Search Results - "Speir, Matthew L."

The UCSC Genome Browser database: 2018 update by Casper, Jonathan, Zweig, Ann S, Villarreal, Chris, Tyner, Cath, Speir, Matthew L, Rosenbloom, Kate R, Raney, Brian J, Lee, Christopher M, Lee, Brian T, Karolchik, Donna, Hinrichs, Angie S, Haeussler, Maximilian, Guruvadoo, Luvina, Navarro Gonzalez, Jairo, Gibson, David, Fiddes, Ian T, Eisenhart, Christopher, Diekhans, Mark, Clawson, Hiram, Barber, Galt P, Armstrong, Joel, Haussler, David, Kuhn, Robert M, Kent, W James

“…Abstract The UCSC Genome Browser (https://genome.ucsc.edu) provides a web interface for exploring annotated genome assemblies. The assemblies and annotation…”
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UCSC Genome Browser enters 20th year by Lee, Christopher M, Barber, Galt P, Casper, Jonathan, Clawson, Hiram, Diekhans, Mark, Gonzalez, Jairo Navarro, Hinrichs, Angie S, Lee, Brian T, Nassar, Luis R, Powell, Conner C, Raney, Brian J, Rosenbloom, Kate R, Schmelter, Daniel, Speir, Matthew L, Zweig, Ann S, Haussler, David, Haeussler, Maximilian, Kuhn, Robert M, Kent, W James

“…Abstract The University of California Santa Cruz Genome Browser website (https://genome.ucsc.edu) enters its 20th year of providing high-quality genomics data…”
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The UCSC Genome Browser database: 2025 update by Perez, Gerardo, Barber, Galt P, Benet-Pages, Anna, Casper, Jonathan, Clawson, Hiram, Diekhans, Mark, Fischer, Clay, Gonzalez, Jairo Navarro, Hinrichs, Angie S, Lee, Christopher M, Nassar, Luis R, Raney, Brian J, Speir, Matthew L, van Baren, Marijke J, Vaske, Charles J, Haussler, David, Kent, W James, Haeussler, Maximilian

“…The UCSC Genome Browser (https://genome.ucsc.edu) is a widely utilized web-based tool for visualization and analysis of genomic data, encompassing over 4000…”
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GenArk: towards a million UCSC genome browsers by Clawson, Hiram, Lee, Brian T, Raney, Brian J, Barber, Galt P, Casper, Jonathan, Diekhans, Mark, Fischer, Clay, Gonzalez, Jairo Navarro, Hinrichs, Angie S, Lee, Christopher M, Nassar, Luis R, Perez, Gerardo, Wick, Brittney, Schmelter, Daniel, Speir, Matthew L, Armstrong, Joel, Zweig, Ann S, Kuhn, Robert M, Kirilenko, Bogdan M, Hiller, Michael, Haussler, David, Kent, W James, Haeussler, Maximilian

“…Interactive graphical genome browsers are essential tools in genomics, but they do not contain all the recent genome assemblies. We create Genome Archive…”
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The UCSC Genome Browser database: 2019 update by Haeussler, Maximilian, Zweig, Ann S, Tyner, Cath, Speir, Matthew L, Rosenbloom, Kate R, Raney, Brian J, Lee, Christopher M, Lee, Brian T, Hinrichs, Angie S, Gonzalez, Jairo Navarro, Gibson, David, Diekhans, Mark, Clawson, Hiram, Casper, Jonathan, Barber, Galt P, Haussler, David, Kuhn, Robert M, Kent, W James

“…Abstract The UCSC Genome Browser (https://genome.ucsc.edu) is a graphical viewer for exploring genome annotations. For almost two decades, the Browser has…”
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UCSC Cell Browser: visualize your single-cell data by Speir, Matthew L, Bhaduri, Aparna, Markov, Nikolay S, Moreno, Pablo, Nowakowski, Tomasz J, Papatheodorou, Irene, Pollen, Alex A, Raney, Brian J, Seninge, Lucas, Kent, W James, Haeussler, Maximilian

“…Abstract Summary As the use of single-cell technologies has grown, so has the need for tools to explore these large, complicated datasets. The UCSC Cell…”
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The UCSC Genome Browser database: 2021 update by Navarro Gonzalez, Jairo, Zweig, Ann S, Speir, Matthew L, Schmelter, Daniel, Rosenbloom, Kate R, Raney, Brian J, Powell, Conner C, Nassar, Luis R, Maulding, Nathan D, Lee, Christopher M, Lee, Brian T, Hinrichs, Angie S, Fyfe, Alastair C, Fernandes, Jason D, Diekhans, Mark, Clawson, Hiram, Casper, Jonathan, Benet-Pagès, Anna, Barber, Galt P, Haussler, David, Kuhn, Robert M, Haeussler, Maximilian, Kent, W James

“…Abstract For more than two decades, the UCSC Genome Browser database (https://genome.ucsc.edu) has provided high-quality genomics data visualization and genome…”
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The UCSC Genome Browser database: 2023 update by Nassar, Luis R, Barber, Galt P, Benet-Pagès, Anna, Casper, Jonathan, Clawson, Hiram, Diekhans, Mark, Fischer, Clay, Gonzalez, Jairo Navarro, Hinrichs, Angie S, Lee, Brian T, Lee, Christopher M, Muthuraman, Pranav, Nguy, Beagan, Pereira, Tiana, Nejad, Parisa, Perez, Gerardo, Raney, Brian J, Schmelter, Daniel, Speir, Matthew L, Wick, Brittney D, Zweig, Ann S, Haussler, David, Kuhn, Robert M, Haeussler, Maximilian, Kent, W James

“…The UCSC Genome Browser (https://genome.ucsc.edu) is an omics data consolidator, graphical viewer, and general bioinformatics resource that continues to serve…”
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The UCSC Genome Browser database: 2017 update by Tyner, Cath, Barber, Galt P, Casper, Jonathan, Clawson, Hiram, Diekhans, Mark, Eisenhart, Christopher, Fischer, Clayton M, Gibson, David, Gonzalez, Jairo Navarro, Guruvadoo, Luvina, Haeussler, Maximilian, Heitner, Steve, Hinrichs, Angie S, Karolchik, Donna, Lee, Brian T, Lee, Christopher M, Nejad, Parisa, Raney, Brian J, Rosenbloom, Kate R, Speir, Matthew L, Villarreal, Chris, Vivian, John, Zweig, Ann S, Haussler, David, Kuhn, Robert M, Kent, W James

“…Since its 2001 debut, the University of California, Santa Cruz (UCSC) Genome Browser (http://genome.ucsc.edu/) team has provided continuous support to the…”
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The UCSC Genome Browser database: 2016 update by Speir, Matthew L, Zweig, Ann S, Rosenbloom, Kate R, Raney, Brian J, Paten, Benedict, Nejad, Parisa, Lee, Brian T, Learned, Katrina, Karolchik, Donna, Hinrichs, Angie S, Heitner, Steve, Harte, Rachel A, Haeussler, Maximilian, Guruvadoo, Luvina, Fujita, Pauline A, Eisenhart, Christopher, Diekhans, Mark, Clawson, Hiram, Casper, Jonathan, Barber, Galt P, Haussler, David, Kuhn, Robert M, Kent, W James

“…For the past 15 years, the UCSC Genome Browser (http://genome.ucsc.edu/) has served the international research community by offering an integrated platform for…”
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The UCSC Genome Browser database: 2015 update by Rosenbloom, Kate R, Armstrong, Joel, Barber, Galt P, Casper, Jonathan, Clawson, Hiram, Diekhans, Mark, Dreszer, Timothy R, Fujita, Pauline A, Guruvadoo, Luvina, Haeussler, Maximilian, Harte, Rachel A, Heitner, Steve, Hickey, Glenn, Hinrichs, Angie S, Hubley, Robert, Karolchik, Donna, Learned, Katrina, Lee, Brian T, Li, Chin H, Miga, Karen H, Nguyen, Ngan, Paten, Benedict, Raney, Brian J, Smit, Arian F A, Speir, Matthew L, Zweig, Ann S, Haussler, David, Kuhn, Robert M, Kent, W James

“…Launched in 2001 to showcase the draft human genome assembly, the UCSC Genome Browser database (http://genome.ucsc.edu) and associated tools continue to grow,…”
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The UCSC Genome Browser database: 2022 update by Lee, Brian T, Barber, Galt P, Benet-Pagès, Anna, Casper, Jonathan, Clawson, Hiram, Diekhans, Mark, Fischer, Clay, Gonzalez, Jairo Navarro, Hinrichs, Angie S, Lee, Christopher M, Muthuraman, Pranav, Nassar, Luis R, Nguy, Beagan, Pereira, Tiana, Perez, Gerardo, Raney, Brian J, Rosenbloom, Kate R, Schmelter, Daniel, Speir, Matthew L, Wick, Brittney D, Zweig, Ann S, Haussler, David, Kuhn, Robert M, Haeussler, Maximilian, Kent, W James

“…Abstract The UCSC Genome Browser, https://genome.ucsc.edu, is a graphical viewer for exploring genome annotations. The website provides integrated tools for…”
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The UCSC Genome Browser database: 2014 update by Karolchik, Donna, Barber, Galt P, Casper, Jonathan, Clawson, Hiram, Cline, Melissa S, Diekhans, Mark, Dreszer, Timothy R, Fujita, Pauline A, Guruvadoo, Luvina, Haeussler, Maximilian, Harte, Rachel A, Heitner, Steve, Hinrichs, Angie S, Learned, Katrina, Lee, Brian T, Li, Chin H, Raney, Brian J, Rhead, Brooke, Rosenbloom, Kate R, Sloan, Cricket A, Speir, Matthew L, Zweig, Ann S, Haussler, David, Kuhn, Robert M, Kent, W James

“…The University of California Santa Cruz (UCSC) Genome Browser (http://genome.ucsc.edu) offers online public access to a growing database of genomic sequence…”
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Modeling Human TBX5 Haploinsufficiency Predicts Regulatory Networks for Congenital Heart Disease by Kathiriya, Irfan S., Rao, Kavitha S., Iacono, Giovanni, Devine, W. Patrick, Blair, Andrew P., Hota, Swetansu K., Lai, Michael H., Garay, Bayardo I., Thomas, Reuben, Gong, Henry Z., Wasson, Lauren K., Goyal, Piyush, Sukonnik, Tatyana, Hu, Kevin M., Akgun, Gunes A., Bernard, Laure D., Akerberg, Brynn N., Gu, Fei, Li, Kai, Speir, Matthew L., Haeussler, Maximilian, Pu, William T., Stuart, Joshua M., Seidman, Christine E., Seidman, J.G., Heyn, Holger, Bruneau, Benoit G.

“…Haploinsufficiency of transcriptional regulators causes human congenital heart disease (CHD); however, the underlying CHD gene regulatory network (GRN)…”
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The UCSC Genome Browser database: 2024 update by Raney, Brian J, Barber, Galt P, Benet-Pagès, Anna, Casper, Jonathan, Clawson, Hiram, Cline, Melissa S, Diekhans, Mark, Fischer, Clayton, Navarro Gonzalez, Jairo, Hickey, Glenn, Hinrichs, Angie S, Kuhn, Robert M, Lee, Brian T, Lee, Christopher M, Le Mercier, Phillipe, Miga, Karen H, Nassar, Luis R, Nejad, Parisa, Paten, Benedict, Perez, Gerardo, Schmelter, Daniel, Speir, Matthew L, Wick, Brittney D, Zweig, Ann S, Haussler, David, Kent, W James, Haeussler, Maximilian

“…Abstract The UCSC Genome Browser (https://genome.ucsc.edu) is a web-based genomic visualization and analysis tool that serves data to over 7,000 distinct users…”
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UCSC Data Integrator and Variant Annotation Integrator by Hinrichs, Angie S, Raney, Brian J, Speir, Matthew L, Rhead, Brooke, Casper, Jonathan, Karolchik, Donna, Kuhn, Robert M, Rosenbloom, Kate R, Zweig, Ann S, Haussler, David, Kent, W James

“…Two new tools on the UCSC Genome Browser web site provide improved ways of combining information from multiple datasets, optionally including the user's own…”
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Navigating protected genomics data with UCSC Genome Browser in a Box by Haeussler, Maximilian, Raney, Brian J, Hinrichs, Angie S, Clawson, Hiram, Zweig, Ann S, Karolchik, Donna, Casper, Jonathan, Speir, Matthew L, Haussler, David, Kent, W James

“…Genome Browser in a Box (GBiB) is a small virtual machine version of the popular University of California Santa Cruz (UCSC) Genome Browser that can be run on a…”
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The UCSC Ebola Genome Portal by Haeussler, Maximilian, Karolchik, Donna, Clawson, Hiram, Raney, Brian J, Rosenbloom, Kate R, Fujita, Pauline A, Hinrichs, Angie S, Speir, Matthew L, Eisenhart, Chris, Zweig, Ann S, Haussler, David, Kent, W James

“…With the Ebola epidemic raging out of control in West Africa, there has been a flurry of research into the Ebola virus, resulting in the generation of much…”
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