848 results on '"Nattestad A"'
Search Results
2. Fabrication of Biomedical Electrodes Using Printing Approaches
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Rajbhandari, Grishmi, Nattestad, Andrew, Liu, Xiao, Beirne, Stephen, and Wallace, Gordon G.
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- 2024
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3. Evolutionary novelties underlie sound production in baleen whales
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Elemans, Coen P. H., Jiang, Weili, Jensen, Mikkel H., Pichler, Helena, Mussman, Bo R., Nattestad, Jacob, Wahlberg, Magnus, Zheng, Xudong, Xue, Qian, and Fitch, W. Tecumseh
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- 2024
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4. Local read haplotagging enables accurate long-read small variant calling
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Alexey Kolesnikov, Daniel Cook, Maria Nattestad, Lucas Brambrink, Brandy McNulty, John Gorzynski, Sneha Goenka, Euan A. Ashley, Miten Jain, Karen H. Miga, Benedict Paten, Pi-Chuan Chang, Andrew Carroll, and Kishwar Shafin
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Science - Abstract
Abstract Long-read sequencing technology has enabled variant detection in difficult-to-map regions of the genome and enabled rapid genetic diagnosis in clinical settings. Rapidly evolving third-generation sequencing platforms like Pacific Biosciences (PacBio) and Oxford Nanopore Technologies (ONT) are introducing newer platforms and data types. It has been demonstrated that variant calling methods based on deep neural networks can use local haplotyping information with long-reads to improve the genotyping accuracy. However, using local haplotype information creates an overhead as variant calling needs to be performed multiple times which ultimately makes it difficult to extend to new data types and platforms as they get introduced. In this work, we have developed a local haplotype approximate method that enables state-of-the-art variant calling performance with multiple sequencing platforms including PacBio Revio system, ONT R10.4 simplex and duplex data. This addition of local haplotype approximation simplifies long-read variant calling with DeepVariant.
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- 2024
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5. A draft human pangenome reference
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Liao, Wen-Wei, Asri, Mobin, Ebler, Jana, Doerr, Daniel, Haukness, Marina, Hickey, Glenn, Lu, Shuangjia, Lucas, Julian K, Monlong, Jean, Abel, Haley J, Buonaiuto, Silvia, Chang, Xian H, Cheng, Haoyu, Chu, Justin, Colonna, Vincenza, Eizenga, Jordan M, Feng, Xiaowen, Fischer, Christian, Fulton, Robert S, Garg, Shilpa, Groza, Cristian, Guarracino, Andrea, Harvey, William T, Heumos, Simon, Howe, Kerstin, Jain, Miten, Lu, Tsung-Yu, Markello, Charles, Martin, Fergal J, Mitchell, Matthew W, Munson, Katherine M, Mwaniki, Moses Njagi, Novak, Adam M, Olsen, Hugh E, Pesout, Trevor, Porubsky, David, Prins, Pjotr, Sibbesen, Jonas A, Sirén, Jouni, Tomlinson, Chad, Villani, Flavia, Vollger, Mitchell R, Antonacci-Fulton, Lucinda L, Baid, Gunjan, Baker, Carl A, Belyaeva, Anastasiya, Billis, Konstantinos, Carroll, Andrew, Chang, Pi-Chuan, Cody, Sarah, Cook, Daniel E, Cook-Deegan, Robert M, Cornejo, Omar E, Diekhans, Mark, Ebert, Peter, Fairley, Susan, Fedrigo, Olivier, Felsenfeld, Adam L, Formenti, Giulio, Frankish, Adam, Gao, Yan, Garrison, Nanibaa’ A, Giron, Carlos Garcia, Green, Richard E, Haggerty, Leanne, Hoekzema, Kendra, Hourlier, Thibaut, Ji, Hanlee P, Kenny, Eimear E, Koenig, Barbara A, Kolesnikov, Alexey, Korbel, Jan O, Kordosky, Jennifer, Koren, Sergey, Lee, HoJoon, Lewis, Alexandra P, Magalhães, Hugo, Marco-Sola, Santiago, Marijon, Pierre, McCartney, Ann, McDaniel, Jennifer, Mountcastle, Jacquelyn, Nattestad, Maria, Nurk, Sergey, Olson, Nathan D, Popejoy, Alice B, Puiu, Daniela, Rautiainen, Mikko, Regier, Allison A, Rhie, Arang, Sacco, Samuel, Sanders, Ashley D, Schneider, Valerie A, Schultz, Baergen I, Shafin, Kishwar, Smith, Michael W, Sofia, Heidi J, Abou Tayoun, Ahmad N, Thibaud-Nissen, Françoise, and Tricomi, Francesca Floriana
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Biological Sciences ,Genetics ,2.1 Biological and endogenous factors ,1.5 Resources and infrastructure (underpinning) ,Generic health relevance ,Humans ,Diploidy ,Genome ,Human ,Haplotypes ,Sequence Analysis ,DNA ,Genomics ,Reference Standards ,Cohort Studies ,Alleles ,Genetic Variation ,General Science & Technology - Abstract
Here the Human Pangenome Reference Consortium presents a first draft of the human pangenome reference. The pangenome contains 47 phased, diploid assemblies from a cohort of genetically diverse individuals1. These assemblies cover more than 99% of the expected sequence in each genome and are more than 99% accurate at the structural and base pair levels. Based on alignments of the assemblies, we generate a draft pangenome that captures known variants and haplotypes and reveals new alleles at structurally complex loci. We also add 119 million base pairs of euchromatic polymorphic sequences and 1,115 gene duplications relative to the existing reference GRCh38. Roughly 90 million of the additional base pairs are derived from structural variation. Using our draft pangenome to analyse short-read data reduced small variant discovery errors by 34% and increased the number of structural variants detected per haplotype by 104% compared with GRCh38-based workflows, which enabled the typing of the vast majority of structural variant alleles per sample.
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- 2023
6. Knowledge distillation for fast and accurate DNA sequence correction
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Belyaeva, Anastasiya, Shor, Joel, Cook, Daniel E., Shafin, Kishwar, Liu, Daniel, Töpfer, Armin, Wenger, Aaron M., Rowell, William J., Yang, Howard, Kolesnikov, Alexey, McLean, Cory Y., Nattestad, Maria, Carroll, Andrew, and Chang, Pi-Chuan
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Quantitative Biology - Genomics ,Computer Science - Machine Learning - Abstract
Accurate genome sequencing can improve our understanding of biology and the genetic basis of disease. The standard approach for generating DNA sequences from PacBio instruments relies on HMM-based models. Here, we introduce Distilled DeepConsensus - a distilled transformer-encoder model for sequence correction, which improves upon the HMM-based methods with runtime constraints in mind. Distilled DeepConsensus is 1.3x faster and 1.5x smaller than its larger counterpart while improving the yield of high quality reads (Q30) over the HMM-based method by 1.69x (vs. 1.73x for larger model). With improved accuracy of genomic sequences, Distilled DeepConsensus improves downstream applications of genomic sequence analysis such as reducing variant calling errors by 39% (34% for larger model) and improving genome assembly quality by 3.8% (4.2% for larger model). We show that the representations learned by Distilled DeepConsensus are similar between faster and slower models.
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- 2022
7. Gaps and complex structurally variant loci in phased genome assemblies
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Porubsky, David, Vollger, Mitchell R, Harvey, William T, Rozanski, Allison N, Ebert, Peter, Hickey, Glenn, Hasenfeld, Patrick, Sanders, Ashley D, Stober, Catherine, Consortium, Human Pangenome Reference, Korbel, Jan O, Paten, Benedict, Marschall, Tobias, Eichler, Evan E, Abel, Haley J, Antonacci-Fulton, Lucinda L, Asri, Mobin, Baid, Gunjan, Baker, Carl A, Belyaeva, Anastasiya, Billis, Konstantinos, Bourque, Guillaume, Buonaiuto, Silvia, Carroll, Andrew, Chaisson, Mark JP, Chang, Pi-Chuan, Chang, Xian H, Cheng, Haoyu, Chu, Justin, Cody, Sarah, Colonna, Vincenza, Cook, Daniel E, Cook-Deegan, Robert M, Cornejo, Omar E, Diekhans, Mark, Doerr, Daniel, Ebler, Jana, Eizenga, Jordan M, Fairley, Susan, Fedrigo, Olivier, Felsenfeld, Adam L, Feng, Xiaowen, Fischer, Christian, Flicek, Paul, Formenti, Giulio, Frankish, Adam, Fulton, Robert S, Gao, Yan, Garg, Shilpa, Garrison, Erik, Garrison, Nanibaa’ A, Giron, Carlos Garcia, Green, Richard E, Groza, Cristian, Guarracino, Andrea, Haggerty, Leanne, Hall, Ira M, Haukness, Marina, Haussler, David, Heumos, Simon, Hoekzema, Kendra, Hourlier, Thibaut, Howe, Kerstin, Jain, Miten, Jarvis, Erich D, Ji, Hanlee P, Kenny, Eimear E, Koenig, Barbara A, Kolesnikov, Alexey, Kordosky, Jennifer, Koren, Sergey, Lee, HoJoon, Lewis, Alexandra P, Li, Heng, Liao, Wen-Wei, Lu, Shuangjia, Lu, Tsung-Yu, Lucas, Julian K, Magalhães, Hugo, Marco-Sola, Santiago, Marijon, Pierre, Markello, Charles, Martin, Fergal J, McCartney, Ann, McDaniel, Jennifer, Miga, Karen H, Mitchell, Matthew W, Monlong, Jean, Mountcastle, Jacquelyn, Munson, Katherine M, Mwaniki, Moses Njagi, Nattestad, Maria, Novak, Adam M, and Nurk, Sergey
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Biological Sciences ,Bioinformatics and Computational Biology ,Genetics ,Human Genome ,Humans ,DNA ,Satellite ,Polymorphism ,Genetic ,Haplotypes ,Segmental Duplications ,Genomic ,Sequence Analysis ,DNA ,Human Pangenome Reference Consortium ,Medical and Health Sciences ,Bioinformatics - Abstract
There has been tremendous progress in phased genome assembly production by combining long-read data with parental information or linked-read data. Nevertheless, a typical phased genome assembly generated by trio-hifiasm still generates more than 140 gaps. We perform a detailed analysis of gaps, assembly breaks, and misorientations from 182 haploid assemblies obtained from a diversity panel of 77 unique human samples. Although trio-based approaches using HiFi are the current gold standard, chromosome-wide phasing accuracy is comparable when using Strand-seq instead of parental data. Importantly, the majority of assembly gaps cluster near the largest and most identical repeats (including segmental duplications [35.4%], satellite DNA [22.3%], or regions enriched in GA/AT-rich DNA [27.4%]). Consequently, 1513 protein-coding genes overlap assembly gaps in at least one haplotype, and 231 are recurrently disrupted or missing from five or more haplotypes. Furthermore, we estimate that 6-7 Mbp of DNA are misorientated per haplotype irrespective of whether trio-free or trio-based approaches are used. Of these misorientations, 81% correspond to bona fide large inversion polymorphisms in the human species, most of which are flanked by large segmental duplications. We also identify large-scale alignment discontinuities consistent with 11.9 Mbp of deletions and 161.4 Mbp of insertions per haploid genome. Although 99% of this variation corresponds to satellite DNA, we identify 230 regions of euchromatic DNA with frequent expansions and contractions, nearly half of which overlap with 197 protein-coding genes. Such variable and incompletely assembled regions are important targets for future algorithmic development and pangenome representation.
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- 2023
8. Haplotype-aware variant calling with PEPPER-Margin-DeepVariant enables high accuracy in nanopore long-reads
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Shafin, Kishwar, Pesout, Trevor, Chang, Pi-Chuan, Nattestad, Maria, Kolesnikov, Alexey, Goel, Sidharth, Baid, Gunjan, Kolmogorov, Mikhail, Eizenga, Jordan M, Miga, Karen H, Carnevali, Paolo, Jain, Miten, Carroll, Andrew, and Paten, Benedict
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Biological Sciences ,Bioinformatics and Computational Biology ,Genetics ,Human Genome ,Nanotechnology ,Bioengineering ,HIV/AIDS ,Generic health relevance ,Genes ,Genome ,Human ,Haplotypes ,High-Throughput Nucleotide Sequencing ,Humans ,Molecular Sequence Annotation ,Nanopores ,Polymorphism ,Single Nucleotide ,Sequence Analysis ,DNA ,Software ,Technology ,Medical and Health Sciences ,Developmental Biology ,Biological sciences - Abstract
Long-read sequencing has the potential to transform variant detection by reaching currently difficult-to-map regions and routinely linking together adjacent variations to enable read-based phasing. Third-generation nanopore sequence data have demonstrated a long read length, but current interpretation methods for their novel pore-based signal have unique error profiles, making accurate analysis challenging. Here, we introduce a haplotype-aware variant calling pipeline, PEPPER-Margin-DeepVariant, that produces state-of-the-art variant calling results with nanopore data. We show that our nanopore-based method outperforms the short-read-based single-nucleotide-variant identification method at the whole-genome scale and produces high-quality single-nucleotide variants in segmental duplications and low-mappability regions where short-read-based genotyping fails. We show that our pipeline can provide highly contiguous phase blocks across the genome with nanopore reads, contiguously spanning between 85% and 92% of annotated genes across six samples. We also extend PEPPER-Margin-DeepVariant to PacBio HiFi data, providing an efficient solution with superior performance over the current WhatsHap-DeepVariant standard. Finally, we demonstrate de novo assembly polishing methods that use nanopore and PacBio HiFi reads to produce diploid assemblies with high accuracy (Q35+ nanopore-polished and Q40+ PacBio HiFi-polished).
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- 2021
9. DeepConsensus improves the accuracy of sequences with a gap-aware sequence transformer
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Baid, Gunjan, Cook, Daniel E., Shafin, Kishwar, Yun, Taedong, Llinares-López, Felipe, Berthet, Quentin, Belyaeva, Anastasiya, Töpfer, Armin, Wenger, Aaron M., Rowell, William J., Yang, Howard, Kolesnikov, Alexey, Ammar, Waleed, Vert, Jean-Philippe, Vaswani, Ashish, McLean, Cory Y., Nattestad, Maria, Chang, Pi-Chuan, and Carroll, Andrew
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- 2023
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10. Unzipping chemical bond of non-layered bulk structures to form ultrathin nanocrystals
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Lin, Liangxu, Wu, Chang, Huang, Juntong, Nattestad, Andrew, Chen, Jun, Wallace, Gordon G., and Zhang, Shaowei
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Condensed Matter - Materials Science - Abstract
The rich electronic and band structures of monolayered crystals distinguished from their layered bulk counterparts offer versatile physical/chemical properties and applications.1-5 Their fabrications, particularly the top-down "exfoliations", are successful promised by the weak Van der Waals force between monolayers.6-9 Differentially, un-zipping ultra-thin crystals (e.g. with only one layer of crystal plane) from non-layered structures is highly challenging due to the strong chemical bond between planes and atoms. Alterative finely controlled growth of these ultra-thin materials is not really successful. This work demonstrates how a technique can be used to unzip and disintegrate ultra-thin crystal plane (e.g. monolayered nanocrystals and nanosheets) from bulk non-layered structures (ZnO, alpha/belta-MnO2, TiO2, alpha-TiB2), and present how the basic optical properties changed to distinguish from their bulk phases. The work here gives a strong tool kit to various novel 2D non-layered nanomaterials, providing significant contributions to the family of two-dimensional materials, potentially paving the way for various practical applications., Comment: 23 pages, 4 figures in the main manuscript, 13 figures in the supporting information part
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- 2020
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11. Pan-conserved segment tags identify ultra-conserved sequences across assemblies in the human pangenome
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Liao, Wen-Wei, Asri, Mobin, Ebler, Jana, Doerr, Daniel, Haukness, Marina, Hickey, Glenn, Lu, Shuangjia, Lucas, Julian K., Monlong, Jean, Abel, Haley J., Buonaiuto, Silvia, Chang, Xian H., Cheng, Haoyu, Chu, Justin, Colonna, Vincenza, Eizenga, Jordan M., Feng, Xiaowen, Fischer, Christian, Fulton, Robert S., Garg, Shilpa, Groza, Cristian, Guarracino, Andrea, Harvey, William T., Heumos, Simon, Howe, Kerstin, Jain, Miten, Lu, Tsung-Yu, Markello, Charles, Martin, Fergal J., Mitchell, Matthew W., Munson, Katherine M., Mwaniki, Moses Njagi, Novak, Adam M., Olsen, Hugh E., Pesout, Trevor, Porubsky, David, Prins, Pjotr, Sibbesen, Jonas A., Tomlinson, Chad, Villani, Flavia, Vollger, Mitchell R., Antonacci-Fulton, Lucinda L., Baid, Gunjan, Baker, Carl A., Belyaeva, Anastasiya, Billis, Konstantinos, Carroll, Andrew, Chang, Pi-Chuan, Cody, Sarah, Cook, Daniel E., Cornejo, Omar E., Diekhans, Mark, Ebert, Peter, Fairley, Susan, Fedrigo, Olivier, Felsenfeld, Adam L., Formenti, Giulio, Frankish, Adam, Gao, Yan, Giron, Carlos Garcia, Green, Richard E., Haggerty, Leanne, Hoekzema, Kendra, Hourlier, Thibaut, Ji, Hanlee P., Kolesnikov, Alexey, Korbel, Jan O., Kordosky, Jennifer, Lee, HoJoon, Lewis, Alexandra P., Magalhães, Hugo, Marco-Sola, Santiago, Marijon, Pierre, McDaniel, Jennifer, Mountcastle, Jacquelyn, Nattestad, Maria, Olson, Nathan D., Puiu, Daniela, Regier, Allison A., Rhie, Arang, Sacco, Samuel, Sanders, Ashley D., Schneider, Valerie A., Schultz, Baergen I., Shafin, Kishwar, Sirén, Jouni, Smith, Michael W., Sofia, Heidi J., Abou Tayoun, Ahmad N., Thibaud-Nissen, Françoise, Tricomi, Francesca Floriana, Wagner, Justin, Wood, Jonathan M.D., Zimin, Aleksey V., Popejoy, Alice B., Bourque, Guillaume, Chaisson, Mark J.P., Flicek, Paul, Phillippy, Adam M., Zook, Justin M., Eichler, Evan E., Haussler, David, Jarvis, Erich D., Miga, Karen H., Wang, Ting, Garrison, Erik, Marschall, Tobias, Hall, Ira, Li, Heng, Paten, Benedict, Greer, Stephanie U., Pavlichin, Dmitri S., Zhou, Bo, Urban, Alexander E., and Weissman, Tsachy
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- 2023
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12. Scale up of reactors for carbon dioxide reduction
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Nattestad, Andrew, Wagner, Klaudia, and Wallace, Gordon G.
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- 2023
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13. Enhanced photoactivity and selectivity over BiOI-decorated Bi2WO6 microflower for selective oxidation of benzylamine: Role of BiOI and mechanism
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Tantraviwat, Doldet, Nattestad, Andrew, Chen, Jun, and Inceesungvorn, Burapat
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- 2023
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14. Accelerated identification of disease-causing variants with ultra-rapid nanopore genome sequencing
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Goenka, Sneha D., Gorzynski, John E., Shafin, Kishwar, Fisk, Dianna G., Pesout, Trevor, Jensen, Tanner D., Monlong, Jean, Chang, Pi-Chuan, Baid, Gunjan, Bernstein, Jonathan A., Christle, Jeffrey W., Dalton, Karen P., Garalde, Daniel R., Grove, Megan E., Guillory, Joseph, Kolesnikov, Alexey, Nattestad, Maria, Ruzhnikov, Maura R. Z., Samadi, Mehrzad, Sethia, Ankit, Spiteri, Elizabeth, Wright, Christopher J., Xiong, Katherine, Zhu, Tong, Jain, Miten, Sedlazeck, Fritz J., Carroll, Andrew, Paten, Benedict, and Ashley, Euan A.
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- 2022
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15. PrecisionFDA Truth Challenge V2: Calling variants from short and long reads in difficult-to-map regions
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Olson, Nathan D., Wagner, Justin, McDaniel, Jennifer, Stephens, Sarah H., Westreich, Samuel T., Prasanna, Anish G., Johanson, Elaine, Boja, Emily, Maier, Ezekiel J., Serang, Omar, Jáspez, David, Lorenzo-Salazar, José M., Muñoz-Barrera, Adrián, Rubio-Rodríguez, Luis A., Flores, Carlos, Kyriakidis, Konstantinos, Malousi, Andigoni, Shafin, Kishwar, Pesout, Trevor, Jain, Miten, Paten, Benedict, Chang, Pi-Chuan, Kolesnikov, Alexey, Nattestad, Maria, Baid, Gunjan, Goel, Sidharth, Yang, Howard, Carroll, Andrew, Eveleigh, Robert, Bourgey, Mathieu, Bourque, Guillaume, Li, Gen, Ma, ChouXian, Tang, LinQi, Du, YuanPing, Zhang, ShaoWei, Morata, Jordi, Tonda, Raúl, Parra, Genís, Trotta, Jean-Rémi, Brueffer, Christian, Demirkaya-Budak, Sinem, Kabakci-Zorlu, Duygu, Turgut, Deniz, Kalay, Özem, Budak, Gungor, Narcı, Kübra, Arslan, Elif, Brown, Richard, Johnson, Ivan J., Dolgoborodov, Alexey, Semenyuk, Vladimir, Jain, Amit, Tetikol, H. Serhat, Jain, Varun, Ruehle, Mike, Lajoie, Bryan, Roddey, Cooper, Catreux, Severine, Mehio, Rami, Ahsan, Mian Umair, Liu, Qian, Wang, Kai, Ebrahim Sahraeian, Sayed Mohammad, Fang, Li Tai, Mohiyuddin, Marghoob, Hung, Calvin, Jain, Chirag, Feng, Hanying, Li, Zhipan, Chen, Luoqi, Sedlazeck, Fritz J., and Zook, Justin M.
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- 2022
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16. Optical Measurements Using LED Discharge Photometry (PEDD Approach): Critical Timing Effects Identified & Corrected.
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Cormac D. Fay and Andrew Nattestad
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- 2022
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17. Complex rearrangements and oncogene amplifications revealed by long-read DNA and RNA sequencing of a breast cancer cell line
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Nattestad, Maria, Goodwin, Sara, Ng, Karen, Baslan, Timour, Sedlazeck, Fritz J, Rescheneder, Philipp, Garvin, Tyler, Fang, Han, Gurtowski, James, Hutton, Elizabeth, Tseng, Elizabeth, Chin, Chen-Shan, Beck, Timothy, Sundaravadanam, Yogi, Kramer, Melissa, Antoniou, Eric, McPherson, John D, Hicks, James, McCombie, W Richard, and Schatz, Michael C
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Biological Sciences ,Bioinformatics and Computational Biology ,Genetics ,Human Genome ,Breast Cancer ,Cancer ,Biotechnology ,2.1 Biological and endogenous factors ,Aetiology ,Breast Neoplasms ,Female ,Gene Amplification ,Gene Rearrangement ,Genome ,Human ,Genomic Structural Variation ,High-Throughput Nucleotide Sequencing ,Humans ,MCF-7 Cells ,Oncogenes ,Receptor ,ErbB-2 ,Repetitive Sequences ,Nucleic Acid ,Transcriptome ,Receptor ,erbB-2 ,Medical and Health Sciences ,Bioinformatics - Abstract
The SK-BR-3 cell line is one of the most important models for HER2+ breast cancers, which affect one in five breast cancer patients. SK-BR-3 is known to be highly rearranged, although much of the variation is in complex and repetitive regions that may be underreported. Addressing this, we sequenced SK-BR-3 using long-read single molecule sequencing from Pacific Biosciences and develop one of the most detailed maps of structural variations (SVs) in a cancer genome available, with nearly 20,000 variants present, most of which were missed by short-read sequencing. Surrounding the important ERBB2 oncogene (also known as HER2), we discover a complex sequence of nested duplications and translocations, suggesting a punctuated progression. Full-length transcriptome sequencing further revealed several novel gene fusions within the nested genomic variants. Combining long-read genome and transcriptome sequencing enables an in-depth analysis of how SVs disrupt the genome and sheds new light on the complex mechanisms involved in cancer genome evolution.
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- 2018
18. Solvothermally synthesized anatase TiO2 nanoparticles for photoanodes in dye-sensitized solar cells
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Kadhim Al-Attafi, Andrew Nattestad, Hamzeh Qutaish, Min-Sik Park, Lok Kumar Shrestha, Katsuhiko Ariga, Shi Xue Dou, and Jung Ho Kim
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102 porous / nanoporous / nanostructured materials ,209 solar cell / photovoltaics ,Materials of engineering and construction. Mechanics of materials ,TA401-492 ,Biotechnology ,TP248.13-248.65 - Abstract
Many researchers working on the development of dye-sensitized solar cells (DSCs) continue to focus on the synthesis of photoanode materials with high surface area, along with high light scattering ability to enhance light harvesting efficiency (LHE). Meanwhile, dye packing density, which also impacts the LHE significantly, is often overlooked. Solvothermally synthesized anatase TiO2 nanoparticles (SANP) were obtained by a new and simple approach using a mixed solvent, ethanol and acetic acid. SANP were applied in photoanodes of DSCs using either metal-free organic dye (D149) or organometallic (N719) dyes. Dye loading (packing density) was correlated with the isoelectric point (IEP) in addition to light scattering effects were shown to determine the devices photovoltaic efficiency (PCE); specifically when compared with ones employing commercially available TiO2 nanoparticles. SANP photoanodes sensitized with D149 dye were found to be optimised at 10 µm, yielding a PCE of 6.9%, superior to for transparent or transparent + scattering films from the commercial source (5.6% and 5.9%, respectively). Furthermore, a 7.7% PCE was achieved using a SANP photoanode sensitized with N719 dye, with 7.2% seen for the transparent photoanode and 7.9% with a scattering layer. The high PCEs of of SANP devices are attributed to the high dye loading capability in addition to light scattering. A further point of interest is that even with the increased reactivity of the surface towards dye adsorption, we did not observe any significant increase in recombination with the redox mediator, presumably due to the increased dye loading providing better shielding.
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- 2021
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19. Tuning product selectivity and visible-light-driven activity in oxidative coupling of amines to imines: A case study of BiOIxCl1−x photocatalyst
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Anuchai, Supanan, Tantraviwat, Doldet, Nattestad, Andrew, Chen, Jun, and Inceesungvorn, Burapat
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- 2021
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20. Effect of exposed facets of bismuth vanadate, controlled by ethanolamine, on oxidative coupling of primary amines
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Boochakiat, Sadanan, Tantraviwat, Doldet, Thongsook, Oraphan, Pornsuwan, Soraya, Nattestad, Andrew, Chen, Jun, Channei, Duangdao, and Inceesungvorn, Burapat
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- 2021
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21. From Fugu With Love: New Capabilities for the Web.
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Thomas Steiner, Pete LePage, Thomas Nattestad, Rory McClelland, Alex Russell, and Dominick Ng
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- 2020
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22. Simple preparation of nitrogen-doped TiO2 and its performance in selective oxidation of benzyl alcohol and benzylamine under visible light
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Japa, Mattawan, Tantraviwat, Doldet, Phasayavan, Witchaya, Nattestad, Andrew, Chen, Jun, and Inceesungvorn, Burapat
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- 2021
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23. Phased diploid genome assembly with single-molecule real-time sequencing.
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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, and Schatz, Michael C
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Humans ,Basidiomycota ,Arabidopsis ,Vitis ,DNA ,Fungal ,DNA ,Plant ,Sequence Analysis ,DNA ,Genomics ,Haplotypes ,Heterozygote ,Diploidy ,Polymorphism ,Single Nucleotide ,Genome ,Fungal ,Genome ,Plant ,Algorithms ,Biological Sciences ,Technology ,Medical and Health Sciences ,Developmental Biology - Abstract
While genome assembly projects have been successful in many haploid and inbred species, the assembly of noninbred or rearranged heterozygous genomes remains a major challenge. To address this challenge, we introduce the open-source FALCON and FALCON-Unzip algorithms (https://github.com/PacificBiosciences/FALCON/) to assemble long-read sequencing data into highly accurate, contiguous, and correctly phased diploid genomes. We generate new reference sequences for heterozygous samples including an F1 hybrid of Arabidopsis thaliana, the widely cultivated Vitis vinifera cv. Cabernet Sauvignon, and the coral fungus Clavicorona pyxidata, samples that have challenged short-read assembly approaches. The FALCON-based assemblies are substantially more contiguous and complete than alternate short- or long-read approaches. The phased diploid assembly enabled the study of haplotype structure and heterozygosities between homologous chromosomes, including the identification of widespread heterozygous structural variation within coding sequences.
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- 2016
24. A Curricular Reform Viewed through Bolman and Deal's Organizational Frames
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Lyon, Lucinda, Nadershahi, Nader, Nattestad, Anders, Kachalia, Parag, and Hammer, Dan
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Professions exist to serve the needs of society and, in the case of the dental profession, patients. Academic dental institutions strive to help meet these needs by educating and developing future practitioners, educators, researchers, and citizen leaders who serve the community and shape the changing environment in which they provide care. As patient needs, practice patterns, scientific evidence, and economic conditions evolve, dental education must respond with self-assessment and innovation. Guiding any institution through authentic reform requires a number of strategies. Lee Bolman and Terrance Deal suggest four organizational constructs, or frames, through which to observe and navigate a complex organization: Structural, Human Resource, Political and Symbolic. This qualitative case study examines a major curricular reform initiative in a North American school of dentistry through Bolman and Deal's organizational frames.
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- 2014
25. Knowledge distillation for fast and accurate DNA sequence correction.
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Anastasiya Belyaeva, Joel Shor, Daniel E. Cook, Kishwar Shafin, Daniel Liu, Armin Töpfer, Aaron M. Wenger, William J. Rowell, Howard Yang, Alexey Kolesnikov, Cory Y. McLean, Maria Nattestad, Andrew Carroll, and Pi-Chuan Chang
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- 2022
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26. BigTop: a three-dimensional virtual reality tool for GWAS visualization
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Samuel T. Westreich, Maria Nattestad, and Christopher Meyer
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Virtual reality ,User Interface ,Visualization ,GWAS ,Manhattan plot ,Data plotting ,Computer applications to medicine. Medical informatics ,R858-859.7 ,Biology (General) ,QH301-705.5 - Abstract
Abstract Background Genome-wide association studies (GWAS) are typically visualized using a two-dimensional Manhattan plot, displaying chromosomal location of SNPs along the x-axis and the negative log-10 of their p-value on the y-axis. This traditional plot provides a broad overview of the results, but offers little opportunity for interaction or expansion of specific regions, and is unable to show additional dimensions of the dataset. Results We created BigTop, a visualization framework in virtual reality (VR), designed to render a Manhattan plot in three dimensions, wrapping the graph around the user in a simulated cylindrical room. BigTop uses the z-axis to display minor allele frequency of each SNP, allowing for the identification of allelic variants of genes. BigTop also offers additional interactivity, allowing users to select any individual SNP and receive expanded information, including SNP name, exact values, and gene location, if applicable. BigTop is built in JavaScript using the React and A-Frame frameworks, and can be rendered using commercially available VR headsets or in a two-dimensional web browser such as Google Chrome. Data is read into BigTop in JSON format, and can be provided as either JSON or a tab-separated text file. Conclusions Using additional dimensions and interactivity options offered through VR, we provide a new, interactive, three-dimensional representation of the traditional Manhattan plot for displaying and exploring GWAS data.
- Published
- 2020
- Full Text
- View/download PDF
27. Ribbon: intuitive visualization for complex genomic variation.
- Author
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Maria Nattestad, Robert Aboukhalil, Chen-Shan Chin, and Michael C. Schatz
- Published
- 2021
- Full Text
- View/download PDF
28. A draft human pangenome reference
- Author
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Wen-Wei Liao, Mobin Asri, Jana Ebler, Daniel Doerr, Marina Haukness, Glenn Hickey, Shuangjia Lu, Julian K. Lucas, Jean Monlong, Haley J. Abel, Silvia Buonaiuto, Xian H. Chang, Haoyu Cheng, Justin Chu, Vincenza Colonna, Jordan M. Eizenga, Xiaowen Feng, Christian Fischer, Robert S. Fulton, Shilpa Garg, Cristian Groza, Andrea Guarracino, William T. Harvey, Simon Heumos, Kerstin Howe, Miten Jain, Tsung-Yu Lu, Charles Markello, Fergal J. Martin, Matthew W. Mitchell, Katherine M. Munson, Moses Njagi Mwaniki, Adam M. Novak, Hugh E. Olsen, Trevor Pesout, David Porubsky, Pjotr Prins, Jonas A. Sibbesen, Jouni Sirén, Chad Tomlinson, Flavia Villani, Mitchell R. Vollger, Lucinda L. Antonacci-Fulton, Gunjan Baid, Carl A. Baker, Anastasiya Belyaeva, Konstantinos Billis, Andrew Carroll, Pi-Chuan Chang, Sarah Cody, Daniel E. Cook, Robert M. Cook-Deegan, Omar E. Cornejo, Mark Diekhans, Peter Ebert, Susan Fairley, Olivier Fedrigo, Adam L. Felsenfeld, Giulio Formenti, Adam Frankish, Yan Gao, Nanibaa’ A. Garrison, Carlos Garcia Giron, Richard E. Green, Leanne Haggerty, Kendra Hoekzema, Thibaut Hourlier, Hanlee P. Ji, Eimear E. Kenny, Barbara A. Koenig, Alexey Kolesnikov, Jan O. Korbel, Jennifer Kordosky, Sergey Koren, HoJoon Lee, Alexandra P. Lewis, Hugo Magalhães, Santiago Marco-Sola, Pierre Marijon, Ann McCartney, Jennifer McDaniel, Jacquelyn Mountcastle, Maria Nattestad, Sergey Nurk, Nathan D. Olson, Alice B. Popejoy, Daniela Puiu, Mikko Rautiainen, Allison A. Regier, Arang Rhie, Samuel Sacco, Ashley D. Sanders, Valerie A. Schneider, Baergen I. Schultz, Kishwar Shafin, Michael W. Smith, Heidi J. Sofia, Ahmad N. Abou Tayoun, Françoise Thibaud-Nissen, Francesca Floriana Tricomi, Justin Wagner, Brian Walenz, Jonathan M. D. Wood, Aleksey V. Zimin, Guillaume Bourque, Mark J. P. Chaisson, Paul Flicek, Adam M. Phillippy, Justin M. Zook, Evan E. Eichler, David Haussler, Ting Wang, Erich D. Jarvis, Karen H. Miga, Erik Garrison, Tobias Marschall, Ira M. Hall, Heng Li, and Benedict Paten
- Subjects
Cancer Research ,Multidisciplinary - Abstract
Here the Human Pangenome Reference Consortium presents a first draft of the human pangenome reference. The pangenome contains 47 phased, diploid assemblies from a cohort of genetically diverse individuals1. These assemblies cover more than 99% of the expected sequence in each genome and are more than 99% accurate at the structural and base pair levels. Based on alignments of the assemblies, we generate a draft pangenome that captures known variants and haplotypes and reveals new alleles at structurally complex loci. We also add 119 million base pairs of euchromatic polymorphic sequences and 1,115 gene duplications relative to the existing reference GRCh38. Roughly 90 million of the additional base pairs are derived from structural variation. Using our draft pangenome to analyse short-read data reduced small variant discovery errors by 34% and increased the number of structural variants detected per haplotype by 104% compared with GRCh38-based workflows, which enabled the typing of the vast majority of structural variant alleles per sample.
- Published
- 2023
29. 3D Printing for Electrocatalytic Applications
- Author
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Lee, Chong-Yong, Taylor, Adam C., Nattestad, Andrew, Beirne, Stephen, and Wallace, Gordon G.
- Published
- 2019
- Full Text
- View/download PDF
30. Ultrasonic spray deposition of TiO2 electron transport layers for reproducible and high efficiency hybrid perovskite solar cells
- Author
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Sun, Jingsong, Pascoe, Alexander R., Meyer, Steffen, Wu, Qijie, Della Gaspera, Enrico, Raga, Sonia R., Zhang, Tian, Nattestad, Andrew, Bach, Udo, Cheng, Yi-Bing, and Jasieniak, Jacek J.
- Published
- 2019
- Full Text
- View/download PDF
31. Cubic aggregates of Zn2SnO4 nanoparticles and their application in dye-sensitized solar cells
- Author
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Al-Attafi, Kadhim, Jawdat, Fanar Hussein, Qutaish, Hamzeh, Hayes, Patricia, Al-Keisy, Amar, Shim, Kyubin, Yamauchi, Yusuke, Dou, Shi Xue, Nattestad, Andrew, and Kim, Jung Ho
- Published
- 2019
- Full Text
- View/download PDF
32. A Novel Cryogenic Approach to 3D Printing Cytocompatible, Conductive, Hydrogel-Based Inks.
- Author
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Zadeh Naseri, Aida Shoushtari, Fay, Cormac, Nattestad, Andrew, Ryder, Gregory, Sayyar, Sepidar, Zhilian Yue, Xiao Liu, Officer, David L., and Wallace, Gordon G.
- Published
- 2024
- Full Text
- View/download PDF
33. A Study of Redox Mediator Types and Their Quenching Effects on the Triplet–Triplet Annihilation Photon Upconversion Process
- Author
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Hamzawy, Sameh, primary, Wagner, Pawel, additional, Mori, Takeshi, additional, Al-Attafi, Kadhim, additional, Mozer, Attila J., additional, and Nattestad, Andrew, additional
- Published
- 2023
- Full Text
- View/download PDF
34. Local read haplotagging enables accurate long-read small variant calling
- Author
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Kolesnikov, Alexey, primary, Cook, Daniel E., additional, Nattestad, Maria, additional, Ashley, Euan A., additional, Gorzynski, John, additional, Goenka, Sneha D., additional, Jain, Miten, additional, McNulty, Brandy, additional, Miga, Karen H., additional, Paten, Benedict, additional, Chang, Pi-Chuan, additional, Carroll, Andrew, additional, and Shafin, Kishwar, additional
- Published
- 2023
- Full Text
- View/download PDF
35. Accurate human genome analysis with Element Avidity sequencing
- Author
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Carroll, Andrew, primary, Kolesnikov, Alexey, additional, Cook, Daniel E., additional, Brambrink, Lucas, additional, Wiseman, Kelly N., additional, Billings, Sophie M., additional, Kruglyak, Semyon, additional, Lajoie, Bryan R., additional, Zhao, June, additional, Levy, Shawn E, additional, McLean, Cory Y, additional, Shafin, Kishwar, additional, Nattestad, Maria, additional, and Chang, Pi-Chuan, additional
- Published
- 2023
- Full Text
- View/download PDF
36. Pan-conserved segment tags identify ultra-conserved sequences across assemblies in the human pangenome
- Author
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Lee, HoJoon, primary, Greer, Stephanie U., additional, Pavlichin, Dmitri S., additional, Zhou, Bo, additional, Urban, Alexander E., additional, Weissman, Tsachy, additional, Ji, Hanlee P., additional, Liao, Wen-Wei, additional, Asri, Mobin, additional, Ebler, Jana, additional, Doerr, Daniel, additional, Haukness, Marina, additional, Hickey, Glenn, additional, Lu, Shuangjia, additional, Lucas, Julian K., additional, Monlong, Jean, additional, Abel, Haley J., additional, Buonaiuto, Silvia, additional, Chang, Xian H., additional, Cheng, Haoyu, additional, Chu, Justin, additional, Colonna, Vincenza, additional, Eizenga, Jordan M., additional, Feng, Xiaowen, additional, Fischer, Christian, additional, Fulton, Robert S., additional, Garg, Shilpa, additional, Groza, Cristian, additional, Guarracino, Andrea, additional, Harvey, William T., additional, Heumos, Simon, additional, Howe, Kerstin, additional, Jain, Miten, additional, Lu, Tsung-Yu, additional, Markello, Charles, additional, Martin, Fergal J., additional, Mitchell, Matthew W., additional, Munson, Katherine M., additional, Mwaniki, Moses Njagi, additional, Novak, Adam M., additional, Olsen, Hugh E., additional, Pesout, Trevor, additional, Porubsky, David, additional, Prins, Pjotr, additional, Sibbesen, Jonas A., additional, Tomlinson, Chad, additional, Villani, Flavia, additional, Vollger, Mitchell R., additional, Antonacci-Fulton, Lucinda L., additional, Baid, Gunjan, additional, Baker, Carl A., additional, Belyaeva, Anastasiya, additional, Billis, Konstantinos, additional, Carroll, Andrew, additional, Chang, Pi-Chuan, additional, Cody, Sarah, additional, Cook, Daniel E., additional, Cornejo, Omar E., additional, Diekhans, Mark, additional, Ebert, Peter, additional, Fairley, Susan, additional, Fedrigo, Olivier, additional, Felsenfeld, Adam L., additional, Formenti, Giulio, additional, Frankish, Adam, additional, Gao, Yan, additional, Giron, Carlos Garcia, additional, Green, Richard E., additional, Haggerty, Leanne, additional, Hoekzema, Kendra, additional, Hourlier, Thibaut, additional, Kolesnikov, Alexey, additional, Korbel, Jan O., additional, Kordosky, Jennifer, additional, Lee, HoJoon, additional, Lewis, Alexandra P., additional, Magalhães, Hugo, additional, Marco-Sola, Santiago, additional, Marijon, Pierre, additional, McDaniel, Jennifer, additional, Mountcastle, Jacquelyn, additional, Nattestad, Maria, additional, Olson, Nathan D., additional, Puiu, Daniela, additional, Regier, Allison A., additional, Rhie, Arang, additional, Sacco, Samuel, additional, Sanders, Ashley D., additional, Schneider, Valerie A., additional, Schultz, Baergen I., additional, Shafin, Kishwar, additional, Sirén, Jouni, additional, Smith, Michael W., additional, Sofia, Heidi J., additional, Abou Tayoun, Ahmad N., additional, Thibaud-Nissen, Françoise, additional, Tricomi, Francesca Floriana, additional, Wagner, Justin, additional, Wood, Jonathan M.D., additional, Zimin, Aleksey V., additional, Popejoy, Alice B., additional, Bourque, Guillaume, additional, Chaisson, Mark J.P., additional, Flicek, Paul, additional, Phillippy, Adam M., additional, Zook, Justin M., additional, Eichler, Evan E., additional, Haussler, David, additional, Jarvis, Erich D., additional, Miga, Karen H., additional, Wang, Ting, additional, Garrison, Erik, additional, Marschall, Tobias, additional, Hall, Ira, additional, Li, Heng, additional, and Paten, Benedict, additional
- Published
- 2023
- Full Text
- View/download PDF
37. Advances in Optical Based Turbidity Sensing Using LED Photometry (PEDD).
- Author
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Cormac D. Fay and Andrew Nattestad
- Published
- 2022
- Full Text
- View/download PDF
38. LED PEDD Discharge Photometry: Effects of Software Driven Measurements for Sensing Applications.
- Author
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Cormac D. Fay and Andrew Nattestad
- Published
- 2022
- Full Text
- View/download PDF
39. Using dried blood spot samples from a trio for linked-read whole-exome sequencing
- Author
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Mortensen, Ólavur, Lydersen, Leivur Nattestad, Apol, Katrin Didriksen, Andorsdóttir, Guðrið, Steig, Bjarni á, and Gregersen, Noomi Oddmarsdóttir
- Published
- 2019
- Full Text
- View/download PDF
40. Enhanced photoactivity and selectivity over BiOI-decorated Bi2WO6 microflower for selective oxidation of benzylamine: Role of BiOI and mechanism
- Author
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Doldet Tantraviwat, Andrew Nattestad, Jun Chen, and Burapat Inceesungvorn
- Subjects
Biomaterials ,Colloid and Surface Chemistry ,Surfaces, Coatings and Films ,Electronic, Optical and Magnetic Materials - Published
- 2023
41. Advances in Optical Based Turbidity Sensing Using LED Photometry (PEDD)
- Author
-
Cormac D. Fay and Andrew Nattestad
- Subjects
turbidity ,NTU ,water ,quality ,PEDD ,photodiode ,Chemical technology ,TP1-1185 - Abstract
Turbidity is one of the primary metrics to determine water quality in terms of health and environmental concerns, however analysis typically takes place in centralized facilities, with samples periodically collected and transported there. Large scale autonomous deployments (WSNs) are impeded by both initial and per measurement costs. In this study we employ a Paired Emitter-Detector Diode (PEDD) technique to quantitatively measure turbidity using analytical grade calibration standards. Our PEDD approach compares favorably against more conventional photodiode-LED arrangements in terms of spectral sensitivity, cost, power use, sensitivity, limit of detection, and physical arrangement as per the ISO 7027 turbidity sensing standard. The findings show that the PEDD technique was superior in all aforementioned aspects. It is therefore more ideal for low-cost, low-power, IoT deployed sensors. The significance of these findings can lead to environmental deployments that greatly lower the device and per-measurement costs.
- Published
- 2021
- Full Text
- View/download PDF
42. Understanding chemically processed solar cells based on quantum dots
- Author
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Victor Malgras, Andrew Nattestad, Jung Ho Kim, Shi Xue Dou, and Yusuke Yamauchi
- Subjects
Solar cells ,photovoltaics ,quantum dots ,lead sulfide ,heterojunction ,Materials of engineering and construction. Mechanics of materials ,TA401-492 ,Biotechnology ,TP248.13-248.65 - Abstract
Photovoltaic energy conversion is one of the best alternatives to fossil fuel combustion. Petroleum resources are now close to depletion and their combustion is known to be responsible for the release of a considerable amount of greenhouse gases and carcinogenic airborne particles. Novel third-generation solar cells include a vast range of device designs and materials aiming to overcome the factors limiting the current technologies. Among them, quantum dot-based devices showed promising potential both as sensitizers and as colloidal nanoparticle films. A good example is the p-type PbS colloidal quantum dots (CQDs) forming a heterojunction with a n-type wide-band-gap semiconductor such as TiO2 or ZnO. The confinement in these nanostructures is also expected to result in marginal mechanisms, such as the collection of hot carriers and generation of multiple excitons, which would increase the theoretical conversion efficiency limit. Ultimately, this technology could also lead to the assembly of a tandem-type cell with CQD films absorbing in different regions of the solar spectrum.
- Published
- 2017
- Full Text
- View/download PDF
43. BigTop: a three-dimensional virtual reality tool for GWAS visualization
- Author
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Westreich, Samuel T., Nattestad, Maria, and Meyer, Christopher
- Published
- 2020
- Full Text
- View/download PDF
44. Optical analysis of an integrated solar cell and a photon up converter, providing guidance for future device engineering efforts.
- Author
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Hamzawy, Sameh, Wagner, Pawel, Gallaher, Joseph K., Schmidt, Timothy W., Mozer, Attila J., and Nattestad, Andrew
- Subjects
SOLAR cells ,PHOTOVOLTAIC power systems ,DYE-sensitized solar cells ,ANNIHILATION reactions ,PHOTON counting ,QUANTUM efficiency ,PHOTONS - Abstract
To date, a number of photon up-conversion (UC) systems with high quantum efficiencies have been demonstrated, including at non-concentrated solar illumination intensities. These are, however, yet to be successfully combined with photovoltaic devices in order to provide substantial increases in photocurrent, as compared with devices without UC. In the present work, we perform simple calculations, based on the optical properties of an UC + solar cell system, specifically a dye-sensitized solar cell and sensitized-triplet-triplet annihilation based UC system, in line with our previous experimentally realized proof-of-concept devices. This model is then used to more specifically identify the limitations and losses, thereby providing a pathway toward improvements, based on either real or hypothetical materials. This model highlights that only a fraction of the benefit may be realized without substantial improvements being made in terms of various transmission losses, coupled with the fact that UC emission typically scales quadratically in this flux regime. The model presented can help identify where research efforts should be focused as well as where there may be little utility, with these lessons also being valuable in the future as even more efficient UC systems are developed. Furthermore, a spreadsheet is provided in the supplementary material to assist other researchers in their efforts. [ABSTRACT FROM AUTHOR]
- Published
- 2021
- Full Text
- View/download PDF
45. Scale up of reactors for carbon dioxide reduction
- Author
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Andrew Nattestad, Klaudia Wagner, and Gordon G. Wallace
- Subjects
General Chemical Engineering - Abstract
In recent times there has been a great deal of interest in the conversion of carbon dioxide into more useful chemical compounds. On the other hand, the translation of these developments in electrochemical reduction of carbon dioxide from the laboratory bench to practical scale remains an underexplored topic. Here we examine some of the major challenges, demonstrating some promising strategies towards such scale-up, including increased electrode area and stacking of electrode pairs in different configurations. We observed that increasing the electrode area from 1 to 10 cm2 led to only a 4% drop in current density, with similarly small penalties realised when stacking sub-cells together.
- Published
- 2022
46. Bismuth‐Based Oxide Photocatalysts for Selective Oxidation Transformations of Organic Compounds
- Author
-
Sadanan Boochakiat, Burapat Inceesungvorn, Andrew Nattestad, and Jun Chen
- Subjects
Biomaterials ,Renewable Energy, Sustainability and the Environment ,Materials Chemistry ,Energy Engineering and Power Technology - Published
- 2023
47. Consensus statement: Standardized reporting of power-producing luminescent solar concentrator performance
- Author
-
Yang, C, Atwater, H, Baldo, M, Baran, D, Barile, C, Barr, M, Bates, M, Bawendi, M, Bergren, M, Borhan, B, Brabec, C, Brovelli, S, Bulović, V, Ceroni, P, Debije, M, Delgado-Sanchez, J, Dong, W, Duxbury, P, Evans, R, Forrest, S, Gamelin, D, Giebink, N, Gong, X, Griffini, G, Guo, F, Herrera, C, Ho-Baillie, A, Holmes, R, Hong, S, Kirchartz, T, Levine, B, Li, H, Li, Y, Liu, D, Loi, M, Luscombe, C, Makarov, N, Mateen, F, Mazzaro, R, Mcdaniel, H, Mcgehee, M, Meinardi, F, Menéndez-Velázquez, A, Min, J, Mitzi, D, Moemeni, M, Moon, J, Nattestad, A, Nazeeruddin, M, Nogueira, A, Paetzold, U, Patrick, D, Pucci, A, Rand, B, Reichmanis, E, Richards, B, Roncali, J, Rosei, F, Schmidt, T, So, F, Tu, C, Vahdani, A, van Sark, W, Verduzco, R, Vomiero, A, Wong, W, Wu, K, Yip, H, Zhang, X, Zhao, H, Lunt, R, Yang, Chenchen, Atwater, Harry A., Baldo, Marc A., Baran, Derya, Barile, Christopher J., Barr, Miles C., Bates, Matthew, Bawendi, Moungi G., Bergren, Matthew R., Borhan, Babak, Brabec, Christoph J., Brovelli, Sergio, Bulović, Vladimir, Ceroni, Paola, Debije, Michael G., Delgado-Sanchez, Jose-Maria, Dong, Wen-Ji, Duxbury, Phillip M., Evans, Rachel C., Forrest, Stephen R., Gamelin, Daniel R., Giebink, Noel C., Gong, Xiao, Griffini, Gianmarco, Guo, Fei, Herrera, Christopher K., Ho-Baillie, Anita W. Y., Holmes, Russell J., Hong, Sung-Kyu, Kirchartz, Thomas, Levine, Benjamin G., Li, Hongbo, Li, Yilin, Liu, Dianyi, Loi, Maria A., Luscombe, Christine K., Makarov, Nikolay S., Mateen, Fahad, Mazzaro, Raffaello, McDaniel, Hunter, McGehee, Michael D., Meinardi, Francesco, Menéndez-Velázquez, Amador, Min, Jie, Mitzi, David B., Moemeni, Mehdi, Moon, Jun Hyuk, Nattestad, Andrew, Nazeeruddin, Mohammad K., Nogueira, Ana F., Paetzold, Ulrich W., Patrick, David L., Pucci, Andrea, Rand, Barry P., Reichmanis, Elsa, Richards, Bryce S., Roncali, Jean, Rosei, Federico, Schmidt, Timothy W., So, Franky, Tu, Chang-Ching, Vahdani, Aria, van Sark, Wilfried G. J. H. M., Verduzco, Rafael, Vomiero, Alberto, Wong, Wallace W. H., Wu, Kaifeng, Yip, Hin-Lap, Zhang, Xiaowei, Zhao, Haiguang, Lunt, Richard R., Yang, C, Atwater, H, Baldo, M, Baran, D, Barile, C, Barr, M, Bates, M, Bawendi, M, Bergren, M, Borhan, B, Brabec, C, Brovelli, S, Bulović, V, Ceroni, P, Debije, M, Delgado-Sanchez, J, Dong, W, Duxbury, P, Evans, R, Forrest, S, Gamelin, D, Giebink, N, Gong, X, Griffini, G, Guo, F, Herrera, C, Ho-Baillie, A, Holmes, R, Hong, S, Kirchartz, T, Levine, B, Li, H, Li, Y, Liu, D, Loi, M, Luscombe, C, Makarov, N, Mateen, F, Mazzaro, R, Mcdaniel, H, Mcgehee, M, Meinardi, F, Menéndez-Velázquez, A, Min, J, Mitzi, D, Moemeni, M, Moon, J, Nattestad, A, Nazeeruddin, M, Nogueira, A, Paetzold, U, Patrick, D, Pucci, A, Rand, B, Reichmanis, E, Richards, B, Roncali, J, Rosei, F, Schmidt, T, So, F, Tu, C, Vahdani, A, van Sark, W, Verduzco, R, Vomiero, A, Wong, W, Wu, K, Yip, H, Zhang, X, Zhao, H, Lunt, R, Yang, Chenchen, Atwater, Harry A., Baldo, Marc A., Baran, Derya, Barile, Christopher J., Barr, Miles C., Bates, Matthew, Bawendi, Moungi G., Bergren, Matthew R., Borhan, Babak, Brabec, Christoph J., Brovelli, Sergio, Bulović, Vladimir, Ceroni, Paola, Debije, Michael G., Delgado-Sanchez, Jose-Maria, Dong, Wen-Ji, Duxbury, Phillip M., Evans, Rachel C., Forrest, Stephen R., Gamelin, Daniel R., Giebink, Noel C., Gong, Xiao, Griffini, Gianmarco, Guo, Fei, Herrera, Christopher K., Ho-Baillie, Anita W. Y., Holmes, Russell J., Hong, Sung-Kyu, Kirchartz, Thomas, Levine, Benjamin G., Li, Hongbo, Li, Yilin, Liu, Dianyi, Loi, Maria A., Luscombe, Christine K., Makarov, Nikolay S., Mateen, Fahad, Mazzaro, Raffaello, McDaniel, Hunter, McGehee, Michael D., Meinardi, Francesco, Menéndez-Velázquez, Amador, Min, Jie, Mitzi, David B., Moemeni, Mehdi, Moon, Jun Hyuk, Nattestad, Andrew, Nazeeruddin, Mohammad K., Nogueira, Ana F., Paetzold, Ulrich W., Patrick, David L., Pucci, Andrea, Rand, Barry P., Reichmanis, Elsa, Richards, Bryce S., Roncali, Jean, Rosei, Federico, Schmidt, Timothy W., So, Franky, Tu, Chang-Ching, Vahdani, Aria, van Sark, Wilfried G. J. H. M., Verduzco, Rafael, Vomiero, Alberto, Wong, Wallace W. H., Wu, Kaifeng, Yip, Hin-Lap, Zhang, Xiaowei, Zhao, Haiguang, and Lunt, Richard R.
- Abstract
Fair and meaningful device performance comparison among luminescent solar concentrator-photovoltaic (LSC-PV) reports cannot be realized without a general consensus on reporting standards in LSC-PV research. Therefore, it is imperative to adopt standardized characterization protocols for these emerging types of PV devices that are consistent with other PV devices. This commentary highlights several common limitations in LSC literature and summarizes the best practices moving forward to harmonize with standard PV reporting, considering the greater nuances present with LSC-PV. Based on these practices, a checklist of actionable items is provided to help standardize the characterization/reporting protocols and offer a set of baseline expectations for authors, reviewers, and editors. The general consensus combined with the checklist will ultimately guide LSC-PV research towards reliable and meaningful advances.
- Published
- 2022
48. Accurate detection of complex structural variations using single-molecule sequencing
- Author
-
Sedlazeck, Fritz J., Rescheneder, Philipp, Smolka, Moritz, Fang, Han, Nattestad, Maria, von Haeseler, Arndt, and Schatz, Michael C.
- Published
- 2018
- Full Text
- View/download PDF
49. Composite Photocatalysts Containing BiVO4 for Degradation of Cationic Dyes
- Author
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Kanlaya Pingmuang, Jun Chen, Wiyong Kangwansupamonkon, Gordon G. Wallace, Sukon Phanichphant, and Andrew Nattestad
- Subjects
Medicine ,Science - Abstract
Abstract The creation of composite structures is a commonly employed approach towards enhanced photocatalytic performance, with one of the key rationales for doing this being to separate photoexcited charges, affording them longer lifetimes in which to react with adsorbed species. Here we examine three composite photocatalysts using either WO3, TiO2 or CeO2 with BiVO4 for the degradation of model dyes Methylene Blue and Rhodamine B. Each of these materials (WO3, TiO2 or CeO2) has a different band edge energy offset with respect to BiVO4, allowing for a systematic comparison of these different arrangements. It is seen that while these offsets can afford beneficial charge transfer (CT) processes, they can also result in the deactivation of certain reactions. We also observed the importance of localized dye concentrations, resulting from a strong affinity between it and the surface, in attaining high overall photocatalytic performance, a factor not often acknowledged. It is hoped in the future that these observations will assist in the judicious selection of semiconductors for use as composite photocatalysts.
- Published
- 2017
- Full Text
- View/download PDF
50. Bismuth–based oxide photocatalysts for selective oxidation transformations of organic compounds
- Author
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Boochakiat, Sadanan, primary, Inceesungvorn, Burapat, additional, Nattestad, Andrew, additional, and Chen, Jun, additional
- Published
- 2023
- Full Text
- View/download PDF
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