Publications

79 entries « 1 of 2 »

2022

Yeh, Jane X; Fan, Yunfan; Bartlett, Maggie L; Zhang, Xiaoyan; Sadowski, Norah; Hauer, Debra A; Timp, Winston; Griffin, Diane E

Treatment of Sindbis Virus-Infected Neurons with Antibody to E2 Alters Synthesis of Complete and nsP1-Expressing Defective Viral RNAs Journal Article

In: Mbio, vol. 13, iss. 5, pp. e02221-22, 2022.

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Vandiver, Amy R; Pielstick, Brittany; Gilpatrick, Timothy; Hoang, Austin N; Vernon, Hillary J; Wanagat, Jonathan; Timp, Winston

Long read mitochondrial genome sequencing using Cas9-guided adaptor ligation Journal Article

In: Mitochondrion, vol. 65, pp. 176-183, 2022, ISSN: 1567-7249.

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Tiek, Deanna M; Erdogdu, Beril; Razaghi, Roham; Jin, Lu; Sadowski, Norah; Alamillo-Ferrer, Carla; Hogg, J Robert; Haddad, Bassem R; Drewry, David H; Wells, Carrow I; Pickett, Julie E; Song, Xiao; Goenka, Anshika; Hu, Bo; Goldlust, Samuel A; Zuercher, William J; Pertea, Mihaela; Timp, Winston; Cheng, Shi-Yuan; Riggins, Rebecca B

Temozolomide-induced guanine mutations create exploitable vulnerabilities of guanine-rich DNA and RNA regions in drug-resistant gliomas Journal Article

In: Science Advances, vol. 8, iss. 25, pp. eabn3471, 2022, ISSN: 2375-2548.

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Chang, Meiping; Kumar, Amit; Kumar, Swetha; Huhn, Steven; Timp, Winston; Betenbaugh, Michael; Du, Zhimei

Epigenetic comparison of CHO hosts and clones reveals divergent methylation and transcription patterns across lineages Journal Article

In: Biotechnology and Bioengineering, vol. 119, iss. 4, pp. 1062-0176, 2022.

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Altemose, Nicolas; Logsdon, Glennis A; Bzikadze, Andrey V; Sidhwani, Pragya; Langley, Sasha A; Caldas, Gina V; Hoyt, Savannah J; Uralsky, Lev; Ryabov, Fedor D; Shew, Colin J; Sauria, Michael EG; Borchers, Matthew; Gershman, Ariel; Mikheenko, Alla; Shepelev, Valery A; Dvorkina, Tatiana; Kunyavskaya, Olga; Vollger, Mitchell R; Rhie, Arang; McCartney, Ann M; Asri, Mobin; Lorig-Roach, Ryan; Shafin, Kishwar; Lucas, Julian K; Aganezov, Sergey; Olson, Daniel; de Lima, Leonardo Gomes; Potapova, Tamara; Hartley, Gabrielle A; Haukness, Marina; Kerpedjiev, Peter; Gusev, Fedor; Tigyi, Kristof; Brooks, Shelise; Young, Alice; Nurk, Sergey; Koren, Sergey; Salama, Sofie R; Paten, Benedict; Rogaev, Evgeny I; Streets, Aaron; Karpen, Gary H; Dernburg, Abby F; Sullivan, Beth A; Straight, Aaron F; Wheeler, Travis J; Gerton, Jennifer L; Eichler, Evan E; Phillippy, Adam M; Timp, Winston; Dennis, Megan Y; O’Neill, Rachel J; Zook, Justin M; Schatz, Michael C; Pevzner, Pavel A; Diekhans, Mark; Langley, Charles H; Alexandrov, Ivan A; Miga, Karen H

Complete genomic and epigenetic maps of human centromeres Journal Article

In: Science, vol. 376, iss. 6588, pp. eabl4178, 2022.

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Sholes, Samantha L; Karimian, Kayarash; Gershman, Ariel; Kelly, Thomas J; Timp, Winston; Greider, Carol W

Chromosome specific telomere lengths and the minimal functional telomere revealed by nanopore sequencing Journal Article

In: Genome Research, vol. 32, iss. 4, pp. 616-628, 2022.

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Hoyt, Savannah J; Storer, Jessica M; Hartley, Gabrielle A; Grady, Patrick GS; Gershman, Ariel; de Lima, Leonardo G; Limouse, Charles; Halabian, Reza; Wojenski, Luke; Rodriguez, Matias; Altemose, Nicolas; Rhie, Arang; Core, Leighton J; Gerton, Jennifer L; Makalowski, Wojciech; Olson, Daniel; Rosen, Jeb; Smit, Arian FA; Straight, Aaron F; Vollger, Mitchell R; Wheeler, Travis J; Schatz, Michael C; Eichler, Evan E; Phillippy, Adam M; Timp, Winston; Miga, Karen H; O’Neill, Rachel J

From telomere to telomere: the transcriptional and epigenetic state of human repeat elements Journal Article

In: Science, vol. 376, iss. 6588, pp. eabk3112, 2022.

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Gershman, Ariel; Sauria, Michael EG; Guitart, Xavi; Vollger, Mitchell R; Hook, Paul W; Hoyt, Savannah J; Jain, Miten; Shumate, Alaina; Razaghi, Roham; Koren, Sergey; Altemose, Nicolas; Caldas, Gina V; Logsdon, Glennis A; Rhie, Arang; Eichler, Evan E; Schatz, Michael C; O’Neill, Rachel J; Phillippy, Adam M; Miga, Karen H; Timp, Winston

Epigenetic Patterns in a Complete Human Genome Journal Article

In: Science, vol. 376, iss. 6588, pp. eabj5089, 2022, ISSN: 0036-8075.

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Vollger, Mitchell R; Guitart, Xavi; Dishuck, Philip C; Mercuri, Ludovica; Harvey, William T; Gershman, Ariel; Diekhans, Mark; Sulovari, Arvis; Munson, Katherine M; Lewis, Alexandra P; Hoekzema, Kendra; Porubsky, David; Li, Ruiyang; Nurk, Sergey; Koren, Sergey; Miga, Karen H; Phillippy, Adam M; Timp, Winston; Ventura, Mario; Eichler, Evan E

Segmental duplications and their variation in a complete human genome Journal Article

In: Science, vol. 376, iss. 6588, pp. eabj6965, 2022, ISBN: 0036-8075.

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Nurk, Sergey; Koren, Sergey; Rhie, Arang; Rautiainen, Mikko; Bzikadze, Andrey V; Mikheenko, Alla; Vollger, Mitchell R; Altemose, Nicolas; Uralsky, Lev; Gershman, Ariel; Aganezov, Sergey; Hoyt, Savannah J; Diekhans, Mark; Logsdon, Glennis A; Alonge, Michael; Antonarakis, Stylianos E; Borchers, Matthew; Bouffard, Gerard G; Brooks, Shelise Y; Caldas, Gina V; Chen, Nae-Chyun; Cheng, Haoyu; Chin, Chen-Shan; Chow, William; de Lima, Leonardo G; Dishuck, Philip C; Durbin, Richard; Dvorkina, Tatiana; Fiddes, Ian T; Formenti, Giulio; Fulton, Robert S; Fungtammasan, Arkarachai; Garrison, Erik; Grady, Patrick GS; Graves-Lindsay, Tina A; Hall, Ira M; Hansen, Nancy F; Hartley, Gabrielle A; Haukness, Marina; Howe, Kerstin; Hunkapiller, Michael W; Jain, Chirag; Jain, Miten; Jarvis, Erich D; Kerpedjiev, Peter; Kirsche, Melanie; Kolmogorov, Mikhail; Korlach, Jonas; Kremitzki, Milinn; Li, Heng; Maduro, Valerie V; Marschall, Tobias; McCartney, Ann M; McDaniel, Jennifer; Miller, Danny E; Mullikin, James C; Myers, Eugene W; Olson, Nathan D; Paten, Benedict; Peluso, Paul; Pevzner, Pavel A; Porubsky, David; Potapova, Tamara; Rogaev, Evgeny I; Rosenfeld, Jeffrey A; Salzberg, Steven L; Schneider, Valerie A; Sedlazeck, Fritz J; Shafin, Kishwar; Shew, Colin J; Shumate, Alaina; Sims, Ying; Smit, Arian FA; Soto, Daniela C; Sović, Ivan; Storer, Jessica M; Streets, Aaron; Sullivan, Beth A; Thibaud-Nissen, Françoise; Torrance, James; Wagner, Justin; Walenz, Brian P; Wenger, Aaron; Wood, Jonathan MD; Xiao, Chunlin; Yan, Stephanie M; Young, Alice C; Zarate, Samantha; Surti, Urvashi; McCoy, Rajiv C; Dennis, Megan Y; Alexandrov, Ivan A; Gerton, Jennifer L; O’Neill, Rachel J; Timp, Winston; Zook, Justin M; Schatz, Michael C; Eichler, Evan E; Miga, Karen H; Phillippy, Adam M

The complete sequence of a human genome Journal Article

In: Science, vol. 376, iss. 6588, pp. 44-53, 2022, ISSN: 0036-8075.

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Stephenson, William; Razaghi, Roham; Busan, Steven; Weeks, Kevin M; Timp, Winston; Smibert, Peter

Direct detection of RNA modifications and structure using single molecule nanopore sequencing Journal Article

In: Cell Genomics, vol. 2, iss. 2, pp. 100097, 2022, ISSN: 2666-979X.

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Neale, David B; Zimin, Aleksey V; Zaman, Sumaira; Scott, Alison D; Shrestha, Bikash; Workman, Rachael E; Puiu, Daniela; Allen, Brian J; Moore, Zane J; Sekhwal, Manoj K; Torre, Amanda R De La; McGuire, Patrick E; Burns, Emily; Timp, Winston; Wegrzyn, Jill L; Salzberg, Steven L

Assembled and annotated 26.5 Gbp coast redwood genome: a resource for estimating evolutionary adaptive potential and investigating hexaploid origin Journal Article

In: G3, vol. 12, iss. 1, pp. jkab380, 2022.

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Gershman, Ariel; Hauck, Quinn; Dick, Morag; Jamison, Jerrica M; Tassia, Michael; Agirrezabala, Xabier; Muhammad, Saad; Ali, Raafay; Workman, Rachael E; Valle, Mikel; Wong, G William; Welch, Kenneth C; Timp, Winston

Genomic insights into metabolic flux in ruby-throated hummingbirds Journal Article

In: bioRxiv, 2022.

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Razaghi, Roham; Hook, Paul W; Ou, Shujun; Schatz, Michael; Hansen, Kasper D; Jain, Miten; Timp, Winston

Modbamtools: Analysis of single-molecule epigenetic data for long-range profiling, heterogeneity, and clustering Journal Article

In: bioRxiv, 2022.

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2021

Kandathil, Abraham J; Cox, Andrea L; Page, Kimberly; Mohr, David; Razaghi, Roham; Ghanem, Khalil G; Tuddenham, Susan A; Hsieh, Yu-Hsiang; Evans, Jennifer L; Coller, Kelly E; Timp, Winston; Celentano, David D; Ray, Stuart C; Thomas, David L

Plasma virome and the risk of blood-borne infection in persons with substance use disorder Journal Article

In: Nature Communications, vol. 12, iss. 1, pp. 1-7, 2021, ISSN: 2041-1723.

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Mahmoud, Medhat; Doddapaneni, Harshavardhan; Timp, Winston; Sedlazeck, Fritz J

PRINCESS: comprehensive detection of haplotype resolved SNVs, SVs, and methylation Journal Article

In: Genome Biology, vol. 22, no. 1, pp. 268, 2021.

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Lietard, Jory; Leger, Adrien; Erlich, Yaniv; Sadowski, Norah; Timp, Winston; Somoza, Mark M

Chemical and photochemical error rates in light-directed synthesis of complex DNA libraries Journal Article

In: Nucleic Acids Research, vol. 49, iss. 12, pp. 6687-6701, 2021, ISSN: 0305-1048.

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Fan, Yunfan; Gale, Andrew N; Bailey, Anna; Barnes, Kali; Colotti, Kiersten; Mass, Michal; Morina, Luke B; Robertson, Bailey; Schwab, Remy; Tselepidakis, Niki; Timp, Winston

Genome and transcriptome of a pathogenic yeast, Candida nivariensis Journal Article

In: G3, vol. 11, iss. 7, pp. jkab137, 2021.

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Polinski, Jennifer M.; Zimin, Aleksey V.; Clark, K. Fraser; Kohn, Andrea B.; Sadowski, Norah; Timp, Winston; Ptitsyn, Andrey; Khanna, Prarthana; Romanova, Daria Y.; Williams, Peter; Greenwood, Spencer J.; Moroz, Leonid L.; Walt, David R.; Bodnar, Andrea G.

The American lobster genome reveals insights on longevity, neural, and immune adaptations Journal Article

In: Science Advances, vol. 7, no. 26, pp. eabe8290, 2021.

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Thielen, Peter M; Wohl, Shirlee; Mehoke, Thomas; Ramakrishnan, Srividya; Kirsche, Melanie; Falade-Nwulia, Oluwaseun; Trovão, Nídia S; Ernlund, Amanda; Howser, Craig; Sadowski, Norah; Morris, Paul C; Hopkins, Mark; Schwartz, Matthew; Fan, Yunfan; Gniazdowski, Victoria; Lessler, Justin; Sauer, Lauren; Schatz, Michael C; Evans, Jared D; Ray, Stuart C; Timp, Winston; Mostafa, Heba H

Genomic diversity of SARS-CoV-2 during early introduction into the Baltimore–Washington metropolitan area Journal Article

In: JCI Insight, vol. 6, no. 6, 2021.

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Weinguny, Marcus; Klanert, Gerald; Eisenhut, Peter; Lee, Isac; Timp, Winston; Borth, Nicole

Subcloning induces changes in the DNA-methylation pattern of outgrowing Chinese hamster ovary cell colonies Journal Article

In: Biotechnology Journal, pp. 2000350, 2021.

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Yee, Rebecca; Breitwieser, Florian P; Hao, Stephanie; Opene, Belita N A; Workman, Rachael E; Tamma, Pranita D; Dien-Bard, Jennifer; Timp, Winston; Simner, Patricia J

Metagenomic next-generation sequencing of rectal swabs for the surveillance of antimicrobial-resistant organisms on the Illumina Miseq and Oxford MinION platforms Journal Article

In: European Journal of Clinical Microbiology & Infectious Diseases, vol. 40, iss. 1, pp. 95-102, 2021, ISSN: 1435-4373.

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Vornhagen, Jay; Bassis, Christine M.; Ramakrishnan, Srividya; Hein, Robert; Mason, Sophia; Bergman, Yehudit; Sunshine, Nicole; Fan, Yunfan; Holmes, Caitlyn L.; Timp, Winston; Schatz, Michael C.; Young, Vincent B.; Simner, Patricia J.; Bachman, Michael A.

A plasmid locus associated with textitKlebsiella clinical infections encodes a microbiome-dependent gut fitness factor Journal Article

In: PLOS Pathogens, vol. 17, no. 4, pp. 1-34, 2021.

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Clark, Helen R; McKenney, Connor; Livingston, Nathan M; Gershman, Ariel; Sajjan, Seema; Chan, Isaac S; Ewald, Andrew J; Timp, Winston; Wu, Bin; Singh, Abhyudai; Regot, Sergi

Epigenetically regulated digital signaling defines epithelial innate immunity at the tissue level Journal Article

In: Nature Communications, vol. 12, no. 1, pp. 1–13, 2021.

BibTeX

Gershman, Ariel; Romer, Tatiana G; Fan, Yunfan; Razaghi, Roham; Smith, Wendy A; Timp, Winston

De novo genome assembly of the tobacco hornworm moth (Manduca sexta) Journal Article

In: G3 Genes|Genomes|Genetics, vol. 11, no. 1, pp. jkaa047, 2021, ISSN: 2160-1836, (jkaa047).

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2020

Lee, Isac; Razaghi, Roham; Gilpatrick, Timothy; Molnar, Michael; Gershman, Ariel; Sadowski, Norah; Sedlazeck, Fritz J; Hansen, Kasper D; Simpson, Jared T; Timp, Winston

Simultaneous profiling of chromatin accessibility and methylation on human cell lines with nanopore sequencing Journal Article

In: Nature Methods, vol. 17, no. 12, pp. 1191–1199, 2020, ISSN: 1548-7105.

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Kovaka, Sam; Fan, Yunfan; Ni, Bohan; Timp, Winston; Schatz, Michael C

Targeted nanopore sequencing by real-time mapping of raw electrical signal with UNCALLED Journal Article

In: Nature Biotechnology, vol. 39, iss. 4, pp. 1–11, 2020, ISSN: 1546-1696, (Publisher: Nature Publishing Group).

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Pokrass, Michael J; Ryan, Kathleen A; Xin, Tianchi; Pielstick, Brittany; Timp, Winston; Greco, Valentina; Regot, Sergi

Cell-Cycle-Dependent ERK Signaling Dynamics Direct Fate Specification in the Mammalian Preimplantation Embryo Journal Article

In: Developmental Cell, vol. 55, no. 3, pp. 328–340.e5, 2020, ISSN: 1878-1551.

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Vergara, Candelaria; Duggal, Priya; Thio, Chloe L; Valencia, Ana; Brien, Thomas R O’; Latanich, Rachel; Timp, Winston; Johnson, Eric O; Kral, Alex H; Mangia, Alessandra; Goedert, James J; Piazzola, Valeria; Mehta, Shruti H; Kirk, Gregory D; Peters, Marion G; Donfield, Sharyne M; Edlin, Brian R; Busch, Michael P; Alexander, Graeme; Murphy, Edward L; Kim, Arthur Y; Lauer, Georg M; Chung, Raymond T; Cramp, Matthew E; Cox, Andrea L; Khakoo, Salim I; Rosen, Hugo R; Alric, Laurent; Wheelan, Sarah J; Wojcik, Genevieve L; Thomas, David L; Taub, Margaret A

Multi-ancestry fine mapping of interferon lambda and the outcome of acute hepatitis C virus infection Journal Article

In: Genes & Immunity, vol. 21, iss. 6-8, pp. 1–12, 2020, ISSN: 1476-5470.

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Scott, Alison D; Zimin, Aleksey V; Puiu, Daniela; Workman, Rachael; Britton, Monica; Zaman, Sumaira; Caballero, Madison; Read, Andrew C; Bogdanove, Adam J; Burns, Emily; Wegrzyn, Jill; Timp, Winston; Salzberg, Steven L; Neale, David B

A Reference Genome Sequence for Giant Sequoia Journal Article

In: G3: Genes|Genomes|Genetics, vol. 10, no. 11, pp. 3907–3919, 2020, ISSN: 2160-1836.

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Gale, Andrew N; Sakhawala, Rima M; Levitan, Anton; Sharan, Roded; Berman, Judith; Timp, Winston; Cunningham, Kyle W

Identification of Essential Genes and Fluconazole Susceptibility Genes in Candida glabrata by Profiling Hermes Transposon Insertions Journal Article

In: G3: Genes|Genomes|Genetics, vol. 10, no. 10, pp. 3859–3870, 2020, ISSN: 2160-1836.

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Miga, Karen H; Koren, Sergey; Rhie, Arang; Vollger, Mitchell R; Gershman, Ariel; Bzikadze, Andrey; Brooks, Shelise; Howe, Edmund; Porubsky, David; Logsdon, Glennis A; Schneider, Valerie A; Potapova, Tamara; Wood, Jonathan; Chow, William; Armstrong, Joel; Fredrickson, Jeanne; Pak, Evgenia; Tigyi, Kristof; Kremitzki, Milinn; Markovic, Christopher; Maduro, Valerie; Dutra, Amalia; Bouffard, Gerard G; Chang, Alexander M; Hansen, Nancy F; Wilfert, Amy B; Thibaud-Nissen, Françoise; Schmitt, Anthony D; Belton, Jon-Matthew; Selvaraj, Siddarth; Dennis, Megan Y; Soto, Daniela C; Sahasrabudhe, Ruta; Kaya, Gulhan; Quick, Josh; Loman, Nicholas J; Holmes, Nadine; Loose, Matthew; Surti, Urvashi; ana Risques, Rosa; Lindsay, Tina Graves A; Fulton, Robert; Hall, Ira; Paten, Benedict; Howe, Kerstin; Timp, Winston; Young, Alice; Mullikin, James C; Pevzner, Pavel A; Gerton, Jennifer L; Sullivan, Beth A; Eichler, Evan E; Phillippy, Adam M

Telomere-to-telomere assembly of a complete human X chromosome Journal Article

In: Nature, vol. 585, iss. 7823, pp. 79-84, 2020, ISSN: 1476-4687, (Publisher: Nature Publishing Group).

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Marrano, Annarita; Britton, Monica; Zaini, Paulo A; Zimin, Aleksey V; Workman, Rachael E; Puiu, Daniela; Bianco, Luca; Pierro, Erica Adele Di; Allen, Brian J; Chakraborty, Sandeep; Troggio, Michela; Leslie, Charles A; Timp, Winston; Dandekar, Abhaya; Salzberg, Steven L; Neale, David B

High-quality chromosome-scale assembly of the walnut (Juglans regia L.) reference genome Journal Article

In: GigaScience, vol. 9, iss. 5, pp. giaa050, 2020, ISSN: 2047-217X.

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McKelvey, Brittany A; Gilpatrick, Timothy; Wang, Yongchun; Timp, Winston; Umbricht, Christopher B; Zeiger, Martha A

Characterization of Allele-Specific Regulation of Telomerase Reverse Transcriptase in Promoter Mutant Thyroid Cancer Cell Lines Journal Article

In: Thyroid, vol. 30, iss. 10, pp. 1470-1481, 2020, ISSN: 1050-7256, (Publisher: Mary Ann Liebert, Inc., publishers).

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Olson, Nathan D; Kumar, Senthil M; Li, Shan; Braccia, Domenick J; Hao, Stephanie; Timp, Winston; Salit, Marc L; Stine, Colin O; Bravo, Hector Corrada

A framework for assessing 16S rRNA marker-gene survey data analysis methods using mixtures. Journal Article

In: Microbiome, vol. 8, no. 1, pp. 35, 2020, ISSN: 2049-2618.

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Gilpatrick, Timothy; Lee, Isac; Graham, James E; Raimondeau, Etienne; Bowen, Rebecca; Heron, Andrew; Downs, Bradley; Sukumar, Saraswati; Sedlazeck, Fritz J; Timp, Winston

Targeted nanopore sequencing with Cas9-guided adapter ligation Journal Article

In: Nature Biotechnology, vol. 38, iss. 4, pp. 433-438, 2020, ISSN: 1546-1696.

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Aganezov, Sergey; Goodwin, Sara; Sherman, Rachel M; Sedlazeck, Fritz J; Arun, Gayatri; Bhatia, Sonam; Lee, Isac; Kirsche, Melanie; Wappel, Robert; Kramer, Melissa; Kostroff, Karen; Spector, David L; Timp, Winston; McCombie, Richard W; Schatz, Michael C

Comprehensive analysis of structural variants in breast cancer genomes using single-molecule sequencing Journal Article

In: Genome Research, vol. 30, iss. 9, pp. 1258-1273, 2020.

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Timp, Winston; Timp, Gregory

Beyond mass spectrometry, the next step in proteomics Journal Article

In: Science Advances, vol. 6, no. 2, pp. eaax8978, 2020.

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Roach, Nathan P; Sadowski, Norah; Alessi, Amelia F; Timp, Winston; Taylor, James; Kim, John K

The full-length transcriptome of C. elegans using direct RNA sequencing Journal Article

In: Genome Research, vol. 30, iss. 2, pp. 299-312, 2020.

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2019

Workman, Rachael E; Tang, Alison D; Tang, Paul S; Jain, Miten; Tyson, John R; Razaghi, Roham; Zuzarte, Philip C; Gilpatrick, Timothy; Payne, Alexander; Quick, Joshua; Sadowski, Norah; Holmes, Nadine; de Jesus, Jaqueline Goes; Jones, Karen L; Soulette, Cameron M; Snutch, Terrance P; Loman, Nicholas; Paten, Benedict; Loose, Matthew; Simpson, Jared T; Olsen, Hugh E; Brooks, Angela N; Akeson, Mark; Timp, Winston

Nanopore native RNA sequencing of a human poly(A) transcriptome Journal Article

In: Nature Methods, vol. 17, iss. 1, pp. 114, 2019, ISSN: 1548-7105.

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Sakowski, Eric; Uritskiy, Gherman; Cooper, Rachel; Gomes, Maya; McLaren, Michael R; Meisel, Jacquelyn S; Mickol, Rebecca L; Mintz, David C; Mongodin, Emmanuel F; Pop, Mihai; Rahman, Mohammad Arifur; Sanchez, Alvaro; Timp, Winston; Vela, Jeseth Delgado; Wolz, Carly Muletz; Zackular, Joseph P; Chopyk, Jessica; Commichaux, Seth; Davis, Meghan; Dluzen, Douglas; Ganesan, Sukirth M; Haruna, Muyideen; Nasko, Dan; Regan, Mary J; Sarria, Saul; Shah, Nidhi; Stacy, Brook; Taylor, Dylan; DiRuggiero, Jocelyne; Preheim, Sarah P

Current State of and Future Opportunities for Prediction in Microbiome Research: Report from the Mid-Atlantic Microbiome Meet-up in Baltimore on 9 January 2019 Journal Article

In: mSystems, vol. 4, no. 5, pp. e00392-19, 2019.

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Allen, Jawara; Hao, Stephanie; Sears, Cynthia L; Timp, Winston

Epigenetic changes induced by Bacteroides fragilis toxin (BFT) Journal Article

In: Infection and Immunity, vol. 87, iss. 6, pp. e00447-18, 2019, ISSN: 0019-9567, 1098-5522.

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Briem, Eirikur; Budkova, Zuzana; Sigurdardottir, Anna Karen; Hilmarsdottir, Bylgja; Kricker, Jennifer; Timp, Winston; Magnusson, Magnus Karl; Traustadottir, Gunnhildur Asta; Gudjonsson, Thorarinn

MiR-203a is differentially expressed during branching morphogenesis and EMT in breast progenitor cells and is a repressor of peroxidasin Journal Article

In: Mechanisms of Development, vol. 155, pp. 34–47, 2019, ISSN: 0925-4773.

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Tamma, Pranita D; Fan, Yunfan; Bergman, Yehudit; Pertea, Geo; Kazmi, Abida; Lewis, Shawna; Carroll, Karen C; Schatz, Michael C; Timp, Winston; Simner, Patricia J

Applying Rapid Whole Genome Sequencing to Predict Phenotypic Antimicrobial Susceptibility Testing Results Among Carbapenem-Resistant Klebsiella pneumoniae Clinical Isolates Journal Article

In: Antimicrobial Agents and Chemotherapy, vol. 63, no. 1, pp. e01923–18, 2019, ISSN: 0066-4804.

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Drewes, Julia L; Corona, Alina; Sanchez, Uriel; Fan, Yunfan; Hourigan, Suchitra K; Weidner, Melissa; Sidhu, Sarah D; Simner, Patricia J; Wang, Hao; Timp, Winston; Oliva-Hemker, Maria; Sears, Cynthia L

Transmission and clearance of potential procarcinogenic bacteria during fecal microbiota transplantation for recurrent Clostridioides difficile Journal Article

In: JCI Insight, vol. 4, no. 19, 2019.

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Avin, Brittany A; Wang, Yongchun; Gilpatrick, Timothy; Workman, Rachael E; Lee, Isac; Timp, Winston; Umbricht, Christopher B; Zeiger, Martha A

Characterization of human telomerase reverse transcriptase promoter methylation and transcription factor binding in differentiated thyroid cancer cell lines Journal Article

In: Genes, Chromosomes & Cancer, vol. 58, iss. 8, pp. 530-540, 2019, ISSN: 1098-2264.

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2018

Vanaja, Kiran G; Timp, Winston; Feinberg, Andrew P; Levchenko, Andre

A Loss of Epigenetic Control Can Promote Cell Death through Reversing the Balance of Pathways in a Signaling Network Journal Article

In: Molecular Cell, vol. 72, no. 1, pp. 60–70.e3, 2018, ISSN: 1097-4164.

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Tamma, Pranita D; Fan, Yunfan; Bergman, Yehudit; Sick-Samuels, Anna C; Hsu, Alice J; Timp, Winston; Simner, Patricia J

Successful Treatment of Persistent Burkholderia cepacia Complex Bacteremia with Ceftazidime-Avibactam Journal Article

In: Antimicrobial Agents and Chemotherapy, vol. 62, no. 4, 2018, ISSN: 1098-6596.

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Workman, Rachael; Fedak, Renee; Kilburn, Duncan; Hao, Stephanie; Liu, Kelvin; Timp, Winston

High Molecular Weight DNA Extraction from Recalcitrant Plant Species for Third Generation Sequencing Journal Article

In: Nature Protocols Exchange, 2018.

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Simner, Patricia J; Antar, Annukka A R; Hao, Stephanie; Gurtowski, James; Tamma, Pranita D; Rock, Clare; Opene, Belita N A; Tekle, Tsigereda; Carroll, Karen C; Schatz, Michael C; Timp, Winston

Antibiotic pressure on the acquisition and loss of antibiotic resistance genes in Klebsiella pneumoniae Journal Article

In: The Journal of Antimicrobial Chemotherapy, 2018, ISSN: 1460-2091.

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79 entries « 1 of 2 »