulrich Kück, Kuo, Hsiao Che, Jens Kamerewerd, Osiewacz, Heinz D., Zickler, Denise, Espagne Eric, Kück, Ulrich, Engh Ines, Freitag, Michael H., Smith, Kristina M, Meiling Chu, Chu Meiling, Smith Kristina M., Kuo, Hsiao-Che, Read, Nick D, Heinz D Osiewacz, Kempken Frank, Poeggeler, Stefanie, Knab, Birgit, Birgit Knab, Denise Zickler, Kuo Hsiao-Che, Kueck, Ulrich, Stajich Jason E., Osiewacz, Heinz D, Stajich, Jason E, Michael Freitag, Stephan Seiler, Halliday, Karen, Freitag, Michael, Stajich, Jason E., Chu, Meiling, Nick D Read, Karen Halliday, Knab Birgit, Zickler Denise, Kristina M Smith, Pöggeler, Stefanie, Engh, Ines, Eric Espagne, Hsiao-Che Kuo, Kamerewerd Jens, Smith, Kristina M., Halliday Karen, Pöggeler Stefanie, Seiler Stephan, Read Nick D., Nowrousian, Minou, Seiler, Stephan, Osiewacz Heinz D., Freitag Michael, Nowrousian Minou, Read, Nick D., Kamerewerd, Jens, Minou Nowrousian   +61 more
core   +2 more sources

Bandage: interactive visualisation of de novo genome assemblies [PDF]

Bioinformatics, 2015
Abstract Summary While de novo assembly graphs contain assembled contigs (nodes), the connections between those contigs (edges) are difficult for users to access. Bandage (a B ioinformatics
Ryan R. Wick, Mark B. Schultz, Justin Zobel, Kathryn E. Holt   +3 more
openaire   +3 more sources

dnAQET: a framework to compute a consolidated metric for benchmarking quality of de novo assemblies

BMC Genomics, 2019
Background Accurate de novo genome assembly has become reality with the advancements in sequencing technology. With the ever-increasing number of de novo genome assembly tools, assessing the quality of assemblies has become of great importance in genome ...
Gokhan Yavas, Huixiao Hong, Wenming Xiao
doaj   +1 more source

ling-lyang/Leptodactylus-fuscus-genome: de novo genome assembly of Leptodactylus fuscus

, 2021
A de novo genome assembly of Leptodactylus ...
Lu "Ling" Yang
core   +1 more source