FMLRC: Hybrid long read error correction using an FM-index von Wang, Jeremy R, Holt, James, McMillan, Leonard, Jones, Corbin D

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Evidence for extensive horizontal gene transfer from the draft genome of a tardigrade von Boothby, Thomas C., Tenlen, Jennifer R., Smith, Frank W., Wang, Jeremy R., Patanella, Kiera A., Nishimura, Erin Osborne, Tintori, Sophia C., Li, Qing, Jones, Corbin D., Yandell, Mark, Messina, David N., Glasscock, Jarret, Goldstein, Bob

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Subspecific origin and haplotype diversity in the laboratory mouse von Churchill, Gary A, de Villena, Fernando Pardo-Manuel, Yang, Hyuna, Wang, Jeremy R, Didion, John P, Buus, Ryan J, Bell, Timothy A, Welsh, Catherine E, Bonhomme, François, Yu, Alex Hon-Tsen, Nachman, Michael W, Pialek, Jaroslav, Tucker, Priscilla, Boursot, Pierre, McMillan, Leonard

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Saliva sampling method influences oral microbiome composition and taxa distribution associated with oral diseases von Roca, Cristian, Alkhateeb, Alaa A, Deanhardt, Bryson K, Macdonald, Jade K, Chi, Donald L, Wang, Jeremy R, Wolfgang, Matthew C

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Mpox surveillance: the need for enhanced testing and genomic epidemiology von Wang, Jeremy R

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Correcting nucleotide-specific biases in high-throughput sequencing data von Wang, Jeremy R, Quach, Bryan, Furey, Terrence S

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Transcriptome profiling of pediatric extracranial solid tumors and lymphomas enables rapid low-cost diagnostic classification von Opoku, Kofi B., Santiago, Teresa, Kumar, Priya, Roush, Sophia M., Fedoriw, Yuri, Tomoka, Tamiwe, Leventaki, Vasiliki, Furtado, Larissa V., Bhakta, Nickhill, Alexander, Thomas B., Wang, Jeremy R.

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Genetic architecture of skewed X inactivation in the laboratory mouse von Calaway, John D, Lenarcic, Alan B, Didion, John P, Wang, Jeremy R, Searle, Jeremy B, McMillan, Leonard, Valdar, William, Pardo-Manuel de Villena, Fernando

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Nonlinear sequence similarity between the Xist and Rsx long noncoding RNAs suggests shared functions of tandem repeat domains von Sprague, Daniel, Waters, Shafagh A, Kirk, Jessime M, Wang, Jeremy R, Samollow, Paul B, Waters, Paul D, Calabrese, J Mauro

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Variability and bias in microbiome metagenomic sequencing: an interlaboratory study comparing experimental protocols von Forry, Samuel P., Servetas, Stephanie L., Kralj, Jason G., Soh, Keng, Hadjithomas, Michalis, Cano, Raul, Carlin, Martha, Amorim, Maria G. de, Auch, Benjamin, Bakker, Matthew G., Bartelli, Thais F., Bustamante, Juan P., Cassol, Ignacio, Chalita, Mauricio, Dias-Neto, Emmanuel, Duca, Aaron Del, Gohl, Daryl M., Kazantseva, Jekaterina, Haruna, Muyideen T., Menzel, Peter, Moda, Bruno S., Neuberger-Castillo, Lorieza, Nunes, Diana N., Patel, Isha R., Peralta, Rodrigo D., Saliou, Adrien, Schwarzer, Rolf, Sevilla, Samantha, Takenaka, Isabella K. T. M., Wang, Jeremy R., Knight, Rob, Gevers, Dirk, Jackson, Scott A.

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SARS-CoV-2 variant of concern fitness and adaptation in primary human airway epithelia von Meganck, Rita M., Edwards, Caitlin E., Mallory, Michael L., Lee, Rhianna E., Dang, Hong, Bailey, Alexis B., Wykoff, Jason A., Gallant, Samuel C., Zhu, Deanna R., Yount, Boyd L., Kato, Takafumi, Shaffer, Kendall M., Nakano, Satoko, Cawley, Anne Marie, Sontake, Vishwaraj, Wang, Jeremy R., Hagan, Robert S., Miller, Melissa B., Tata, Purushothama Rao, Randell, Scott H., Tse, Longping V., Ehre, Camille, Okuda, Kenichi, Boucher, Richard C., Baric, Ralph S.

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Comparative analysis and visualization of multiple collinear genomes von Wang, Jeremy R, de Villena, Fernando Pardo-Manuel, McMillan, Leonard

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Imputation of single-nucleotide polymorphisms in inbred mice using local phylogeny von Wang, Jeremy R, de Villena, Fernando Pardo-Manuel, Lawson, Heather A, Cheverud, James M, Churchill, Gary A, McMillan, Leonard

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Polishing De Novo Nanopore Assemblies of Bacteria and Eukaryotes With FMLRC2 von Mak, Q X Charles, Wick, Ryan R, Holt, James Matthew, Wang, Jeremy R

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A vertebrate adaptive radiation is assembled from an ancient and disjunct spatiotemporal landscape von Richards, Emilie J., McGirr, Joseph A., Wang, Jeremy R., St. John, Michelle E., Poelstra, Jelmer W., Solano, Maria J., O’Connell, Delaney C., Turner, Bruce J., Martin, Christopher H.

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Analyses of allele-specific gene expression in highly divergent mouse crosses identifies pervasive allelic imbalance von Crowley, James J, Zhabotynsky, Vasyl, Sun, Wei, Huang, Shunping, Pakatci, Isa Kemal, Kim, Yunjung, Wang, Jeremy R, Morgan, Andrew P, Calaway, John D, Aylor, David L, Yun, Zaining, Bell, Timothy A, Buus, Ryan J, Calaway, Mark E, Didion, John P, Gooch, Terry J, Hansen, Stephanie D, Robinson, Nashiya N, Shaw, Ginger D, Spence, Jason S, Quackenbush, Corey R, Barrick, Cordelia J, Nonneman, Randal J, Kim, Kyungsu, Xenakis, James, Xie, Yuying, Valdar, William, Lenarcic, Alan B, Wang, Wei, Welsh, Catherine E, Fu, Chen-Ping, Zhang, Zhaojun, Holt, James, Guo, Zhishan, Threadgill, David W, Tarantino, Lisa M, Miller, Darla R, Zou, Fei, McMillan, Leonard, Sullivan, Patrick F, Pardo-Manuel de Villena, Fernando

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Highly contiguous assemblies of 101 drosophilid genomes von Kim, Bernard Y., Wang, Jeremy R., Miller, Danny E., Barmina, Olga, Delaney, Emily, Thompson, Ammon, Comeault, Aaron A., Peede, David, D'Agostino, Emmanuel R. R., Pelaez, Julianne, Aguilar, Jessica M., Haji, Diler, Matsunaga, Teruyuki, Armstrong, Ellie E., Zych, Molly, Ogawa, Yoshitaka, Stamenkovic-Radak, Marina, Jelic, Mihailo, Veselinovic, Marija Savic, Tanaskovic, Marija, Eric, Pavle, Gao, Jian-Jun, Katoh, Takehiro K., Toda, Masanori J., Watabe, Hideaki, Watada, Masayoshi, Davis, Jeremy S., Moyle, Leonie C., Manoli, Giulia, Bertolini, Enrico, Kostal, Vladimir, Hawley, R. Scott, Takahashi, Aya, Jones, Corbin D., Price, Donald K., Whiteman, Noah, Kopp, Artyom, Matute, Daniel R., Petrov, Dmitri A.

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Correction: Highly contiguous assemblies of 101 drosophilid genomes von Kim, Bernard Y, Wang, Jeremy R, Miller, Danny E, Barmina, Olga, Delaney, Emily, Thompson, Ammon, Comeault, Aaron A, Peede, David, D'Agostino, Emmanuel R R, Pelaez, Julianne, Aguilar, Jessica M, Haji, Diler, Matsunaga, Teruyuki, Armstrong, Ellie, Zych, Molly, Ogawa, Yoshitaka, Stamenković-Radak, Marina, Jelić, Mihailo, Veselinović, Marija Savić, Tanasković, Marija, Erić, Pavle, Gao, Jian-Jun, Katoh, Takehiro K, Toda, Masanori J, Watabe, Hideaki, Watada, Masayoshi, Davis, Jeremy S, Moyle, Leonie C, Manoli, Giulia, Bertolini, Enrico, Košťál, Vladimír, Hawley, R Scott, Takahashi, Aya, Jones, Corbin D, Price, Donald K, Whiteman, Noah, Kopp, Artyom, Matute, Daniel R, Petrov, Dmitri A

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Genetic Architecture of Skewed X Inactivation in the Laboratory Mouse: e1003853 von Calaway, John D, Lenarcic, Alan B, Didion, John P, Wang, Jeremy R, Searle, Jeremy B, McMillan, Leonard, Valdar, William, Villena, Fernando Pardo-Manuelde

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Analyses of allele-specific gene expression in highly divergent mouse crosses identifies pervasive allelic imbalance (vol 47, pg 353, 2015) von Crowley, JJ, Zhabotynsky, V, Sun, W, Huang, S, Pakatci, IK, Kim, Y, Wang, JR, Morgan, AP, Calaway, JD, Aylor, DL

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