Results 101 to 110 of about 105,918 (288)

Interpreting 16S metagenomic data without clustering to achieve sub-OTU resolution

, 2014
The standard approach to analyzing 16S tag sequence data, which relies on clustering reads by sequence similarity into Operational Taxonomic Units (OTUs), underexploits the accuracy of modern sequencing technology.
A Klindworth, A Shade, A Shade, AM Eren, BJ Haas, C Huttenhower, C Lozupone, C Quince, C Quince, DE Hunt, DN Fredricks, EK Costello, EK Costello, H Ochman, JG Caporaso, JG Caporaso, JI Prosser, JJ Faith, JL VandeWalle, JR Brestoff, M Hamady, MGI Langille, Mikhail Tikhonov, MJ Morgan, MJ Rosen, N Fierer, N Kamada, ND Youngblut, Ned S Wingreen, O Lukjancenko, PD Schloss, PD Schloss, PD Schloss, PJ Turnbaugh, RC Edgar, RC Edgar, RC Edgar, Robert W Leach, SJ Song, SM Huse, SP Preheim, TP Tourova, V Kunin, WJ Sul, Y Huang, ZJ Zheng   +45 more
core   +1 more source

Echtvar: compressed variant representation for rapid annotation and filtering of SNPs and indels [PDF]

, 2022
Brent S. Pedersen, Jeroen de Ridder
openalex   +1 more source

Twisted trees and inconsistency of tree estimation when gaps are treated as missing data -- the impact of model mis-specification in distance corrections [PDF]

, 2015
Statistically consistent estimation of phylogenetic trees or gene trees is possible if pairwise sequence dissimilarities can be converted to a set of distances that are proportional to the true evolutionary distances. Susko et al.
Holder, Mark T., McTavish, Emily Jane, Steel, Mike   +2 more
core   +1 more source

Ultra-large alignments using Phylogeny-aware Profiles

, 2015
Many biological questions, including the estimation of deep evolutionary histories and the detection of remote homology between protein sequences, rely upon multiple sequence alignments (MSAs) and phylogenetic trees of large datasets.
Kumar, Keerthana, Mirarab, Siavash, Nguyen, Nam-phuong, Warnow, Tandy   +3 more
core   +1 more source

A Novel 65-bp Indel in the GOLGB1 Gene Is Associated with Chicken Growth and Carcass Traits

Animals, 2020
Golgin subfamily B member 1 (GOLGB1) gene encodes the coat protein 1 vesicle inhibiting factor, giantin. Previous study showed that mutations of the GOLGB1 gene are associated with dozens of human developmental disorders and diseases.
Rong Fu, Tuanhui Ren, Wangyu Li, Jiaying Liang, Guodong Mo, Wen Luo, Danlin He, Shaodong Liang, Xiquan Zhang   +8 more
doaj   +1 more source

Single-cell genome sequencing of human neurons identifies somatic point mutation and indel enrichment in regulatory elements

Nature Genetics, 2022
Lovelace J. Luquette, Michael B. Miller, Zinan Zhou, Craig L. Bohrson, Yifan Zhao, Hu Jin, D. Gulhan, J. Ganz, S. Bizzotto, Samantha L. Kirkham, T. Hochepied, C. Libert, Alon Galor, Junho Kim, Michael A. Lodato, J. Garaycoechea, Charles Gawad, Jay West, Christopher A. Walsh, Peter J. Park   +19 more
semanticscholar   +1 more source

An 11-bp Indel Polymorphism within the CSN1S1 Gene Is Associated with Milk Performance and Body Measurement Traits in Chinese Goats

Animals, 2019
Simple Summary In the field of animal breeding, selection using molecular genetic markers, such as insertions/deletions (indels), is a novel method to reduce the generation interval and more accurately improve performance.
Yanghai Zhang, Ke Wang, Jinwang Liu, Haijing Zhu, L. Qu, Hong Chen, X. Lan, C. Pan, Xiaoyue Song   +8 more
semanticscholar   +1 more source

Identification of Insertion and Deletion (InDel) Markers for Chickpea (Cicer arietinum L.) Based on Double-Digest Restriction Site-Associated DNA Sequencing

Plants
Enhancing the marker repository and the development of breeder-friendly markers in chickpeas is important in relation to chickpea genomics-assisted breeding applications. Insertion–deletion (InDel) markers are widely distributed across genomes and easily
Duygu Sari
doaj   +1 more source

InDel markers: An extended marker resource for molecular breeding in chickpea

PLoS ONE, 2019
Chickpea is one of the most important food legumes that holds the key to meet rising global food and nutritional demand. In order to deploy molecular breeding approaches in crop improvement programs, user friendly and cost effective marker resources ...
Ankit Jain, Manish Roorkiwal, Sandip Kale, Vanika Garg, Ramakrishna Yadala, R. Varshney   +5 more
semanticscholar   +1 more source

The development of ideal insertion and deletion (InDel) markers and initial indel map variation in cucumber using re-sequenced data

BMC Genomics
Background InDels are the most common type of length polymorphism and play a critical role in the genetic traits of many important phenotypes in both plants and animals, making them an ideal source for length polymorphism molecular markers.
Jinchang Yang, Pengxu Meng, Hang Mi, Xueying Wang, Jin Yang, Shaohong Fu, Wanzhuo Gong, Ruifan Bao, Wujiao Deng, Haimei Wu, Zhiqin Liu, Sijia Yang, Jixing Ni, Jian Liu, Haoran Shi   +14 more
doaj   +1 more source