Results 21 to 30 of about 3,218,020 (355)

OrthoFinder: phylogenetic orthology inference for comparative genomics

Genome Biology, 2019
Here, we present a major advance of the OrthoFinder method. This extends OrthoFinder’s high accuracy orthogroup inference to provide phylogenetic inference of orthologs, rooted gene trees, gene duplication events, the rooted species tree, and comparative
David M. Emms, S. Kelly
semanticscholar   +1 more source

Comparative genomics of nematodes [PDF]

Trends in Genetics, 2005
Recent transcriptome and genome projects have dramatically expanded the biological data available across the phylum Nematoda. Here we summarize analyses of these sequences, which have revealed multiple unexpected results. Despite a uniform body plan, nematodes are more diverse at the molecular level than was previously recognized, with many species ...
Mitreva, Makedonka, Blaxter, Mark, Bird, David M., McCarter, James P.   +3 more
openaire   +2 more sources

Comparative BAC-based mapping in the white-throated sparrow, a novel behavioral genomics model, using interspecies overgo hybridization [PDF]

, 2011
BACKGROUND The genomics era has produced an arsenal of resources from sequenced organisms allowing researchers to target species that do not have comparable mapping and sequence information.
Tuttle, Elaina M, Michael N Romanov, Jerry B Dodgson, Dodgson, Jerry B, Tuttle Elaina M, Elaina M Tuttle, Romanov, Michael N, Dodgson Jerry B, Romanov Michael N, Gonser Rusty A, Rusty A Gonser, Gonser, Rusty A   +11 more
core   +1 more source

Circos: an information aesthetic for comparative genomics.

Genome Research, 2009
We created a visualization tool called Circos to facilitate the identification and analysis of similarities and differences arising from comparisons of genomes.
M. Krzywinski, J. Schein, I. Birol, J. Connors, R. Gascoyne, D. Horsman, Steven J. M. Jones, M. Marra   +7 more
semanticscholar   +1 more source

Direct Comparative Analyses of 10X Genomics Chromium and Smart-seq2

Genomics, Proteomics & Bioinformatics, 2021
Single-cell RNA sequencing (scRNA-seq) is generally used for profiling transcriptome of individual cells. The droplet-based 10X Genomics Chromium (10X) approach and the plate-based Smart-seq2 full-length method are two frequently used scRNA-seq platforms,
Xiliang Wang, Yao He, Qiming Zhang, Xianwen Ren, Zemin Zhang   +4 more
semanticscholar   +1 more source

Development of Cell-Specific Aptamers: Recent Advances and Insight into the Selection Procedures

Molecules, 2017
Systematic evolution of ligands by exponential enrichment (SELEX) is an established procedure for developing short single-stranded nucleic acid ligands called aptamers against a target of choice.
Kamal Rahimizadeh, Hadi AlShamaileh, Milena Fratini, Madhuri Chakravarthy, Michelle Stephen, Sarah Shigdar, Rakesh N. Veedu   +6 more
doaj   +1 more source

Dense sampling of bird diversity increases power of comparative genomics

Nature, 2020
Whole-genome sequencing projects are increasingly populating the tree of life and characterizing biodiversity1–4. Sparse taxon sampling has previously been proposed to confound phylogenetic inference5, and captures only a fraction of the genomic ...
Shaohong Feng, Josefin Stiller, Yuan Deng, J. Armstrong, Qi Fang, A. H. Reeve, Duo Xie, Guangji Chen, Chunxue Guo, B. Faircloth, Bent Petersen, Zongji Wang, Qi Zhou, M. Diekhans, Wanjun Chen, S. Andreu-Sánchez, A. Margaryan, Jason T. Howard, Carole Parent, George Pacheco, Mikkel‐Holger S. Sinding, Lara C. Puetz, Emily L. Cavill, Ângela M. Ribeiro, L. Eckhart, J. Fjeldså, P. Hosner, R. T. Brumfield, L. Christidis, M. Bertelsen, Thomas Sicheritz-Pontén, D. Tietze, B. Robertson, G. Song, G. Borgia, Santiago Claramunt, I. Lovette, S. Cowen, P. Njoroge, J. Dumbacher, O. Ryder, J. Fuchs, M. Bunce, D. Burt, J. Cracraft, Guanliang Meng, S. Hackett, P. Ryan, K. Jønsson, I. Jamieson, R. D. da Fonseca, E. Braun, P. Houde, S. Mirarab, Alexander Suh, B. Hansson, Suvi Ponnikas, Hanna Sigeman, Martin Stervander, P. Frandsen, H. van der Zwan, R. van der Sluis, C. Visser, C. N. Balakrishnan, A. Clark, J. Fitzpatrick, R. Bowman, Nancy Chen, A. Cloutier, Timothy B Sackton, S. Edwards, Dustin J. Foote, Subir B. Shakya, F. Sheldon, A. Vignal, André E. R. Soares, B. Shapiro, J. González‐Solís, Joan Ferrer-Obiol, J. Rozas, M. Riutort, Anna Tigano, V. Friesen, L. Dalén, Araxi O. Urrutia, T. Székely, Yang Liu, M. G. Campana, A. Corvelo, R. Fleischer, Kim M. Rutherford, N. Gemmell, N. Dussex, H. Mouritsen, N. Thiele, K. Delmore, M. Liedvogel, A. Franke, M. Hoeppner, O. Krone, Adam M. Fudickar, Borja Milá, E. Ketterson, A. Fidler, Guillermo Friis, Á. M. Parody-Merino, P. Battley, M. Cox, N. C. B. Lima, F. Prosdocimi, T. Parchman, B. Schlinger, Bette A. Loiselle, J. Blake, H. C. Lim, L. Day, Matthew J. Fuxjager, Maude W. Baldwin, M. Braun, Morgan E. Wirthlin, R. Dikow, T. Ryder, G. Camenisch, L. Keller, Jeffrey M. DaCosta, M. Hauber, Matthew I. M. Louder, Christopher C. Witt, J. McGuire, J. Mudge, Libby C. Megna, Matthew D. Carling, Biao Wang, Scott A. Taylor, Glaucia Del‐Rio, A. Aleixo, A. T. Vasconcelos, C. Mello, J. Weir, D. Haussler, Qiye Li, Huanming Yang, Jian Wang, F. Lei, C. Rahbek, M. Gilbert, G. Graves, E. Jarvis, Benedict Paten, Guojie Zhang   +149 more
semanticscholar   +1 more source

Rational Design of Short Locked Nucleic Acid-Modified 2′-O-Methyl Antisense Oligonucleotides for Efficient Exon-Skipping In Vitro

Molecular Therapy: Nucleic Acids, 2017
Locked nucleic acid is a prominent nucleic acid analog with unprecedented target binding affinity to cDNA and RNA oligonucleotides and shows remarkable stability against nuclease degradation.
Bao T. Le, Abbie M. Adams, Susan Fletcher, Stephen D. Wilton, Rakesh N. Veedu   +4 more
doaj   +1 more source

Complete mitochondrial genome of Mekong fighting fish, Betta smaragdina (Teleostei: Osphronemidae)

Mitochondrial DNA. Part B. Resources, 2021
Mekong fighting fish (Betta smaragdina) are found in Northeast Thailand. A complete mitochondrial genome (mitogenome) of B. smaragdina was assembled and annotated.
Nararat Laopichienpong, Syed Farhan Ahmad, Worapong Singchat, Aorarat Suntronpong, Tavun Pongsanarm, Kornsuang Jangtarwan, Jakaphan Bulan, Tanawat Pansrikaew, Thitipong Panthum, Nattakan Ariyaraphong, Navapong Subpayakom, Sahabhop Dokkaew, Narongrit Muangmai, Prateep Duengkae, Kornsorn Srikulnath   +14 more
doaj   +1 more source

PanACoTA: a modular tool for massive microbial comparative genomics

bioRxiv, 2020
The study of the gene repertoires of microbial species, their pangenomes, has become a key topic of study in microbial evolution and genomics. Yet, the increasing number of genomes available complicates the establishment of the basic building blocks of ...
A. Perrin, E. Rocha
semanticscholar   +1 more source