The Bioinformatic Applications of Hi-C and Linked Reads
L Jiang, MA Quail, J Fraser-Govil… - Genomics …, 2024 - academic.oup.com
Long-range sequencing grants insight into additional genetic information beyond what can
be accessed by both short reads and modern long-read technology. Several new …
be accessed by both short reads and modern long-read technology. Several new …
A chromosome‐scale assembly of the black gram (Vigna mungo) genome
Black gram (Vigna mungo) is an important short duration grain legume crop. Black gram
seeds provide an inexpensive source of dietary protein. Here, we applied the 10X Genomics …
seeds provide an inexpensive source of dietary protein. Here, we applied the 10X Genomics …
Benchmarking genome assembly methods on metagenomic sequencing data
Z Zhang, C Yang, WP Veldsman, X Fang… - Briefings in …, 2023 - academic.oup.com
Metagenome assembly is an efficient approach to reconstruct microbial genomes from
metagenomic sequencing data. Although short-read sequencing has been widely used for …
metagenomic sequencing data. Although short-read sequencing has been widely used for …
A comprehensive investigation of metagenome assembly by linked-read sequencing
Background The human microbiota are complex systems with important roles in our
physiological activities and diseases. Sequencing the microbial genomes in the microbiota …
physiological activities and diseases. Sequencing the microbial genomes in the microbiota …
Deciphering complex breakage-fusion-bridge genome rearrangements with Ambigram
Abstract Breakage-fusion-bridge (BFB) is a complex rearrangement that leads to tumor
malignancy. Existing models for detecting BFBs rely on the ideal BFB hypothesis, ruling out …
malignancy. Existing models for detecting BFBs rely on the ideal BFB hypothesis, ruling out …
An efficient molecular genetic testing strategy for incontinentia pigmenti based on single-tube long fragment read sequencing
M Chen, MH Tan, J Liu, YM Yang, JL Yu, LJ He… - NPJ Genomic …, 2024 - nature.com
Incontinentia pigmenti (IP) is a rare X-linked dominant neuroectodermal dysplasia that
primarily affects females. The only known causative gene is IKBKG, and the most common …
primarily affects females. The only known causative gene is IKBKG, and the most common …
URMAP, an ultra-fast read mapper
R Edgar - PeerJ, 2020 - peerj.com
Mapping of reads to reference sequences is an essential step in a wide range of biological
studies. The large size of datasets generated with next-generation sequencing technologies …
studies. The large size of datasets generated with next-generation sequencing technologies …
Whole-genome de novo sequencing reveals genomic variants associated with differences of sex development in SRY negative pigs
J Wu, S Tan, Z Feng, H Zhao, C Yu, Y Yang… - Biology of Sex …, 2024 - Springer
Background Differences of sex development (DSD) are congenital conditions in which
chromosomal, gonadal, or phenotypic sex is atypical. In more than 50% of human DSD …
chromosomal, gonadal, or phenotypic sex is atypical. In more than 50% of human DSD …
Aquila enables reference-assisted diploid personal genome assembly and comprehensive variant detection based on linked reads
We introduce Aquila, a new approach to variant discovery in personal genomes, which is
critical for uncovering the genetic contributions to health and disease. Aquila uses a …
critical for uncovering the genetic contributions to health and disease. Aquila uses a …
[HTML][HTML] Genomic evidence of sex chromosome aneuploidy and infection-associated genotypes in the tsetse fly Glossina fuscipes, the major vector of African …
The primary vector of the trypanosome parasite causing human and animal African
trypanosomiasis in Uganda is the riverine tsetse fly Glossina fuscipes fuscipes (Gff). Our …
trypanosomiasis in Uganda is the riverine tsetse fly Glossina fuscipes fuscipes (Gff). Our …