Swift: primary data analysis for the Illumina Solexa sequencing platform
Whiteford, Nava, Skelly, Tom, Curtis, Christina, Ritchie, Matt E., Löhr, Andrea, Zaranek, Alexander Wait, Abnizova, Irina, Brown, Clive
Published in Bioinformatics (01.09.2009)
Published in Bioinformatics (01.09.2009)
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Human Genome Sequencing Using Unchained Base Reads on Self-Assembling DNA Nanoarrays
Drmanac, Radoje, Sparks, Andrew B., Callow, Matthew J., Halpern, Aaron L., Burns, Norman L., Kermani, Bahram G., Carnevali, Paolo, Nazarenko, Igor, Nilsen, Geoffrey B., Yeung, George, Dahl, Fredrik, Fernandez, Andres, Staker, Bryan, Pant, Krishna P., Baccash, Jonathan, Borcherding, Adam P., Brownley, Anushka, Cedeno, Ryan, Chen, Linsu, Chernikoff, Dan, Cheung, Alex, Chirita, Razvan, Curson, Benjamin, Ebert, Jessica C., Hacker, Coleen R., Hartlage, Robert, Häuser, Brian, Huang, Steve, Jiang, Yuan, Karpinchyk, Vitali, Koenig, Mark, Kong, Calvin, Landers, Tom, Le, Catherine, Liu, Jia, McBride, Celeste E., Morenzoni, Matt, Morey, Robert E., Mutch, Karl, Perazich, Helena, Perry, Kimberly, Peters, Brock A., Peterson, Joe, Pethiyagoda, Charit L., Pothuraju, Kaliprasad, Richter, Claudia, Rosenbaum, Abraham M., Roy, Shaunak, Shafto, Jay, Sharanhovich, Uladzislau, Shannon, Karen W., Sheppy, Conrad G., Sun, Michel, Thakuria, Joseph V., Tran, Anne, Vu, Dylan, Zaranek, Alexander Wait, Wu, Xiaodi, Drmanac, Snezana, Oliphant, Arnold R., Banyai, William C., Martin, Bruce, Ballinger, Dennis G., Church, George M., Reid, Clifford A.
Published in Science (American Association for the Advancement of Science) (01.01.2010)
Published in Science (American Association for the Advancement of Science) (01.01.2010)
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Accurate whole-genome sequencing and haplotyping from 10 to 20 human cells
Peters, Brock A., Kermani, Bahram G., Sparks, Andrew B., Alferov, Oleg, Hong, Peter, Alexeev, Andrei, Jiang, Yuan, Dahl, Fredrik, Tang, Y. Tom, Haas, Juergen, Robasky, Kimberly, Zaranek, Alexander Wait, Lee, Je-Hyuk, Ball, Madeleine Price, Peterson, Joseph E., Perazich, Helena, Yeung, George, Liu, Jia, Chen, Linsu, Kennemer, Michael I., Pothuraju, Kaliprasad, Konvicka, Karel, Tsoupko-Sitnikov, Mike, Pant, Krishna P., Ebert, Jessica C., Nilsen, Geoffrey B., Baccash, Jonathan, Halpern, Aaron L., Church, George M., Drmanac, Radoje
Published in Nature (London) (12.07.2012)
Published in Nature (London) (12.07.2012)
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A highly annotated whole-genome sequence of a Korean individual
Seo, Jeong-Sun, Kim, Jong-Il, Ju, Young Seok, Park, Hansoo, Kim, Sheehyun, Lee, Seonwook, Yi, Jae-Hyuk, Mudge, Joann, Miller, Neil A, Hong, Dongwan, Bell, Callum J, Kim, Hye-Sun, Chung, In-Soon, Lee, Woo-Chung, Lee, Ji-Sun, Seo, Seung-Hyun, Yun, Ji-Young, Woo, Hyun Nyun, Lee, Heewook, Suh, Dongwhan, Lee, Seungbok, Kim, Hyun-Jin, Yavartanoo, Maryam, Kwak, Minhye, Zheng, Ying, Lee, Mi Kyeong, Park, Hyunjun, Kim, Jeong Yeon, Gokcumen, Omer, Mills, Ryan E, Zaranek, Alexander Wait, Thakuria, Joseph, Wu, Xiaodi, Kim, Ryan W, Huntley, Jim J, Luo, Shujun, Schroth, Gary P, Wu, Thomas D, Kim, HyeRan, Yang, Kap-Seok, Park, Woong-Yang, Kim, Hyungtae, Church, George M, Lee, Charles, Kingsmore, Stephen F
Published in Nature (London) (20.08.2009)
Published in Nature (London) (20.08.2009)
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A survey of genomic traces reveals a common sequencing error, RNA editing, and DNA editing
Zaranek, Alexander Wait, Levanon, Erez Y, Zecharia, Tomer, Clegg, Tom, Church, George M
Published in PLoS genetics (20.05.2010)
Published in PLoS genetics (20.05.2010)
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The whole genome sequences and experimentally phased haplotypes of over 100 personal genomes
Mao, Qing, Ciotlos, Serban, Zhang, Rebecca Yu, Ball, Madeleine P, Chin, Robert, Carnevali, Paolo, Barua, Nina, Nguyen, Staci, Agarwal, Misha R, Clegg, Tom, Connelly, Abram, Vandewege, Ward, Zaranek, Alexander Wait, Estep, Preston W, Church, George M, Drmanac, Radoje, Peters, Brock A
Published in Gigascience (11.10.2016)
Published in Gigascience (11.10.2016)
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Accelerating Genomic Data Generation and Facilitating Genomic Data Access Using Decentralization, Privacy-Preserving Technologies and Equitable Compensation
Grishin, Dennis, Obbad, Kamal, Estep, Preston, Quinn, Kevin, Zaranek, Sarah Wait, Zaranek, Alexander Wait, Vandewege, Ward, Clegg, Tom, César, Nico, Cifric, Mirza, Church, George
Published in Blockchain in healthcare today (01.01.2018)
Published in Blockchain in healthcare today (01.01.2018)
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Comments and Suggestions for Improvement of the Archon Genomics X PRIZE Validation Protocol
Zaranek, Alexander Wait, Clegg, Tom, Vandewege, Ward, Thakuria, Joseph
Published in Nature precedings (09.03.2011)
Published in Nature precedings (09.03.2011)
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Clinical assessment incorporating a personal genome
Ashley, Euan A, Dr, Butte, Atul J, MD, Wheeler, Matthew T, MD, Chen, Rong, PhD, Klein, Teri E, PhD, Dewey, Frederick E, MD, Dudley, Joel T, Ormond, Kelly E, MSc, Pavlovic, Aleksandra, BS, Morgan, Alexander A, MS, Pushkarev, Dmitry, Neff, Norma F, PhD, Hudgins, Louanne, Prof, Gong, Li, PhD, Hodges, Laura M, PhD, Berlin, Dorit S, PhD, Thorn, Caroline F, PhD, Sangkuhl, Katrin, PhD, Hebert, Joan M, MA, Woon, Mark, BSE, Sagreiya, Hersh, Whaley, Ryan, BS, Knowles, Joshua W, MD, Chou, Michael F, PhD, Thakuria, Joseph V, MD, Rosenbaum, Abraham M, PhD, Zaranek, Alexander Wait, PhD, Church, George M, PhD, Greely, Henry T, Prof, Quake, Stephen R, PhD, Altman, Russ B, Prof
Published in The Lancet (British edition) (01.05.2010)
Published in The Lancet (British edition) (01.05.2010)
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Genetic association study of Alzheimer’s disease through whole genome tiling analysis
Bao, Jingxuan, Lee, Brian N, Zaranek, Sarah Wait, Lee, Matthew, Shivakumar, Manu, Wen, Junhao, Chen, Jiong, Wen, Zixuan, Yang, Shu, Huang, Heng, Saykin, Andrew J., Thompson, Paul M, Davatzikos, Christos, Kim, Dokyoon, Zaranek, Alexander Wait, Shen, Li
Published in Alzheimer's & dementia (01.06.2023)
Published in Alzheimer's & dementia (01.06.2023)
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Machine learning for Alzheimer’s disease classification from genomic tiling variants
Lee, Matthew, Lee, Brian N, Zaranek, Sarah Wait, Bao, Jingxuan, Yang, Shu, Jung, Sang‐Hyuk, Huang, Heng, Saykin, Andrew J., Thompson, Paul M, Davatzikos, Christos, Kim, Dokyoon, Zaranek, Alexander Wait, Shen, Li
Published in Alzheimer's & dementia (01.12.2022)
Published in Alzheimer's & dementia (01.12.2022)
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public resource facilitating clinical use of genomes
Ball, Madeleine P, Thakuria, Joseph V, Zaranek, Alexander Wait, Clegg, Tom, Rosenbaum, Abraham M, Wu, Xiaodi, Angrist, Misha, Bhak, Jong, Bobe, Jason, Callow, Matthew J, Cano, Carlos, Chou, Michael F, Chung, Wendy K, Douglas, Shawn M, Estep, Preston W, Gore, Athurva, Hulick, Peter, Labarga, Alberto, Lee, Je-Hyuk, Lunshof, Jeantine E, Kim, Byung Chul, Kim, Jong-Il, Li, Zhe, Murray, Michael F, Nilsen, Geoffrey B, Peters, Brock A, Raman, Anugraha M, Rienhoff, Hugh Y, Robasky, Kimberly, Wheeler, Matthew T, Vandewege, Ward, Vorhaus, Daniel B, Yang, Joyce L, Yang, Luhan, Aach, John, Ashley, Euan A, Drmanac, Radoje, Kim, Seong-Jin, Li, Jin Billy, Peshkin, Leonid, Seidman, Christine E, Seo, Jeong-Sun, Zhang, Kun, Rehm, Heidi L, Church, George M
Published in Proceedings of the National Academy of Sciences - PNAS (24.07.2012)
Published in Proceedings of the National Academy of Sciences - PNAS (24.07.2012)
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Harvard Personal Genome Project: lessons from participatory public research
Ball, Madeleine P, Bobe, Jason R, Chou, Michael F, Clegg, Tom, Estep, Preston W, Lunshof, Jeantine E, Vandewege, Ward, Zaranek, Alexander, Church, George M
Published in Genome medicine (28.02.2014)
Published in Genome medicine (28.02.2014)
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Multiplex padlock targeted sequencing reveals human hypermutable CpG variations
Li, Jin Billy, Gao, Yuan, Aach, John, Zhang, Kun, Kryukov, Gregory V, Xie, Bin, Ahlford, Annika, Yoon, Jung-Ki, Rosenbaum, Abraham M, Zaranek, Alexander Wait, LeProust, Emily, Sunyaev, Shamil R, Church, George M
Published in Genome Research (01.09.2009)
Published in Genome Research (01.09.2009)
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A Survey of Genomic Traces Reveals a Common Sequencing Error, RNA Editing, and DNA Editing: e1000954
Zaranek, Alexander Wait, Levanon, Erez Y, Zecharia, Tomer, Clegg, Tom, Church, George M
Published in PLoS genetics (01.05.2010)
Published in PLoS genetics (01.05.2010)
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Accurate whole genome sequencing and haplotyping from10-20 human cells
Peters, Brock A., Kermani, Bahram G., Sparks, Andrew B., Alferov, Oleg, Hong, Peter, Alexeev, Andrei, Jiang, Yuan, Dahl, Fredrik, Tang, Y. Tom, Haas, Juergen, Robasky, Kimberly, Zaranek, Alexander Wait, Lee, Je-Hyuk, Ball, Madeleine Price, Peterson, Joseph E., Perazich, Helena, Yeung, George, Liu, Jia, Chen, Linsu, Kennemer, Michael I., Pothuraju, Kaliprasad, Konvicka, Karel, Tsoupko-Sitnikov, Mike, Pant, Krishna P., Ebert, Jessica C., Nilsen, Geoffrey B., Baccash, Jonathan, Halpern, Aaron L., Church, George M., Drmanac, Radoje
Published in Nature (London) (11.07.2012)
Published in Nature (London) (11.07.2012)
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Tiling the genome into consistently named subsequences enables precision medicine and machine learning with millions of complex individual data-sets
Guthrie, Sarah, Connelly, Abram, Amstutz, Peter, Berrey, Adam F, Nicolas, Cesar, Chen, Jiahua, Chippada, Radhika, Clegg, Tom, Cosca, Bryan, Li, Jiayong, Ouyang, Nancy, Sheffi, Jonathan, Smith, Brett, Ward Vandewege, Alexander Wait Zaranek
Published in PeerJ preprints (12.10.2015)
Published in PeerJ preprints (12.10.2015)
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Clinical evaluation incorporating a personal genome
Ashley, Euan A., Butte, Atul J., Wheeler, Matthew T., Chen, Rong, Klein, Teri E., Dewey, Frederick E., Dudley, Joel T., Ormond, Kelly E., Pavlovic, Aleksandra, Hudgins, Louanne, Gong, Li, Hodges, Laura M., Berlin, Dorit S., Thorn, Caroline F., Sangkuhl, Katrin, Hebert, Joan M., Woon, Mark, Sagreiya, Hersh, Whaley, Ryan, Morgan, Alexander A., Pushkarev, Dmitry, Neff, Norma F, Knowles, Joshua W., Chou, Mike, Thakuria, Joseph, Rosenbaum, Abraham, Zaranek, Alexander Wait, Church, George, Greely, Henry T., Quake, Stephen R., Altman, Russ B.
Published in The Lancet (British edition) (01.05.2010)
Published in The Lancet (British edition) (01.05.2010)
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A highly annotated whole-genome sequence of a Korean individual: Making diversity count
KIM, Jong-Il, YOUNG SEOK JU, KIM, Hye-Sun, CHUNG, In-Soon, LEE, Woo-Chung, LEE, Ji-Sun, SEO, Seung-Hyun, YUN, Ji-Young, HYUN NYUN WOO, LEE, Heewook, SUH, Dongwhan, LEE, Seungbok, PARK, Hansoo, KIM, Hyun-Jin, YAVARTANOO, Maryam, KWAK, Minhye, YING ZHENG, MI KYEONG LEE, PARK, Hyunjun, JEONG YEON KIM, GOKCUMEN, Omer, MILLS, Ryan E, WAIT ZARANEK, Alexander, KIM, Sheehyun, THAKURIA, Joseph, XIAODI WU, KIM, Ryan W, HUNTLEY, Jim J, SHUJUN LUO, SCHROTH, Gary P, WU, Thomas D, KIM, Hyeran, YANG, Kap-Seok, PARK, Woong-Yang, LEE, Seonwook, KIM, Hyungtae, CHURCH, George M, LEE, Charles, KINGSMORE, Stephen F, SEO, Jeong-Sun, YI, Jae-Hyuk, MUDGE, Joann, MILLER, Neil A, DONGWAN HONG, BELL, Callum J
Published in Nature genetics (2009)
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Published in Nature genetics (2009)
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Genome Graphs
Novak, Adam M, Hickey, Glenn, Garrison, Erik, Blum, Sean, Connelly, Abram, Dilthey, Alexander, Jordan Eizenga, Saleh Elmohamed, M A, Guthrie, Sally, Andr Kahles, Keenan, Stephen, Kelleher, Jerome, Kural, Deniz, Li, Heng, Lin, Michael F, Miga, Karen, Ouyang, Nancy, Rakocevic, Goran, Smuga-Otto, Maciek, Alexander Wait Zaranek, Durbin, Richard, Mcvean, Gil, Haussler, David, Paten, Benedict
Published in bioRxiv (18.01.2017)
Published in bioRxiv (18.01.2017)
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