Fast and accurate short read alignment with Burrows-Wheeler transform

Cited by (1,699)

Items 401–500 of 1,699

1. Subclonal diversification of primary breast cancer revealed by multiregion sequencing
   Lucy R. Yates, Moritz Gerstung, Stian Knappskog, Christine Desmedt, Gunes Gundem, Peter Van Loo, Turid Aas, Ludmil B. Alexandrov, Denis Larsimont, Helen Davies et al. · 2015 · Nature Medicine
2. Classification of low quality cells from single-cell RNA-seq data
   Ilicic, Tomislav, Kim, Jong Kyoung, Kolodziejczyk, Aleksandra A., Bagger, Frederik Otzen, McCarthy, Davis James, Marioni, John C., Teichmann, Sarah A. · 2016 · Genome Biology
3. PoPoolation2: Identifying differentiation between populations using sequencing of pooled DNA samples (Pool-Seq)
   Kofler, Robert, Pandey, Ram Vinay, Schlötterer, Christian · 2011 · Bioinformatics
4. The draft genome of watermelon (Citrullus lanatus) and resequencing of 20 diverse accessions
   Shaogui Guo, Jianguo Zhang, Honghe Sun, Jérôme Salse, William John Lucas, Haiying Zhang, Yi Zheng, Linyong Mao, Yi Ren, Zhiwen Wang et al. · 2012 · Nature Genetics
5. Integrating human sequence data sets provides a resource of benchmark SNP and indel genotype calls
   Justin M. Zook, Brad Chapman, Jason Wang, David Mittelman, Oliver Hofmann, Winston Hide, Marc Salit · 2014 · Nature Biotechnology
6. CIRCLE-Seq: A highly sensitive in vitro screen for genome-wide CRISPR-cas9 nuclease off-targets
   Tsai, Shengdar Q, Nguyen, Nhu T, Malagon-Lopez, Jose, Topkar, Ved V, Aryee, Martin J, Joung, J Keith · 2017 · Nature Methods
7. The complex transcriptional landscape of the anucleate human platelet
   Bray, Paul F, McKenzie, Steven E, Edelstein, Leonard C, Nagalla, Srikanth, Delgrosso, Kathleen, Ertel, Adam, Kupper, Joan, Jing, Yi, Londin, Eric, Loher, Phillipe et al. · 2013 · BMC Genomics
8. Distinct H3F3A and H3F3B driver mutations define chondroblastoma and giant cell tumor of bone
   Behjati, Sam, Tarpey, Patrick S, Presneau, Nadège, Scheipl, Susanne, Pillay, Nischalan, Van Loo, Peter, Wedge, David C, Cooke, Susanna L, Gundem, Gunes, Davies, Helen et al. · 2013 · Nature Genetics
9. Host genetic variation impacts microbiome composition across human body sites
   Blekhman, Ran, Goodrich, Julia K., Huang, Katherine, Sun, Qi, Bukowski, Robert, Bell, Jordana T., Spector, Timothy D., Keinan, Alon, Ley, Ruth E., Gevers, Dirk et al. · 2015 · Genome Biology
10. Exome sequencing identifies somatic mutations of DNA methyltransferase gene DNMT3A in acute monocytic leukemia
    Xiaojing Yan, Jie Xu, Zhaohui Gu, Chun‐Ming Pan, Gang Lü, Yang Shen, Jingyi Shi, Yongmei Zhu, Lin Tang, Xiaowei Zhang et al. · 2011 · Nature Genetics
11. Exploiting the Mutanome for Tumor Vaccination
    John C. Castle, Sebastian Kreiter, Jan Diekmann, Martin Löwer, Niels van de Roemer, Jos de Graaf, Abderraouf Selmi, Mustafa Diken, Sebastian Boegel, Claudia Paret et al. · 2012 · Cancer Research
12. Methane metabolism in the archaeal phylum Bathyarchaeota revealed by genome-centric metagenomics
    Paul N. Evans, Donovan H. Parks, Grayson L. Chadwick, Steven J. Robbins, Victoria J. Orphan, S. D. Golding, Gene W. Tyson · 2015 · Science
13. Gain-of-function human STAT1 mutations impair IL-17 immunity and underlie chronic mucocutaneous candidiasis
    Luyan Liu, Satoshi Okada, Xiao‐Fei Kong, Alexandra Y. Kreins, Sophie Cypowyj, Avinash Abhyankar, Julie Toubiana, Yuval Itan, Magali Audry, Patrick Nitschké et al. · 2011 · The Journal of Experimental Medicine
14. Eight high-quality genomes reveal pan-genome architecture and ecotype differentiation of Brassica napus
    Jia‐Ming Song, Zhilin Guan, Jianlin Hu, Chaocheng Guo, Zhiquan Yang, Shuo Wang, Dongxu Liu, Bo Wang, Shaoping Lu, Run Zhou et al. · 2020 · Nature Plants
15. Comprehensive analysis of chromothripsis in 2,658 human cancers using whole-genome sequencing
    Cortés-Ciriano, Isidro, Lee, Jake June-Koo, Xi, Ruibin, Jain, Dhawal, Jung, Youngsook L., Yang, Lixing, Gordenin, Dmitry, Klimczak, Leszek J., Zhang, Cheng-Zhong, Pellman, David S. et al. · 2020 · Nature Genetics
16. SARS-CoV-2 Omicron is an immune escape variant with an altered cell entry pathway
    Willett, Brian J., Grove, Joe, MacLean, Oscar A., Wilkie, Craig, De Lorenzo, Giuditta, Furnon, Wilhelm, Cantoni, Diego, Scott, Sam, Logan, Nicola, Ashraf, Shirin et al. · 2022 · Nature Microbiology
17. Large-scale whole-genome sequencing of the Icelandic population
    Gudbjartsson, Daniel F, Helgason, Hannes, Gudjonsson, Sigurjon A, Zink, Florian, Oddson, Asmundur, Gylfason, Arnaldur, Besenbacher, Soren, Magnusson, Gisli, Halldorsson, Bjarni V, Hjartarson, Eirikur et al. · 2015 · Nature Genetics
18. Metabolic Induction of Trained Immunity through the Mevalonate Pathway
    Siroon Bekkering, Rob J.W. Arts, Boris Novakovic, Ioannis Kourtzelis, Charlotte D.C.C. van der Heijden, Yang Li, Călin D. Popa, Rob ter Horst, Julia van Tuijl, Romana Teodora Netea-Maier et al. · 2018 · Cell
19. The PD-1 expression balance between effector and regulatory T cells predicts the clinical efficacy of PD-1 blockade therapies
    Shogo Kumagai, Yosuke Togashi, Takahiro Kamada, Eri Sugiyama, Hitomi Nishinakamura, Yoshiko Takeuchi, Vitaly Kochin, Kota Itahashi, Yuka Maeda, Shigeyuki Matsui et al. · 2020 · Nature Immunology
20. Guided self-organization and cortical plate formation in human brain organoids
    Lancaster, Madeline A, Corsini, Nina S, Wolfinger, Simone, Gustafson, E Hilary, Phillips, Alex W, Burkard, Thomas R, Otani, Tomoki, Livesey, Frederick J, Knoblich, Juergen A · 2017 · Nature Biotechnology
21. An atlas of genetic influences on osteoporosis in humans and mice
    23andMe Research Team, Morris, John A., Kemp, John P., Youlten, Scott E., Laurent, Laetitia, Logan, John G., Chai, Ryan C., Vulpescu, Nicholas A., Forgetta, Vincenzo, Kleinman, Aaron et al. · 2019 · Nature Genetics
22. Single-cell analyses reveal key immune cell subsets associated with response to PD-L1 blockade in triple-negative breast cancer
    Zhang, Yuanyuan, Chen, Hongyan, Mo, Hongnan, Hu, Xueda, Gao, Ranran, Zhao, Yahui, Liu, Baolin, Niu, Lijuan, Sun, Xiaoying, Yu, Xiao et al. · 2021 · Cancer Cell
23. Sequence and cultivation study of Muribaculaceae reveals novel species, host preference, and functional potential of this yet undescribed family
    Ilias Lagkouvardos, Till Robin Lesker, Thomas C. A. Hitch, Eric J. C. Gálvez, Nathiana Smit, Klaus Neuhaus, Jun Wang, John F. Baines, Birte Abt, Bärbel Stecher et al. · 2019 · Microbiome
24. Trans-ancestry mutational landscape of hepatocellular carcinoma genomes
    Totoki, Yasushi, Tatsuno, Kenji, Covington, Kyle R, Ueda, Hiroki, Creighton, Chad J, Kato, Mamoru, Tsuji, Shingo, Donehower, Lawrence A, Slagle, Betty L, Nakamura, Hiromi et al. · 2014 · Nature Genetics
25. Melanoma genome sequencing reveals frequent PREX2 mutations
    Berger, Michael F., Hodis, Eran, Heffernan, Timothy P., Deribe, Yonathan Lissanu, Lawrence, Michael S., Protopopov, Alexei, Ivanova, Elena, Watson, Ian R., Nickerson, Elizabeth, Ghosh, Papia et al. · 2012 · Nature
26. Epidemic of carbapenem-resistant Klebsiella pneumoniae in Europe is driven by nosocomial spread
    Sophia David, Sandra Reuter, Simon R. Harris, Corinna Glasner, Theresa Feltwell, Silvia Argimón, Khalil Abudahab, Richard Goater, Tommaso Giani, Giulia Errico et al. · 2019 · Nature Microbiology
27. Reference genome sequences of two cultivated allotetraploid cottons, Gossypium hirsutum and Gossypium barbadense
    Maojun Wang, Lili Tu, Daojun Yuan, De Zhu, Chao Shen, Jianying Li, Fuyan Liu, Liuling Pei, Pengcheng Wang, Guannan Zhao et al. · 2018 · Nature Genetics
28. Medulloblastoma exome sequencing uncovers subtype-specific somatic mutations
    Pugh, Trevor J., Weeraratne, Shyamal Dilhan, Archer, Tenley C., Pomeranz Krummel, Daniel A., Auclair, Daniel, Bochicchio, James, Carneiro, Mauricio O., Carter, Scott L., Cibulskis, Kristian, Erlich, Rachel L. et al. · 2012 · Nature
29. Propionibacterium acnes Strain Populations in the Human Skin Microbiome Associated with Acne
    Sorel T. Fitz‐Gibbon, Shuta Tomida, Bor-Han Chiu, Lin Nguyen, Christine Du, Minghsun Liu, David A. Elashoff, Marie Crisel B. Erfe, Anya Loncaric, Jenny Kim et al. · 2013 · Journal of Investigative Dermatology
30. A phase Ib trial of personalized neoantigen therapy plus anti-PD-1 in patients with advanced melanoma, non-small cell lung cancer, or bladder cancer
    Ott, Patrick A., Hu-Lieskovan, Siwen, Chmielowski, Bartosz, Govindan, Ramaswamy, Naing, Aung, Bhardwaj, Nina, Margolin, Kim, Awad, Mark M., Hellmann, Matthew D., Lin, Jessica J. et al. · 2020 · Cell
31. Massive mining of publicly available RNA-seq data from human and mouse
    Lachmann, Alexander, Torre, Denis, Keenan, Alexandra B., Jagodnik, Kathleen M., Lee, Hoyjin J., Wang, Lily, Silverstein, Moshe C., Ma’ayan, Avi · 2018 · Nature Communications
32. Efficient de novo assembly of large genomes using compressed data structures
    Jared T. Simpson, Richard Michael Durbin · 2011 · Genome Research
33. Comprehensive characterization, annotation and innovative use of Infinium DNA methylation BeadChip probes
    Wanding Zhou, Peter W. Laird, Hui Shen · 2016 · Nucleic Acids Research
34. Rapid generation of a transgene-free powdery mildew resistant tomato by genome deletion
    Vladimir Nekrasov, Congmao Wang, Joe Win, Christa Lanz, Detlef Weigel, Sophien Kamoun · 2017 · Scientific Reports
35. RADSeq: next-generation population genetics
    John W. Davey, Mark Blaxter · 2010 · Briefings in Functional Genomics
36. Telomere-to-telomere assembly of a complete human X chromosome
    Miga, Karen H., Koren, Sergey, Rhie, Arang, Vollger, Mitchell R., Gershman, Ariel, Bzikadze, Andrey, Brooks, Shelise, Howe, Edmund, Porubsky, David, Logsdon, Glennis A. et al. · 2020 · Nature
37. Clonal evolution of glioblastoma under therapy
    Jiguang Wang, Emanuela Cazzato, Erik Ladewig, Veroniquè Frattini, Daniel I. S. Rosenbloom, Sakellarios Zairis, Francesco Abate, Zhaoqi Liu, Oliver Elliott, Yong‐Jae Shin et al. · 2016 · Nature Genetics
38. Spontaneous epigenetic variation in the Arabidopsis thaliana methylome
    Claude Becker, Jörg Hagmann, Jonas Müller, Daniel Koenig, Oliver Stegle, Karsten Michael Borgwardt, Detlef Weigel · 2011 · Nature
39. The formation of human populations in South and Central Asia
    Vagheesh M. Narasimhan, Nick J. Patterson, Priya Moorjani, Nadin Rohland, Rebecca L. Bernardos, Swapan Mallick, Iosif Lazaridis, Nathan J. Nakatsuka, Íñigo Olalde, Mark Lipson et al. · 2019 · Science
40. Tumor Cell-Intrinsic Factors Underlie Heterogeneity of Immune Cell Infiltration and Response to Immunotherapy
    Jinyang Li, Katelyn T. Byrne, Fangxue Yan, Taiji Yamazoe, Zeyu Chen, Timour Baslan, Lee P. Richman, Jeffrey Lin, Yu Huining Sun, Andrew J. Rech et al. · 2018 · Immunity
41. High speed BLASTN: an accelerated MegaBLAST search tool
    Ying Chen, Weicai Ye, Yongdong Zhang, Yuesheng Xu · 2015 · Nucleic Acids Research
42. Insight into biases and sequencing errors for amplicon sequencing with the Illumina MiSeq platform
    Melanie Schirmer, Umer Zeeshan Ijaz, Rosalinda D'Amore, Neil Hall, William T. Sloan, Christopher Quince · 2015 · Nucleic Acids Research
43. Mapping information-rich genotype-phenotype landscapes with genome-scale Perturb-seq
    Replogle, Joseph M., Saunders, Reuben A., Pogson, Angela N., Hussmann, Jeffrey A., Lenail, Alexander, Guna, Alina, Mascibroda, Lauren, Wagner, Eric J., Adelman, Karen, Lithwick-Yanai, Gila et al. · 2022 · Cell
44. Zika Virus Depletes Neural Progenitors in Human Cerebral Organoids through Activation of the Innate Immune Receptor TLR3
    Dang, Jason, Tiwari, Shashi Kant, Lichinchi, Gianluigi, Qin, Yue, Patil, Veena S., Eroshkin, Alexey M., Rana, Tariq M. · 2016 · Cell Stem Cell
45. Fast Identification and Removal of Sequence Contamination from Genomic and Metagenomic Datasets
    Robert Schmieder, Robert Alan Edwards · 2011 · PLoS ONE
46. Frequent mutations of chromatin remodeling genes in transitional cell carcinoma of the bladder
    Yaoting Gui, Guangwu Guo, Yi Huang, Xueda Hu, Aifa Tang, Shengjie Gao, Renhua Wu, Chao Chen, Xianxin Li, Liang Zhou et al. · 2011 · Nature Genetics
47. The Beaker phenomenon and the genomic transformation of northwest Europe
    Íñigo Olalde, Selina Brace, Morten E. Allentoft, Ian Armit, Kristian Kristiansen, Thomas J. Booth, Nadin Rohland, Swapan Mallick, Anna Szécsényi‐Nagy, Alissa Mittnik et al. · 2018 · Nature
48. Distinct features of H3K4me3 and H3K27me3 chromatin domains in pre-implantation embryos
    Liu, Xiaoyu, Wang, Chenfei, Liu, Wenqiang, Li, Jingyi, Li, Chong, Kou, Xiaochen, Chen, Jiayu, Zhao, Yanhong, Gao, Haibo, Wang, Hong et al. · 2016 · Nature
49. Infection of dogs with SARS-CoV-2
    Thomas H. C. Sit, Christopher J. Brackman, Sin Ming Ip, Karina W. S. Tam, Pierra Ying-Tung Law, Esther M. W. To, Veronica Y. T. Yu, Leslie D. Sims, Dominic N.C. Tsang, Daniel K. W. Chu et al. · 2020 · Nature
50. Guidelines for Validation of Next-Generation Sequencing–Based Oncology Panels
    Lawrence J. Jennings, Maria E. Arcila, Christopher L. Corless, Suzanne Kamel‐Reid, Ira M. Lubin, John D. Pfeifer, Robyn Temple‐Smolkin, Karl V. Voelkerding, Marina N. Nikiforova · 2017 · Journal of Molecular Diagnostics
51. Single molecule real-time (SMRT) sequencing comes of age: applications and utilities for medical diagnostics
    Simon Ardui, Adam Ameur, Joris Robert Vermeesch, Matthew S. Hestand · 2018 · Nucleic Acids Research
52. De novo germline and postzygotic mutations in AKT3, PIK3R2 and PIK3CA cause a spectrum of related megalencephaly syndromes
    Finding of Rare Disease Genes (FORGE) Canada Consortium, Rivière, Jean-Baptiste, Mirzaa, Ghayda M, O'Roak, Brian J, Beddaoui, Margaret, Alcantara, Diana, Conway, Robert L, St-Onge, Judith, Schwartzentruber, Jeremy A, Gripp, Karen W et al. · 2012 · Nature Genetics
53. Small-molecule–induced DNA damage identifies alternative DNA structures in human genes
    Rodriguez, Raphaël, Miller, Kyle M, Forment, Josep V, Bradshaw, Charles R, Nikan, Mehran, Britton, Sébastien, Oelschlaegel, Tobias, Xhemalce, Blerta, Balasubramanian, Shankar, Jackson, Stephen P · 2012 · Nature Chemical Biology
54. Emergence and global spread of epidemic healthcare-associated Clostridium difficile
    Miao He, Fábio Miyajima, Paul Roberts, Louise Ellison, Derek Pickard, Melissa J. Martin, Thomas R. Connor, Simon R. Harris, Derek Fairley, Kathleen B. Bamford et al. · 2012 · Nature Genetics
55. Genome-wide association analyses provide genetic and biochemical insights into natural variation in rice metabolism
    Wei Chen, Yanqiang Gao, Weibo Xie, Liang Gong, Kai Lü, Wensheng Wang, Yang Li, Xianqing Liu, Hongyan Zhang, Huaxia Dong et al. · 2014 · Nature Genetics
56. Allele-defined genome of the autopolyploid sugarcane Saccharum spontaneum L.
    Jisen Zhang, Xingtan Zhang, Haibao Tang, Qing Zhang, Xiuting Hua, Xiaokai Ma, Fan Zhu, Tyler Jones, Xin‐Guang Zhu, John Bowers et al. · 2018 · Nature Genetics
57. Single-cell transcriptomes from human kidneys reveal the cellular identity of renal tumors
    Young, Matthew D., Mitchell, Thomas J., Vieira Braga, Felipe A., Tran, Maxine G. B., Stewart, Benjamin J., Ferdinand, John R., Collord, Grace, Botting, Rachel A., Popescu, Dorin-Mirel, Loudon, Kevin W. et al. · 2018 · Science
58. Integrated genomic analysis identifies recurrent mutations and evolution patterns driving the initiation and progression of follicular lymphoma
    Jessica Okosun, Csaba Bödör, Jun Wang, Shamzah Araf, Cheng-Yuan Yang, Chenyi Pan, Sören Boller, Davide Cittaro, Monika Bożek, Sameena Iqbal et al. · 2013 · Nature Genetics
59. Identification of Multipotent Luminal Progenitor Cells in Human Prostate Organoid Cultures
    Wouter R. Karthaus, Phillip J. Iaquinta, Jarno Drost, Ana Gracanin, Ruben van Boxtel, John Wongvipat, Catherine Dowling, Dong Gao, Harry Begthel, Norman Sachs et al. · 2014 · Cell
60. A Natural Allele of a Transcription Factor in Rice Confers Broad-Spectrum Blast Resistance
    Weitao Li, Ziwei Zhu, Mawsheng Chern, Junjie Yin, Chao Yang, Li Ran, Mengping Cheng, Min He, Kang Wang, Jing Wang et al. · 2017 · Cell
61. A bacterial cytidine deaminase toxin enables CRISPR-free mitochondrial base editing
    Beverly Y. Mok, Marcos H. de Moraes, Jun Zeng, Dustin E. Bosch, Anna V. Kotrys, Aditya Raguram, FoSheng Hsu, Matthew C. Radey, Snow Brook Peterson, Vamsi Krishna Mootha et al. · 2020 · Nature
62. Human placenta has no microbiome but can contain potential pathogens
    de Goffau, Marcus C., Lager, Susanne, Sovio, Ulla, Gaccioli, Francesca, Cook, Emma, Peacock, Sharon J., Parkhill, Julian, Charnock-Jones, D. Stephen, Smith, Gordon C. S. · 2019 · Nature
63. Patient-Derived Organoids Predict Chemoradiation Responses of Locally Advanced Rectal Cancer
    Yao, Ye, Xu, Xiaoya, Yang, Lifeng, Zhu, Ji, Wan, Juefeng, Shen, Lijun, Xia, Fan, Fu, Guoxiang, Deng, Yun, Pan, Mengxue et al. · 2020 · Cell Stem Cell
64. Integrating Hi-C links with assembly graphs for chromosome-scale assembly
    Jay Ghurye, Arang Rhie, Brian P. Walenz, Anthony D. Schmitt, Siddarth Selvaraj, Mihai Pop, Adam M. Phillippy, Sergey Koren · 2019 · PLoS Computational Biology
65. Thiol-linked alkylation of RNA to assess expression dynamics
    Herzog, Veronika A, Reichholf, Brian, Neumann, Tobias, Rescheneder, Philipp, Bhat, Pooja, Burkard, Thomas R, Wlotzka, Wiebke, von Haeseler, Arndt, Zuber, Johannes, Ameres, Stefan L · 2017 · Nature Methods
66. Clonal evolution of preleukemic hematopoietic stem cells precedes human acute myeloid leukemia
    Jan, Max, Snyder, Thomas M., Corces-Zimmerman, M. Ryan, Vyas, Paresh, Weissman, Irving L., Quake, Stephen R., Majeti, Ravindra · 2012 · Science Translational Medicine
67. Transcriptome-wide Analysis of Regulatory Interactions of the RNA-Binding Protein HuR
    Lebedeva, Svetlana, Jens, Marvin, Theil, Kathrin, Schwanhäusser, Björn, Selbach, Matthias, Landthaler, Markus, Rajewsky, Nikolaus · 2011 · Molecular Cell
68. Chromothripsis and Kataegis Induced by Telomere Crisis
    Maciejowski, John, Li, Yilong, Bosco, Nazario, Campbell, Peter J., de Lange, Titia · 2015 · Cell
69. Transcription phenotypes of pancreatic cancer are driven by genomic events during tumor evolution
    Chan-Seng-Yue, Michelle, Kim, Jaeseung C., Wilson, Gavin W., Ng, Karen, Figueroa, Eugenia Flores, O’Kane, Grainne M., Connor, Ashton A., Denroche, Robert E., Grant, Robert C., McLeod, Jessica et al. · 2020 · Nature Genetics
70. Genomic characterization of metastatic breast cancers
    François Bertucci, Charlotte K.Y. Ng, Anne Patsouris, Nathalie M Droin, Salvatore Piscuoglio, Nadine Carbuccia, Jean‐Charles Soria, Alicia Tran Dien, Yahia Adnani, Maud T Kamal et al. · 2019 · Nature
71. Polypolish: Short-read polishing of long-read bacterial genome assemblies
    Ryan R. Wick, Kathryn E. Holt · 2022 · PLoS Computational Biology
72. Metagenomic analysis of a permafrost microbial community reveals a rapid response to thaw
    Rachel Mackelprang, Mark P. Waldrop, Kristen M. DeAngelis, Maude M. David, Krystle L. Chavarría, Steven J. Blazewicz, Edward M. Rubin, Janet K Jansson · 2011 · Nature
73. DNA Methylation on N6-Adenine in C. elegans
    Eric Lieberman Greer, Mario Andres Blanco, Lei Gu, Erdem Sendinc, Jianzhao Liu, David Aristizábal-Corrales, Chih-Hung Hsu, Lakshminarayanan Aravind, Chuan He, Yang Shi · 2015 · Cell
74. G51D α‐synuclein mutation causes a novel Parkinsonian–pyramidal syndrome
    Suzanne Lesage, Mathieu Anheim, Franck Letournel, Luc Bousset, Aurélie Honoré, Nelly Rozas, Laura Pieri, Karine Madiona, Alexandra Dürr, Ronald Melki et al. · 2013 · Annals of Neurology
75. Transcriptome-wide mapping of N6-methyladenosine by m6A-seq based on immunocapturing and massively parallel sequencing
    Dan Dominissini, Sharon Moshitch-Moshkovitz, Mali Salmon‐Divon, Ninette Amariglio, Gideon Rechavi · 2013 · Nature Protocols
76. RNA-guided DNA insertion with CRISPR-associated transposases
    Jonathan G. Strecker, Alim Ladha, Zachary Gardner, Jonathan Leo Schmid-Burgk, Kira S. Makarova, Eugene V. Koonin, Feng Zhang · 2019 · Science
77. A multi-omic atlas of the human frontal cortex for aging and Alzheimer’s disease research
    De Jager, Philip L., Ma, Yiyi, McCabe, Cristin, Xu, Jishu, Vardarajan, Badri N., Felsky, Daniel, Klein, Hans-Ulrich, White, Charles C., Peters, Mette A., Lodgson, Ben et al. · 2018 · Scientific Data
78. Direct identification of clinically relevant neoepitopes presented on native human melanoma tissue by mass spectrometry
    Bassani-Sternberg, Michal, Bräunlein, Eva, Klar, Richard, Engleitner, Thomas, Sinitcyn, Pavel, Audehm, Stefan, Straub, Melanie, Weber, Julia, Slotta-Huspenina, Julia, Specht, Katja et al. · 2016 · Nature Communications
79. The genomic history of southeastern Europe
    Iain Mathieson, Songül Alpaslan-Roodenberg, Cosimo Posth, Anna Szécsényi‐Nagy, Nadin Rohland, Swapan Mallick, Íñigo Olalde, Nasreen Broomandkhoshbacht, Francesca Candilio, Olivia Cheronet et al. · 2018 · Nature
80. Multiscale Analysis of Independent Alzheimer’s Cohorts Finds Disruption of Molecular, Genetic, and Clinical Networks by Human Herpesvirus
    Readhead, Ben, Haure-Mirande, Jean-Vianney, Funk, Cory C., Richards, Matthew A., Shannon, Paul, Haroutunian, Vahram, Sano, Mary, Liang, Winnie S., Beckmann, Noam D., Price, Nathan D. et al. · 2018 · Neuron
81. Cytosine, but not adenine, base editors induce genome-wide off-target mutations in rice
    Jin, Shuai, Zong, Yuan, Gao, Qiang, Zhu, Zixu, Wang, Yanpeng, Qin, Peng, Liang, Chengzhi, Wang, Daowen, Qiu, Jin-Long, Zhang, Feng et al. · 2019 · Science
82. De novo assembly, annotation, and comparative analysis of 26 diverse maize genomes
    Matthew B. Hufford, Arun Somwarpet Seetharam, Margaret Roth Woodhouse, Kapeel M. Chougule, Shujun Ou, Jianing Liu, William A. Ricci, Tingting Guo, Andrew J. Olson, Yinjie Qiu et al. · 2021 · Science
83. De novo assembly of soybean wild relatives for pan-genome analysis of diversity and agronomic traits
    Yinghui Li, Guangyu Zhou, Jianxin Ma, Wenkai Jiang, Long‐Guo Jin, Zhouhao Zhang, Yong Guo, Jinbo Zhang, Yi Sui, Liangtao Zheng et al. · 2014 · Nature Biotechnology
84. MaxBin: an automated binning method to recover individual genomes from metagenomes using an expectation-maximization algorithm
    Yu‐Wei Wu, Yung-Hsu Tang, Susannah Green Tringe, Blake Alexander Simmons, Steven W. Singer · 2014 · Microbiome
85. Haplotype-resolved diverse human genomes and integrated analysis of structural variation
    Ebert, Peter, Audano, Peter A., Zhu, Qihui, Rodriguez-Martin, Bernardo, Porubsky, David, Bonder, Marc Jan, Sulovari, Arvis, Ebler, Jana, Zhou, Weichen, Serra Mari, Rebecca et al. · 2021 · Science
86. Genome-wide enhancer maps link risk variants to disease genes
    Nasser, Joseph, Bergman, Drew T., Fulco, Charles P., Guckelberger, Philine, Doughty, Benjamin R., Patwardhan, Tejal A., Jones, Thouis R., Nguyen, Tung H., Ulirsch, Jacob C., Lekschas, Fritz et al. · 2021 · Nature
87. From RNA-seq reads to differential expression results
    Alicia Oshlack, Mark D. Robinson, Matthew D. Young · 2010 · Genome biology
88. Developmental and oncogenic programs in H3K27M gliomas dissected by single-cell RNA-seq
    Mariella G. Filbin, Itay Tirosh, Volker Hovestadt, McKenzie L. Shaw, Leah E. Escalante, Nathan D. Mathewson, Cyril Neftel, Nelli Frank, Kristine Pelton, Christine M. Hebert et al. · 2018 · Science
89. Navigating the tip of the genomic iceberg: Next‐generation sequencing for plant systematics
    Shannon C. K. Straub, Matthew Parks, Kevin Weitemier, Mark Fishbein, Richard Cronn, Aaron Liston · 2011 · American Journal of Botany
90. Molecular topography of an entire nervous system
    Seth R. Taylor, Gabriel Santpere, Alexis Weinreb, Alec Barrett, Molly B. Reilly, Chuan Xu, Erdem Varol, Panos Oikonomou, Lori Glenwinkel, Rebecca D. McWhirter et al. · 2021 · Cell
91. Genetic landscape of esophageal squamous cell carcinoma
    Yibo Gao, Zhao-li Chen, Jia-Gen Li, Xue-Da Hu, Xue-Jiao Shi, Zeng-Miao Sun, Fan Zhang, Zi-Ran Zhao, Zi-Tong Li, Zi-Yuan Liu et al. · 2014 · Nature Genetics
92. The genome of cultivated peanut provides insight into legume karyotypes, polyploid evolution and crop domestication
    Weijian Zhuang, Hua Chen, Meng Yang, Jianping Wang, Manish Kumar Pandey, Chong Zhang, Wen-Chi Chang, Liangsheng Zhang, Xingtan Zhang, Ronghua Tang et al. · 2019 · Nature Genetics
93. Integrating genomic features for non-invasive early lung cancer detection
    Jacob J. Chabon, Emily G. Hamilton, David Matthew Kurtz, Mohammad Shahrokh Esfahani, Everett James Moding, Henning Stehr, Joseph G. Schroers‐Martin, Barzin Y. Nabet, Binbin Chen, Aadel A. Chaudhuri et al. · 2020 · Nature
94. Comparative genome and phenotypic analysis of three Clostridioides difficile strains isolated from a single patient provide insight into multiple infection of C. difficile
    Uwe Groß, Elżbieta Brzuszkiewicz, Katrin Gunka, Jessica Starke, Thomas Riedel, Boyke Bunk, Cathrin Spröer, Daniela Wetzel, Anja Poehlein, Cynthia Maria Chibani et al. · 2018 · BMC Genomics
95. RaGOO: fast and accurate reference-guided scaffolding of draft genomes
    Michael Alonge, Sebastian Soyk, Srividya Ramakrishnan, Xingang Wang, Sara Goodwin, Fritz Joachim Sedlazeck, Zachary B. Lippman, Michael C. Schatz · 2019 · Genome biology
96. Erratum: Resequencing 302 wild and cultivated accessions identifies genes related to domestication and improvement in soybean
    Zhengkui Zhou, Yu Jiang, Zheng Wang, Zhiheng Gou, Jun Lyu, Weiyu Li, Yanjun Yu, Liping Shu, Yingjun Zhao, Yanming Ma et al. · 2016 · Nature Biotechnology
97. Domestication and Divergence of Saccharomyces cerevisiae Beer Yeasts
    Gallone, Brigida, Steensels, Jan, Prahl, Troels, Soriaga, Leah, Saels, Veerle, Herrera-Malaver, Beatriz, Merlevede, Adriaan, Roncoroni, Miguel, Voordeckers, Karin, Miraglia, Loren et al. · 2016 · Cell
98. A Single Oncogenic Enhancer Rearrangement Causes Concomitant EVI1 and GATA2 Deregulation in Leukemia
    Gröschel, Stefan, Sanders, Mathijs A., Hoogenboezem, Remco, de Wit, Elzo, Bouwman, Britta A.M., Erpelinck, Claudia, van der Velden, Vincent H.J., Havermans, Marije, Avellino, Roberto, van Lom, Kirsten et al. · 2014 · Cell
99. β-Glucan Reverses the Epigenetic State of LPS-Induced Immunological Tolerance
    Boris Novakovic, Ehsan Habibi, Shuang-Yin Wang, Rob J.W. Arts, Robab Davar, Wout Megchelenbrink, Bowon Kim, Tatyana Kuznetsova, Matthijs Kox, Jelle Zwaag et al. · 2016 · Cell
100. Rate and molecular spectrum of spontaneous mutations in the bacterium <i>Escherichia coli</i> as determined by whole-genome sequencing
     Lee, Heewook, Popodi, Ellen, Tang, Haixu, Foster, Patricia L. · 2012 · Proceedings of the National Academy of Sciences