Search Results - "Concepcion, Gregory T"

Extended haplotype-phasing of long-read de novo genome assemblies using Hi-C by Kronenberg, Zev N., Rhie, Arang, Koren, Sergey, Concepcion, Gregory T., Peluso, Paul, Munson, Katherine M., Porubsky, David, Kuhn, Kristen, Mueller, Kathryn A., Low, Wai Yee, Hiendleder, Stefan, Fedrigo, Olivier, Liachko, Ivan, Hall, Richard J., Phillippy, Adam M., Eichler, Evan E., Williams, John L., Smith, Timothy P. L., Jarvis, Erich D., Sullivan, Shawn T., Kingan, Sarah B.

“…Haplotype-resolved genome assemblies are important for understanding how combinations of variants impact phenotypes. To date, these assemblies have been best…”
Get full text

Improved assembly and variant detection of a haploid human genome using single‐molecule, high‐fidelity long reads by Vollger, Mitchell R., Logsdon, Glennis A., Audano, Peter A., Sulovari, Arvis, Porubsky, David, Peluso, Paul, Wenger, Aaron M., Concepcion, Gregory T., Kronenberg, Zev N., Munson, Katherine M., Baker, Carl, Sanders, Ashley D., Spierings, Diana C.J., Lansdorp, Peter M., Surti, Urvashi, Hunkapiller, Michael W., Eichler, Evan E.

“…The sequence and assembly of human genomes using long‐read sequencing technologies has revolutionized our understanding of structural variation and genome…”
Get full text

Haplotype-resolved de novo assembly using phased assembly graphs with hifiasm by Cheng, Haoyu, Concepcion, Gregory T., Feng, Xiaowen, Zhang, Haowen, Li, Heng

“…Haplotype-resolved de novo assembly is the ultimate solution to the study of sequence variations in a genome. However, existing algorithms either collapse…”
Get full text

From parent to gamete: vertical transmission of Symbiodinium (Dinophyceae) ITS2 sequence assemblages in the reef building coral Montipora capitata by Padilla-Gamiño, Jacqueline L, Pochon, Xavier, Bird, Christopher, Concepcion, Gregory T, Gates, Ruth D

“…Parental effects are ubiquitous in nature and in many organisms play a particularly critical role in the transfer of symbionts across generations; however,…”
Get full text

Variation in Symbiodinium ITS2 sequence assemblages among coral colonies by Stat, Michael, Bird, Christopher E, Pochon, Xavier, Chasqui, Luis, Chauka, Leonard J, Concepcion, Gregory T, Logan, Dan, Takabayashi, Misaki, Toonen, Robert J, Gates, Ruth D

“…Endosymbiotic dinoflagellates in the genus Symbiodinium are fundamentally important to the biology of scleractinian corals, as well as to a variety of other…”
Get full text

Ecomorph or endangered coral? DNA and microstructure reveal hawaiian species complexes: Montipora dilatata/flabellata/turgescens & M. patula/verrilli by Forsman, Zac H, Concepcion, Gregory T, Haverkort, Roxanne D, Shaw, Ross W, Maragos, James E, Toonen, Robert J

“…M. dilatata, M. flabellata, and M. patula and 80 other scleractinian corals were petitioned to be listed under the US Endangered Species Act (ESA), which would…”
Get full text

Fully Phased Sequence of a Diploid Human Genome Determined de Novo from the DNA of a Single Individual by Soifer, Llya, Fong, Nicole L, Yi, Nelda, Ireland, Andrea T, Lam, Irene, Sooknah, Matthew, Paw, Jonathan S, Peluso, Paul, Concepcion, Gregory T, Rank, David, Hastie, Alex R, Jojic, Vladimir, Ruby, J Graham, Botstein, David, Roy, Margaret A

“…In recent years, improved sequencing technology and computational tools have made genome assembly more accessible. Many approaches, however, generate either an…”
Get full text

Phased diploid genome assembly with single-molecule real-time sequencing by Chin, Chen-Shan, Peluso, Paul, Sedlazeck, Fritz J, Nattestad, Maria, Concepcion, Gregory T, Clum, Alicia, Dunn, Christopher, O'Malley, Ronan, Figueroa-Balderas, Rosa, Morales-Cruz, Abraham, Cramer, Grant R, Delledonne, Massimo, Luo, Chongyuan, Ecker, Joseph R, Cantu, Dario, Rank, David R, Schatz, Michael C

“…The open-source FALCON and FALCON-Unzip software utilize long-read sequencing data to generate contiguous, accurate and phased diploid assemblies, even from…”
Get full text

Accurate circular consensus long-read sequencing improves variant detection and assembly of a human genome by Wenger, Aaron M., Peluso, Paul, Rowell, William J., Chang, Pi-Chuan, Hall, Richard J., Concepcion, Gregory T., Ebler, Jana, Fungtammasan, Arkarachai, Kolesnikov, Alexey, Olson, Nathan D., Töpfer, Armin, Alonge, Michael, Mahmoud, Medhat, Qian, Yufeng, Chin, Chen-Shan, Phillippy, Adam M., Schatz, Michael C., Myers, Gene, DePristo, Mark A., Ruan, Jue, Marschall, Tobias, Sedlazeck, Fritz J., Zook, Justin M., Li, Heng, Koren, Sergey, Carroll, Andrew, Rank, David R., Hunkapiller, Michael W.

“…The DNA sequencing technologies in use today produce either highly accurate short reads or less-accurate long reads. We report the optimization of circular…”
Get full text

Assembly and annotation of 2 high-quality columbid reference genomes from sequencing of a Columba livia × Columba guinea F1 hybrid by Maclary, Emily T, Holt, Carson, Concepcion, Gregory T, Sović, Ivan, Vickrey, Anna I, Yandell, Mark, Kronenberg, Zev, Shapiro, Michael D

“…Abstract Pigeons and doves (family Columbidae) are one of the most diverse extant avian lineages, and many species have served as key models for evolutionary…”
Get full text

Dinoflagellate phylogeny revisited: Using ribosomal proteins to resolve deep branching dinoflagellate clades by Bachvaroff, Tsvetan R., Gornik, Sebastian G., Concepcion, Gregory T., Waller, Ross F., Mendez, Gregory S., Lippmeier, J. Casey, Delwiche, Charles F.

“…[Display omitted] •A 76 taxon by 75 gene dataset including 11 new dinoflagellates.•Well-resolved phylogeny at base of dinoflagellate clade and throughout most…”
Get full text

Generalist dinoflagellate endosymbionts and host genotype diversity detected from mesophotic (67-100 m depths) coral Leptoseris by Chan, Yvonne L, Pochon, Xavier, Fisher, Marla A, Wagner, Daniel, Concepcion, Gregory T, Kahng, Samuel E, Toonen, Robert J, Gates, Ruth D

“…Mesophotic corals (light-dependent corals in the deepest half of the photic zone at depths of 30-150 m) provide a unique opportunity to study the limits of the…”
Get full text

Isolation by distance across the Hawaiian Archipelago in the reef-building coral Porites lobata by POLATO, NICHOLAS R., CONCEPCION, GREGORY T., TOONEN, ROBERT J., BAUMS, ILIANA B.

“…There is an ongoing debate on the scale of pelagic larval dispersal in promoting connectivity among populations of shallow, benthic marine organisms. The…”
Get full text

Defining Boundaries for Ecosystem-Based Management : A Multispecies Case Study of Marine Connectivity across the Hawaiian Archipelago by Gaither, Michelle R., Faucci, Anuschka, Eble, Jeff A., Iacchei, Matthew, Puritz, Jonathan B., Schultz, Jennifer K., Skillings, Derek J., Timmers, Molly A., Bowen, Brian W., Toonen, Robert J., Andrews, Kimberly R., Baums, Iliana B., Bird, Christopher E., Concepcion, Gregory T., Daly-Engel, Toby S.

“…Determining the geographic scale at which to apply ecosystem-based management (EBM) has proven to be an obstacle for many marine conservation programs…”
Get full text

Dinoflagellate Expressed Sequence Tag Data Indicate Massive Transfer of Chloroplast Genes to the Nuclear Genome by Bachvaroff, Tsvetan R., Concepcion, Gregory T., Rogers, Carolyn R., Herman, Eliot M., Delwiche, Charles F.

“…The peridinin-pigmented plastids of dinoflagellates are very poorly understood, in part because of the paucity of molecular data available from these…”
Get full text

Isolation by distance across the Hawaiian Archipelago in the reef-building coralPorites lobata by POLATO, NICHOLAS R, CONCEPCION, GREGORY T, TOONEN, ROBERT J, BAUMS, ILIANA B

“…There is an ongoing debate on the scale of pelagic larval dispersal in promoting connectivity among populations of shallow, benthic marine organisms. The…”
Get full text

Development of microsatellite markers from four Hawaiian corals: Acropora cytherea, Fungia scutaria, Montipora capitata and Porites lobata by Concepcion, Gregory T., Polato, Nicholas R., Baums, Iliana B., Toonen, Robert J.

“…Comprehensive population genetic studies of coral communities are comparatively rare, because of the scarcity of population genetic markers. The Hawaiian…”
Get full text

Noncoding mitochondrial loci for corals by CONCEPCION, GREGORY T, MEDINA, MONICA, TOONEN, ROBERT J

“…We developed five degenerate primer pairs for the amplification and sequencing of two noncoding regions found in the mitochondrial genome of corals. These…”
Get full text

From Parent to Gamete: Vertical Transmission of Symbiodinium by Padilla-Gamiño, Jacqueline L, Pochon, Xavier, Bird, Christopher, Concepcion, Gregory T, Gates, Ruth D

“…Parental effects are ubiquitous in nature and in many organisms play a particularly critical role in the transfer of symbionts across generations; however,…”
Get full text

Evaluating short-read sequence data from the highly redundant, novel transcriptome of Polarella glacialis by Gibbons, Theodore R, Concepcion, Gregory T, Bachvaroff, Tsvetan R, Delwiche, Charles F

Get full text