wuHMM: a robust algorithm to detect DNA copy number variation using long oligonucleotide microarray data

por Cahan, Patrick, Godfrey, Laura E., Eis, Peggy S., Richmond, Todd A., Selzer, Rebecca R., Brent, Michael, McLeod, Howard L., Ley, Timothy J., Graubert, Timothy A.
Publicado 2008

A High-Resolution Map of Segmental DNA Copy Number Variation in the Mouse Genome

por Graubert, Timothy A, Cahan, Patrick, Edwin, Deepa, Selzer, Rebecca R, Richmond, Todd A, Eis, Peggy S, Shannon, William D, Li, Xia, McLeod, Howard L, Cheverud, James M, Ley, Timothy J
Publicado 2007

Nucleotide polymorphism and copy number variant detection using exome capture and next-generation sequencing in the polyploid grass Panicum virgatum

por Evans, Joseph, Kim, Jeongwoon, Childs, Kevin L, Vaillancourt, Brieanne, Crisovan, Emily, Nandety, Aruna, Gerhardt, Daniel J, Richmond, Todd A, Jeddeloh, Jeffrey A, Kaeppler, Shawn M, Casler, Michael D, Buell, C Robin
Publicado 2014

Germline Genetic Risk Variants for Progressive Multifocal Leukoencephalopathy

por Eis, Peggy S., Bruno, Christopher D., Richmond, Todd A., Koralnik, Igor J., Hanson, Barbara A., Major, Eugene O., Chow, Christina R., Hendel-Chavez, Houria, Stankoff, Bruno, Gasnault, Jacques, Taoufik, Yassine, Hatchwell, Eli
Publicado 2020

Complete genome sequence of Treponema pallidum ssp. pallidum strain SS14 determined with oligonucleotide arrays

por Matějková, Petra, Strouhal, Michal, Šmajs, David, Norris, Steven J, Palzkill, Timothy, Petrosino, Joseph F, Sodergren, Erica, Norton, Jason E, Singh, Jaz, Richmond, Todd A, Molla, Michael N, Albert, Thomas J, Weinstock, George M
Publicado 2008

Whole exome capture in solution with 3 Gbp of data

por Bainbridge, Matthew N, Wang, Min, Burgess, Daniel L, Kovar, Christie, Rodesch, Matthew J, D'Ascenzo, Mark, Kitzman, Jacob, Wu, Yuan-Qing, Newsham, Irene, Richmond, Todd A, Jeddeloh, Jeffrey A, Muzny, Donna, Albert, Thomas J, Gibbs, Richard A
Publicado 2010

Distribution, functional impact, and origin mechanisms of copy number variation in the barley genome

por Muñoz-Amatriaín, María, Eichten, Steven R, Wicker, Thomas, Richmond, Todd A, Mascher, Martin, Steuernagel, Burkhard, Scholz, Uwe, Ariyadasa, Ruvini, Spannagl, Manuel, Nussbaumer, Thomas, Mayer, Klaus FX, Taudien, Stefan, Platzer, Matthias, Jeddeloh, Jeffrey A, Springer, Nathan M, Muehlbauer, Gary J, Stein, Nils
Publicado 2013

High-resolution genome-wide cytosine methylation profiling with simultaneous copy number analysis and optimization for limited cell numbers

por Oda, Mayumi, Glass, Jacob L., Thompson, Reid F., Mo, Yongkai, Olivier, Emmanuel N., Figueroa, Maria E., Selzer, Rebecca R., Richmond, Todd A., Zhang, Xinmin, Dannenberg, Luke, Green, Roland D., Melnick, Ari, Hatchwell, Eli, Bouhassira, Eric E., Verma, Amit, Suzuki, Masako, Greally, John M.
Publicado 2009

Somatic retrotransposition alters the genetic landscape of the human brain

por Baillie, J. Kenneth, Barnett, Mark W., Upton, Kyle R., Gerhardt, Daniel J., Richmond, Todd A., De Sapio, Fioravante, Brennan, Paul, Rizzu, Patrizia, Smith, Sarah, Fell, Mark, Talbot, Richard T., Gustincich, Stefano, Freeman, Thomas C., Mattick, John S., Hume, David A., Heutink, Peter, Carninci, Piero, Jeddeloh, Jeffrey A., Faulkner, Geoffrey J.
Publicado 2011

Advancing NGS quality control to enable measurement of actionable mutations in circulating tumor DNA

por Willey, James C., Morrison, Tom B., Austermiller, Bradley, Crawford, Erin L., Craig, Daniel J., Blomquist, Thomas M., Jones, Wendell D., Wali, Aminah, Lococo, Jennifer S., Haseley, Nathan, Richmond, Todd A., Novoradovskaya, Natalia, Kusko, Rebecca, Chen, Guangchun, Li, Quan-Zhen, Johann, Donald J., Deveson, Ira W., Mercer, Timothy R., Wu, Leihong, Xu, Joshua
Publicado 2021

Barley whole exome capture: a tool for genomic research in the genus Hordeum and beyond

por Mascher, Martin, Richmond, Todd A, Gerhardt, Daniel J, Himmelbach, Axel, Clissold, Leah, Sampath, Dharanya, Ayling, Sarah, Steuernagel, Burkhard, Pfeifer, Matthias, D'Ascenzo, Mark, Akhunov, Eduard D, Hedley, Pete E, Gonzales, Ana M, Morrell, Peter L, Kilian, Benjamin, Blattner, Frank R, Scholz, Uwe, Mayer, Klaus FX, Flavell, Andrew J, Muehlbauer, Gary J, Waugh, Robbie, Jeddeloh, Jeffrey A, Stein, Nils
Publicado 2013

Progressive multifocal leukoencephalopathy genetic risk variants for pharmacovigilance of immunosuppressant therapies

por Hatchwell, Eli, Smith, Edward B., Jalilzadeh, Shapour, Bruno, Christopher D., Taoufik, Yassine, Hendel-Chavez, Houria, Liblau, Roland, Brassat, David, Martin-Blondel, Guillaume, Wiendl, Heinz, Schwab, Nicholas, Cortese, Irene, Monaco, Maria Chiara, Imberti, Luisa, Capra, Ruggero, Oksenberg, Jorge R., Gasnault, Jacques, Stankoff, Bruno, Richmond, Todd A., Rancour, David M., Koralnik, Igor J., Hanson, Barbara A., Major, Eugene O., Chow, Christina R., Eis, Peggy S.
Publicado 2022

Deep oncopanel sequencing reveals within block position-dependent quality degradation in FFPE processed samples

por Zhang, Yifan, Blomquist, Thomas M., Kusko, Rebecca, Stetson, Daniel, Zhang, Zhihong, Yin, Lihui, Sebra, Robert, Gong, Binsheng, Lococo, Jennifer S., Mittal, Vinay K., Novoradovskaya, Natalia, Yeo, Ji-Youn, Dominiak, Nicole, Hipp, Jennifer, Raymond, Amelia, Qiu, Fujun, Arib, Hanane, Smith, Melissa L., Brock, Jay E., Farkas, Daniel H., Craig, Daniel J., Crawford, Erin L., Li, Dan, Morrison, Tom, Tom, Nikola, Xiao, Wenzhong, Yang, Mary, Mason, Christopher E., Richmond, Todd A., Jones, Wendell, Johann, Donald J., Shi, Leming, Tong, Weida, Willey, James C., Xu, Joshua
Publicado 2022

Tracking Cancer Evolution Reveals Constrained Routes to Metastases: TRACERx Renal

por Turajlic, Samra, Xu, Hang, Litchfield, Kevin, Rowan, Andrew, Chambers, Tim, Lopez, Jose I., Nicol, David, O’Brien, Tim, Larkin, James, Horswell, Stuart, Stares, Mark, Au, Lewis, Jamal-Hanjani, Mariam, Challacombe, Ben, Chandra, Ashish, Hazell, Steve, Eichler-Jonsson, Claudia, Soultati, Aspasia, Chowdhury, Simon, Rudman, Sarah, Lynch, Joanna, Fernando, Archana, Stamp, Gordon, Nye, Emma, Jabbar, Faiz, Spain, Lavinia, Lall, Sharanpreet, Guarch, Rosa, Falzon, Mary, Proctor, Ian, Pickering, Lisa, Gore, Martin, Watkins, Thomas B.K., Ward, Sophia, Stewart, Aengus, DiNatale, Renzo, Becerra, Maria F., Reznik, Ed, Hsieh, James J., Richmond, Todd A., Mayhew, George F., Hill, Samantha M., McNally, Catherine D., Jones, Carol, Rosenbaum, Heidi, Stanislaw, Stacey, Burgess, Daniel L., Alexander, Nelson R., Swanton, Charles
Publicado 2018

A verified genomic reference sample for assessing performance of cancer panels detecting small variants of low allele frequency

por Jones, Wendell, Gong, Binsheng, Novoradovskaya, Natalia, Li, Dan, Kusko, Rebecca, Richmond, Todd A., Johann, Donald J., Bisgin, Halil, Sahraeian, Sayed Mohammad Ebrahim, Bushel, Pierre R., Pirooznia, Mehdi, Wilkins, Katherine, Chierici, Marco, Bao, Wenjun, Basehore, Lee Scott, Lucas, Anne Bergstrom, Burgess, Daniel, Butler, Daniel J., Cawley, Simon, Chang, Chia-Jung, Chen, Guangchun, Chen, Tao, Chen, Yun-Ching, Craig, Daniel J., del Pozo, Angela, Foox, Jonathan, Francescatto, Margherita, Fu, Yutao, Furlanello, Cesare, Giorda, Kristina, Grist, Kira P., Guan, Meijian, Hao, Yingyi, Happe, Scott, Hariani, Gunjan, Haseley, Nathan, Jasper, Jeff, Jurman, Giuseppe, Kreil, David Philip, Łabaj, Paweł, Lai, Kevin, Li, Jianying, Li, Quan-Zhen, Li, Yulong, Li, Zhiguang, Liu, Zhichao, López, Mario Solís, Miclaus, Kelci, Miller, Raymond, Mittal, Vinay K., Mohiyuddin, Marghoob, Pabón-Peña, Carlos, Parsons, Barbara L., Qiu, Fujun, Scherer, Andreas, Shi, Tieliu, Stiegelmeyer, Suzy, Suo, Chen, Tom, Nikola, Wang, Dong, Wen, Zhining, Wu, Leihong, Xiao, Wenzhong, Xu, Chang, Yu, Ying, Zhang, Jiyang, Zhang, Yifan, Zhang, Zhihong, Zheng, Yuanting, Mason, Christopher E., Willey, James C., Tong, Weida, Shi, Leming, Xu, Joshua
Publicado 2021

Evaluating the analytical validity of circulating tumor DNA sequencing assays for precision oncology

por Deveson, Ira W., Gong, Binsheng, Lai, Kevin, LoCoco, Jennifer S., Richmond, Todd A., Schageman, Jeoffrey, Zhang, Zhihong, Novoradovskaya, Natalia, Willey, James C., Jones, Wendell, Kusko, Rebecca, Chen, Guangchun, Madala, Bindu Swapna, Blackburn, James, Stevanovski, Igor, Bhandari, Ambica, Close, Devin, Conroy, Jeffrey, Hubank, Michael, Marella, Narasimha, Mieczkowski, Piotr A., Qiu, Fujun, Sebra, Robert, Stetson, Daniel, Sun, Lihyun, Szankasi, Philippe, Tan, Haowen, Tang, Lin-ya, Arib, Hanane, Best, Hunter, Burgher, Blake, Bushel, Pierre R., Casey, Fergal, Cawley, Simon, Chang, Chia-Jung, Choi, Jonathan, Dinis, Jorge, Duncan, Daniel, Eterovic, Agda Karina, Feng, Liang, Ghosal, Abhisek, Giorda, Kristina, Glenn, Sean, Happe, Scott, Haseley, Nathan, Horvath, Kyle, Hung, Li-Yuan, Jarosz, Mirna, Kushwaha, Garima, Li, Dan, Li, Quan-Zhen, Li, Zhiguang, Liu, Liang-Chun, Liu, Zhichao, Ma, Charles, Mason, Christopher E., Megherbi, Dalila B., Morrison, Tom, Pabón-Peña, Carlos, Pirooznia, Mehdi, Proszek, Paula Z., Raymond, Amelia, Rindler, Paul, Ringler, Rebecca, Scherer, Andreas, Shaknovich, Rita, Shi, Tieliu, Smith, Melissa, Song, Ping, Strahl, Maya, Thodima, Venkat J., Tom, Nikola, Verma, Suman, Wang, Jiashi, Wu, Leihong, Xiao, Wenzhong, Xu, Chang, Yang, Mary, Zhang, Guangliang, Zhang, Sa, Zhang, Yilin, Shi, Leming, Tong, Weida, Johann, Donald J, Mercer, Timothy R., Xu, Joshua
Publicado 2021

Cross-oncopanel study reveals high sensitivity and accuracy with overall analytical performance depending on genomic regions

por Gong, Binsheng, Li, Dan, Kusko, Rebecca, Novoradovskaya, Natalia, Zhang, Yifan, Wang, Shangzi, Pabón-Peña, Carlos, Zhang, Zhihong, Lai, Kevin, Cai, Wanshi, LoCoco, Jennifer S., Lader, Eric, Richmond, Todd A., Mittal, Vinay K., Liu, Liang-Chun, Johann, Donald J., Willey, James C., Bushel, Pierre R., Yu, Ying, Xu, Chang, Chen, Guangchun, Burgess, Daniel, Cawley, Simon, Giorda, Kristina, Haseley, Nathan, Qiu, Fujun, Wilkins, Katherine, Arib, Hanane, Attwooll, Claire, Babson, Kevin, Bao, Longlong, Bao, Wenjun, Lucas, Anne Bergstrom, Best, Hunter, Bhandari, Ambica, Bisgin, Halil, Blackburn, James, Blomquist, Thomas M., Boardman, Lisa, Burgher, Blake, Butler, Daniel J., Chang, Chia-Jung, Chaubey, Alka, Chen, Tao, Chierici, Marco, Chin, Christopher R., Close, Devin, Conroy, Jeffrey, Coleman, Jessica Cooley, Craig, Daniel J., Crawford, Erin, del Pozo, Angela, Deveson, Ira W., Duncan, Daniel, Eterovic, Agda Karina, Fan, Xiaohui, Foox, Jonathan, Furlanello, Cesare, Ghosal, Abhisek, Glenn, Sean, Guan, Meijian, Haag, Christine, Hang, Xinyi, Happe, Scott, Hennigan, Brittany, Hipp, Jennifer, Hong, Huixiao, Horvath, Kyle, Hu, Jianhong, Hung, Li-Yuan, Jarosz, Mirna, Kerkhof, Jennifer, Kipp, Benjamin, Kreil, David Philip, Łabaj, Paweł, Lapunzina, Pablo, Li, Peng, Li, Quan-Zhen, Li, Weihua, Li, Zhiguang, Liang, Yu, Liu, Shaoqing, Liu, Zhichao, Ma, Charles, Marella, Narasimha, Martín-Arenas, Rubén, Megherbi, Dalila B., Meng, Qingchang, Mieczkowski, Piotr A., Morrison, Tom, Muzny, Donna, Ning, Baitang, Parsons, Barbara L., Paweletz, Cloud P., Pirooznia, Mehdi, Qu, Wubin, Raymond, Amelia, Rindler, Paul, Ringler, Rebecca, Sadikovic, Bekim, Scherer, Andreas, Schulze, Egbert, Sebra, Robert, Shaknovich, Rita, Shi, Qiang, Shi, Tieliu, Silla-Castro, Juan Carlos, Smith, Melissa, López, Mario Solís, Song, Ping, Stetson, Daniel, Strahl, Maya, Stuart, Alan, Supplee, Julianna, Szankasi, Philippe, Tan, Haowen, Tang, Lin-ya, Tao, Yonghui, Thakkar, Shraddha, Thierry-Mieg, Danielle, Thierry-Mieg, Jean, Thodima, Venkat J., Thomas, David, Tichý, Boris, Tom, Nikola, Garcia, Elena Vallespin, Verma, Suman, Walker, Kimbley, Wang, Charles, Wang, Junwen, Wang, Yexun, Wen, Zhining, Wirta, Valtteri, Wu, Leihong, Xiao, Chunlin, Xiao, Wenzhong, Xu, Shibei, Yang, Mary, Ying, Jianming, Yip, Shun H., Zhang, Guangliang, Zhang, Sa, Zhao, Meiru, Zheng, Yuanting, Zhou, Xiaoyan, Mason, Christopher E., Mercer, Timothy, Tong, Weida, Shi, Leming, Jones, Wendell, Xu, Joshua
Publicado 2021