Fast and accurate short read alignment with Burrows-Wheeler transform
Li, Heng, Durbin, Richard·2009·Bioinformatics
Cited by (1,701)
Items 101–200 of 1,701
- The neuroactive potential of the human gut microbiota in quality of life and depressionValles-Colomer, Mireia, Falony, Gwen, Darzi, Youssef, Tigchelaar, Ettje F., Wang, Jun, Tito, Raul Y., Schiweck, Carmen, Kurilshikov, Alexander, Joossens, Marie, Wijmenga, Cisca et al. · 2019 · Nature Microbiology
- Mutational Processes Molding the Genomes of 21 Breast CancersNik-Zainal, Serena, Alexandrov, Ludmil B., Wedge, David C., Van Loo, Peter, Greenman, Christopher D., Raine, Keiran, Jones, David, Hinton, Jonathan, Marshall, John, Stebbings, Lucy A. et al. · 2012 · Cell
- Fast and SNP-tolerant detection of complex variants and splicing in short readsWu, Thomas D., Nacu, Serban · 2010 · Bioinformatics
- Genetic history of an archaic hominin group from Denisova Cave in SiberiaReich, David, Green, Richard E., Kircher, Martin, Krause, Johannes, Patterson, Nick, Durand, Eric Y., Viola, Bence, Briggs, Adrian W., Stenzel, Udo, Johnson, Philip L. F. et al. · 2010 · Nature
- A living biobank of breast cancer organoids captures disease heterogeneitySachs, Norman, de Ligt, Joep, Kopper, Oded, Gogola, Ewa, Bounova, Gergana, Weeber, Fleur, Balgobind, Anjali Vanita, Wind, Karin, Gracanin, Ana, Begthel, Harry et al. · 2018 · Cell
- Clinical Whole-Exome Sequencing for the Diagnosis of Mendelian DisordersYaping Yang, Donna Marie Muzny, Jeffrey G. Reid, Matthew Neil Bainbridge, Alecia S. Willis, Patricia A. Ward, Alicia A. Braxton, Joke Beuten, Fan Xia, Zhiyv Niu et al. · 2013 · New England Journal of Medicine
- A high-coverage genome sequence from an archaic denisovan individualMeyer, Matthias, Kircher, Martin, Gansauge, Marie-Theres, Li, Heng, Racimo, Fernando, Mallick, Swapan, Schraiber, Joshua G., Jay, Flora, Prüfer, Kay, de Filippo, Cesare et al. · 2012 · Science
- Evaluation of off-target and on-target scoring algorithms and integration into the guide RNA selection tool CRISPORHaeussler, Maximilian, Schönig, Kai, Eckert, Hélène, Eschstruth, Alexis, Mianné, Joffrey, Renaud, Jean-Baptiste, Schneider-Maunoury, Sylvie, Shkumatava, Alena, Teboul, Lydia, Kent, Jim et al. · 2016 · Genome biology
- Massive migration from the steppe was a source for Indo-European languages in EuropeHaak, Wolfgang, Lazaridis, Iosif, Patterson, Nick, Rohland, Nadin, Mallick, Swapan, Llamas, Bastien, Brandt, Guido, Nordenfelt, Susanne, Harney, Eadaoin, Stewardson, Kristin et al. · 2015 · Nature
- Scaling accurate genetic variant discovery to tens of thousands of samplesRyan E. Poplin, Valentín Ruano-Rubio, Mark A. DePristo, Tim J. Fennell, Mauricio O. Carneiro, Geraldine A. Van der Auwera, David E. Kling, Laura Doyle Gauthier, Ami Levy‐Moonshine, David Roazen et al. · 2017 · bioRxiv (Cold Spring Harbor Laboratory)
- Recovery of nearly 8,000 metagenome-assembled genomes substantially expands the tree of lifeParks, Donovan H., Rinke, Christian, Chuvochina, Maria, Chaumeil, Pierre-Alain, Woodcroft, Ben J., Evans, Paul N., Hugenholtz, Philip, Tyson, Gene W. · 2017 · Nature Microbiology
- Anvi’o: an advanced analysis and visualization platform for ‘omics dataA. Murat Eren, Özcan C. Esen, Christopher Quince, Joseph H. Vineis, Hilary G. Morrison, Mitchell L. Sogin, Tom O. Delmont · 2015 · PeerJ
- The Sanger FASTQ file format for sequences with quality scores, and the Solexa/Illumina FASTQ variantsPeter Cock, Christopher J. Fields, Naohisa Goto, Michael Heuer, Peter M. Rice · 2009 · Nucleic Acids Research
- High burden and pervasive positive selection of somatic mutations in normal human skinMartincorena, Iñigo, Roshan, Amit, Gerstung, Moritz, Ellis, Peter, Van Loo, Peter, McLaren, Stuart, Wedge, David C., Fullam, Anthony, Alexandrov, Ludmil B., Tubio, Jose M. et al. · 2015 · Science
- Age-related mutations associated with clonal hematopoietic expansion and malignanciesXie, Mingchao, Lu, Charles, Wang, Jiayin, McLellan, Michael D, Johnson, Kimberly J, Wendl, Michael C, McMichael, Joshua F, Schmidt, Heather K, Yellapantula, Venkata, Miller, Christopher A et al. · 2014 · Nature Medicine
- Identifying ChIP-seq enrichment using MACSJianxing Feng, Tao Liu, Bo Qin, Yong Zhang, Xiaole Shirley Liu · 2012 · Nature Protocols
- Identifying SARS-CoV-2-related coronaviruses in Malayan pangolinsTommy Tsan‐Yuk Lam, Na Jia, Ya-Wei Zhang, Marcus Ho-Hin Shum, Jia-Fu Jiang, Huachen Zhu, Yigang Tong, Yongxia Shi, Xue-Bing Ni, Yunshi Liao et al. · 2020 · Nature
- Single-cell RNA-Seq profiling of human preimplantation embryos and embryonic stem cellsYan, Liying, Yang, Mingyu, Guo, Hongshan, Yang, Lu, Wu, Jun, Li, Rong, Liu, Ping, Lian, Ying, Zheng, Xiaoying, Yan, Jie et al. · 2013 · Nature Structural & Molecular Biology
- Nrf2 suppresses macrophage inflammatory response by blocking proinflammatory cytokine transcriptionKobayashi, Eri H., Suzuki, Takafumi, Funayama, Ryo, Nagashima, Takeshi, Hayashi, Makiko, Sekine, Hiroki, Tanaka, Nobuyuki, Moriguchi, Takashi, Motohashi, Hozumi, Nakayama, Keiko et al. · 2016 · Nature Communications
- <i>TERT</i>
Promoter Mutations in Familial and Sporadic MelanomaHorn, Susanne, Figl, Adina, Rachakonda, P. Sivaramakrishna, Fischer, Christine, Sucker, Antje, Gast, Andreas, Kadel, Stephanie, Moll, Iris, Nagore, Eduardo, Hemminki, Kari et al. · 2013 · Science
- Extensive Unexplored Human Microbiome Diversity Revealed by Over 150,000 Genomes from Metagenomes Spanning Age, Geography, and LifestylePasolli, Edoardo, Asnicar, Francesco, Manara, Serena, Zolfo, Moreno, Karcher, Nicolai, Armanini, Federica, Beghini, Francesco, Manghi, Paolo, Tett, Adrian, Ghensi, Paolo et al. · 2019 · Cell
- Single-cell RNA sequencing technologies and bioinformatics pipelinesByungjin Hwang, Ji Hyun Lee, Duhee Bang · 2018 · Experimental & Molecular Medicine
- Nanopore sequencing technology, bioinformatics and applicationsYunhao Wang, Yue Zhao, Audrey E. Bollas, Yuru Wang, Kin Fai Au · 2021 · Nature Biotechnology
- An improved dual-indexing approach for multiplexed 16S rRNA gene sequencing on the Illumina MiSeq platformFadrosh, Douglas W, Ma, Bing, Gajer, Pawel, Sengamalay, Naomi, Ott, Sandra, Brotman, Rebecca M, Ravel, Jacques · 2014 · Microbiome
- Genomic variation in 3,010 diverse accessions of Asian cultivated riceWensheng Wang, Ramil Mauleon, Zhiqiang Hu, Dmytro Chebotarov, Shuaishuai Tai, Zhichao Wu, Min Li, Tianqing Zheng, Roven Rommel Fuentes, Fan Zhang et al. · 2018 · Nature
- Patterns and rates of exonic de novo mutations in autism spectrum disordersNeale, Benjamin M., Kou, Yan, Liu, Li, Ma’ayan, Avi, Samocha, Kaitlin E., Sabo, Aniko, Lin, Chiao-Feng, Stevens, Christine, Wang, Li-San, Makarov, Vladimir et al. · 2012 · Nature
- Repetitive DNA and next-generation sequencing: computational challenges and solutionsTodd J. Treangen, Steven L. Salzberg · 2011 · Nature Reviews Genetics
- A comprehensive catalogue of somatic mutations from a human cancer genomePleasance, Erin D., Cheetham, R. Keira, Stephens, Philip J., McBride, David J., Humphray, Sean J., Greenman, Chris D., Varela, Ignacio, Lin, Meng-Lay, Ordóñez, Gonzalo R., Bignell, Graham R. et al. · 2010 · Nature
- CARD 2020: Antibiotic Resistome Surveillance with the Comprehensive Antibiotic Resistance DatabaseAlcock, Brian P, Raphenya, Amogelang R, Lau, Tammy T Y, Tsang, Kara K, Bouchard, Mégane, Edalatmand, Arman, Huynh, William, Nguyen, Anna-Lisa V, Cheng, Annie A, Liu, Sihan et al. · 2019 · Nucleic Acids Research
- Full-length mRNA-Seq from single-cell levels of RNA and individual circulating tumor cellsRamsköld, Daniel, Luo, Shujun, Wang, Yu-Chieh, Li, Robin, Deng, Qiaolin, Faridani, Omid R, Daniels, Gregory A, Khrebtukova, Irina, Loring, Jeanne F, Laurent, Louise C et al. · 2012 · Nature Biotechnology
- The landscape of cancer genes and mutational processes in breast cancerPhilip J. Stephens, Patrick S. Tarpey, Helen Ruth Davies, Peter Van Loo, Chris Greenman, David C. Wedge, Serena Nik‐Zainal, Sancha Martin, Ignacio Varela, Graham R. Bignell et al. · 2012 · Nature
- mapDamage2.0: fast approximate Bayesian estimates of ancient DNA damage parametersJónsson, Hákon, Ginolhac, Aurélien, Schubert, Mikkel, Johnson, Philip L. F., Orlando, Ludovic · 2013 · Bioinformatics
- CRISPResso2 provides accurate and rapid genome editing sequence analysisKendell Clement, Holly A. Rees, Matthew C. Canver, Jason M. Gehrke, Rick Farouni, Jonathan Y. Hsu, Mitchel A. Cole, David R. Liu, J. Keith Joung, Daniel E. Bauer et al. · 2019 · Nature Biotechnology
- The Harvest suite for rapid core-genome alignment and visualization of thousands of intraspecific microbial genomesTodd J. Treangen, Brian Ondov, Sergey Koren, Adam M. Phillippy · 2014 · Genome biology
- Comprehensive molecular characterization of clinical responses to PD-1 inhibition in metastatic gastric cancerSeung Tae Kim, Răzvan Cristescu, Adam Joel Bass, Kyoung‐Mee Kim, Justin Iver Odegaard, Kyung Kim, Xiao Qiao Liu, Xinwei Sher, Hun Jung, Mi-Jin Lee et al. · 2018 · Nature Medicine
- Improvements to PATRIC, the all-bacterial Bioinformatics Database and Analysis Resource CenterAlice Rebecca Wattam, James J. Davis, Rida Assaf, Sébastien Boisvert, Thomas Scott Brettin, Christopher Bun, Neal R. Conrad, Emily M. Dietrich, Terry L. Disz, Joseph L. Gabbard et al. · 2016 · Nucleic Acids Research
- Lineage tracking reveals dynamic relationships of T cells in colorectal cancerZhang, Lei, Yu, Xin, Zheng, Liangtao, Zhang, Yuanyuan, Li, Yansen, Fang, Qiao, Gao, Ranran, Kang, Boxi, Zhang, Qiming, Huang, Julie Y. et al. · 2018 · Nature
- Non-invasive analysis of acquired resistance to cancer therapy by sequencing of plasma DNAMurtaza, Muhammed, Dawson, Sarah-Jane, Tsui, Dana W. Y., Gale, Davina, Forshew, Tim, Piskorz, Anna M., Parkinson, Christine, Chin, Suet-Feung, Kingsbury, Zoya, Wong, Alvin S. C. et al. · 2013 · Nature
- Engineered CRISPR-Cas9 nucleases with altered PAM specificitiesKleinstiver, Benjamin P., Prew, Michelle S., Tsai, Shengdar Q., Topkar, Ved V., Nguyen, Nhu T., Zheng, Zongli, Gonzales, Andrew P. W., Li, Zhuyun, Peterson, Randall T., Yeh, Jing-Ruey Joanna et al. · 2015 · Nature
- On the origin and continuing evolution of SARS-CoV-2Xiaolu Tang, Changcheng Wu, Xiang Li, Yuhe Song, Xinmin Yao, Xinkai Wu, Yuange Duan, Hong Zhang, Yirong Wang, Zhaohui Qian et al. · 2020 · National Science Review
- Clonal replacement of tumor-specific T cells following PD-1 blockadeYost, Kathryn E., Satpathy, Ansuman T., Wells, Daniel K., Qi, Yanyan, Wang, Chunlin, Kageyama, Robin, McNamara, Katherine L., Granja, Jeffrey M., Sarin, Kavita Y., Brown, Ryanne A. et al. · 2019 · Nature Medicine
- Analysis of
<i>Fusobacterium</i>
persistence and antibiotic response in colorectal cancerBullman, Susan, Pedamallu, Chandra S., Sicinska, Ewa, Clancy, Thomas E., Zhang, Xiaoyang, Cai, Diana, Neuberg, Donna, Huang, Katherine, Guevara, Fatima, Nelson, Timothy et al. · 2017 · Science
- Frequent mutation of histone-modifying genes in non-Hodgkin lymphomaMorin, Ryan D., Mendez-Lago, Maria, Mungall, Andrew J., Goya, Rodrigo, Mungall, Karen L., Corbett, Richard D., Johnson, Nathalie A., Severson, Tesa M., Chiu, Readman, Field, Matthew et al. · 2011 · Nature
- Evolution and functional impact of rare coding variation from deep sequencing of human exomesTennessen, Jacob A., Bigham, Abigail W., O’Connor, Timothy D., Fu, Wenqing, Kenny, Eimear E., Gravel, Simon, McGee, Sean, Do, Ron, Liu, Xiaoming, Jun, Goo et al. · 2012 · Science
- A chromosome conformation capture ordered sequence of the barley genomeMascher, Martin, Gundlach, Heidrun, Himmelbach, Axel, Beier, Sebastian, Twardziok, Sven O., Wicker, Thomas, Radchuk, Volodymyr, Dockter, Christoph, Hedley, Pete E., Russell, Joanne et al. · 2017 · Nature
- A pan-cancer single-cell transcriptional atlas of tumor infiltrating myeloid cellsCheng, Sijin, Li, Ziyi, Gao, Ranran, Xing, Baocai, Gao, Yunong, Yang, Yu, Qin, Shishang, Zhang, Lei, Ouyang, Hanqiang, Du, Peng et al. · 2021 · Cell
- The Simons Genome Diversity Project: 300 genomes from 142 diverse populationsMallick, Swapan, Li, Heng, Lipson, Mark, Mathieson, Iain, Gymrek, Melissa, Racimo, Fernando, Zhao, Mengyao, Chennagiri, Niru, Nordenfelt, Susanne, Tandon, Arti et al. · 2016 · Nature
- A chromosome-based draft sequence of the hexaploid bread wheat (
<i>Triticum aestivum</i>
) genomeThe International Wheat Genome Sequencing Consortium (IWGSC), Mayer, Klaus F. X., Rogers, Jane, Doležel, Jaroslav, Pozniak, Curtis, Eversole, Kellye, Feuillet, Catherine, Gill, Bikram, Friebe, Bernd, Lukaszewski, Adam J. et al. · 2014 · Science
- Whole–genome characterization of chemoresistant ovarian cancerAnn‐Marie Patch, Elizabeth L. Christie, Dariush Etemadmoghadam, Dale W. Garsed, Joshy George, Sián Fereday, Kátia Nones, Prue A. Cowin, Kathryn Alsop, Peter J. Bailey et al. · 2015 · Nature
- SARS-CoV-2 productively infects human gut enterocytesLamers, Mart M., Beumer, Joep, van der Vaart, Jelte, Knoops, Kèvin, Puschhof, Jens, Breugem, Tim I., Ravelli, Raimond B. G., Paul van Schayck, J., Mykytyn, Anna Z., Duimel, Hans Q. et al. · 2020 · Science
- The origin and evolution of mutations in acute myeloid leukemiaWelch, John S., Ley, Timothy J., Link, Daniel C., Miller, Christopher A., Larson, David E., Koboldt, Daniel C., Wartman, Lukas D., Lamprecht, Tamara L., Liu, Fulu, Xia, Jun et al. · 2012 · Cell
- Organoid Cultures Derived from Patients with Advanced Prostate CancerGao, Dong, Vela, Ian, Sboner, Andrea, Iaquinta, Phillip J., Karthaus, Wouter R., Gopalan, Anuradha, Dowling, Catherine, Wanjala, Jackline N., Undvall, Eva A., Arora, Vivek K. et al. · 2014 · Cell
- LUMPY: a probabilistic framework for structural variant discoveryRyan M. Layer, Colby Chiang, Aaron R. Quinlan, Ira M. Hall · 2014 · Genome biology
- Population genomics of Bronze Age EurasiaAllentoft, Morten E., Sikora, Martin, Sjögren, Karl-Göran, Rasmussen, Simon, Rasmussen, Morten, Stenderup, Jesper, Damgaard, Peter B., Schroeder, Hannes, Ahlström, Torbjörn, Vinner, Lasse et al. · 2015 · Nature
- Patients Tested at a Laboratory for Hereditary Cancer Syndromes Show an Overlap for Multiple Syndromes in Their Personal and Familial Cancer HistoriesJennifer R. Saam, Christopher Arnell, Aaron P. Theisen, Kelsey Moyes, Ingrid Marino, Kirstin M. Roundy, RICHARD J. WENSTRUP · 2015 · Oncology
- Chromosome-scale scaffolding of de novo genome assemblies based on chromatin interactionsBurton, Joshua N, Adey, Andrew, Patwardhan, Rupali P, Qiu, Ruolan, Kitzman, Jacob O, Shendure, Jay · 2013 · Nature Biotechnology
- Whole-genome sequencing identifies recurrent mutations in chronic lymphocytic leukaemiaXosé S. Puente, Magda Pinyol, Vı́ctor Quesada, Laura Conde, Gonzalo R. Ordóñez, Neus Villamor, Geòrgia Escaramís, Pedro Jares, Sı́lvia Beà, Marcos González et al. · 2011 · Nature
- QTL ‐seq: rapid mapping of quantitative trait loci in rice by whole genome resequencing of DNA from two bulked populationsHiroki Takagi, Akira Abe, Kentaro Yoshida, Shunichi Kosugi, Satoshi Natsume, Chikako Mitsuoka, Aiko Uemura, Hiroe Utsushi, Muluneh Tamiru, Shohei Takuno et al. · 2013 · The Plant Journal
- Landscape of Microsatellite Instability Across 39 Cancer TypesRussell Bonneville, Melanie A. Krook, Esko Antero Kautto, Jharna Miya, Michele R. Wing, Hui‐Zi Chen, Julie W. Reeser, Lianbo Yu, Sameek Roychowdhury · 2017 · JCO Precision Oncology
- Prevalence and architecture of de novo mutations in developmental disordersDeciphering Developmental Disorders Study · 2017 · Nature
- Meta-analysis of fecal metagenomes reveals global microbial signatures that are specific for colorectal cancerWirbel, Jakob, Pyl, Paul Theodor, Kartal, Ece, Zych, Konrad, Kashani, Alireza, Milanese, Alessio, Fleck, Jonas S., Voigt, Anita Y., Palleja, Albert, Ponnudurai, Ruby et al. · 2019 · Nature Medicine
- Cell-free DNA Comprises an In Vivo Nucleosome Footprint that Informs Its Tissues-Of-OriginMatthew W. Snyder, Martin Kircher, Andrew J. Hill, Riza M. Daza, Jay Shendure · 2016 · Cell
- De Novo Gene Disruptions in Children on the Autistic SpectrumIossifov, Ivan, Ronemus, Michael, Levy, Dan, Wang, Zihua, Hakker, Inessa, Rosenbaum, Julie, Yamrom, Boris, Lee, Yoon-ha, Narzisi, Giuseppe, Leotta, Anthony et al. · 2012 · Neuron
- Validating the AMRFinder Tool and Resistance Gene Database by Using Antimicrobial Resistance Genotype-Phenotype Correlations in a Collection of IsolatesMichael Feldgarden, Vyacheslav V. Brover, Daniel H. Haft, Arjun Balmiki Prasad, Douglas J. Slotta, Igor Tolstoy, Gregory H. Tyson, Shaohua Zhao, Chih-Hao Hsu, Patrick F. McDermott et al. · 2019 · Antimicrobial Agents and Chemotherapy
- A polygenic burden of rare disruptive mutations in schizophreniaPurcell, Shaun M., Moran, Jennifer L., Fromer, Menachem, Ruderfer, Douglas, Solovieff, Nadia, Roussos, Panos, O’Dushlaine, Colm, Chambert, Kimberly, Bergen, Sarah E., Kähler, Anna et al. · 2014 · Nature
- A physical, genetic and functional sequence assembly of the barley genomeThe International Barley Genome Sequencing Consortium · 2012 · Nature
- Neoadjuvant immunotherapy leads to pathological responses in MMR-proficient and MMR-deficient early-stage colon cancersChalabi, Myriam, Fanchi, Lorenzo F., Dijkstra, Krijn K., Van den Berg, José G., Aalbers, Arend G., Sikorska, Karolina, Lopez-Yurda, Marta, Grootscholten, Cecile, Beets, Geerard L., Snaebjornsson, Petur et al. · 2020 · Nature Medicine
- Complete mitochondrial genome sequence of a Middle Pleistocene cave bear reconstructed from ultrashort DNA fragmentsDabney, Jesse, Knapp, Michael, Glocke, Isabelle, Gansauge, Marie-Theres, Weihmann, Antje, Nickel, Birgit, Valdiosera, Cristina, García, Nuria, Pääbo, Svante, Arsuaga, Juan-Luis et al. · 2013 · Proceedings of the National Academy of Sciences
- Mutational analysis reveals the origin and therapy-driven evolution of recurrent gliomaJohnson, Brett E., Mazor, Tali, Hong, Chibo, Barnes, Michael, Aihara, Koki, McLean, Cory Y., Fouse, Shaun D., Yamamoto, Shogo, Ueda, Hiroki, Tatsuno, Kenji et al. · 2014 · Science
- Multiplex single-cell profiling of chromatin accessibility by combinatorial cellular indexingCusanovich, Darren A., Daza, Riza, Adey, Andrew, Pliner, Hannah A., Christiansen, Lena, Gunderson, Kevin L., Steemers, Frank J., Trapnell, Cole, Shendure, Jay · 2015 · Science
- Real-Time Whole-Genome Sequencing for Routine Typing, Surveillance, and Outbreak Detection of Verotoxigenic Escherichia coliKatrine Joensen, Flemming Scheutz, Ole Lund, Henrik Hasman, Rolf Sommer Kaas, Eva Møller Nielsen, Frank M. Aarestrup · 2014 · Journal of Clinical Microbiology
- Centrifuge: rapid and sensitive classification of metagenomic sequencesKim, Daehwan, Song, Li, Breitwieser, Florian P., Salzberg, Steven L. · 2016 · Genome Research
- Differential Oestrogen Receptor Binding is Associated with Clinical Outcome in Breast CancerRory Stark · 2012 · Lecture notes in computer science
- Integrative genome analyses identify key somatic driver mutations of small-cell lung cancerMartin Peifer, Lynnette Fernandez‐Cuesta, Martin L. Sos, Julie George, Danila Seidel, Lawryn H. Kasper, Dennis Plenker, Frauke Leenders, Ruping Sun, Thomas Zander et al. · 2012 · Nature Genetics
- cutPrimers: A New Tool for Accurate Cutting of Primers from Reads of Targeted Next Generation SequencingКечин Андрей Андреевич, Uljana A. Boyarskikh, Alexander E Kel, М. Л. Филипенко · 2017 · Journal of Computational Biology
- Genotype and SNP calling from next-generation sequencing dataNielsen, Rasmus, Paul, Joshua S., Albrechtsen, Anders, Song, Yun S. · 2011 · Nature Reviews Genetics
- High-throughput screening using patient-derived tumor xenografts to predict clinical trial drug responseGao, Hui, Korn, Joshua M, Ferretti, Stéphane, Monahan, John E, Wang, Youzhen, Singh, Mallika, Zhang, Chao, Schnell, Christian, Yang, Guizhi, Zhang, Yun et al. · 2015 · Nature Medicine
- A unified catalog of 204,938 reference genomes from the human gut microbiomeAlmeida, Alexandre, Nayfach, Stephen, Boland, Miguel, Strozzi, Francesco, Beracochea, Martin, Shi, Zhou Jason, Pollard, Katherine S., Sakharova, Ekaterina, Parks, Donovan H., Hugenholtz, Philip et al. · 2021 · Nature Biotechnology
- LoFreq: a sequence-quality aware, ultra-sensitive variant caller for uncovering cell-population heterogeneity from high-throughput sequencing datasetsAndreas Wilm, Pauline Poh Kim Aw, Denis Bertrand, Grace Hui Ting Yeo, Swee Hoe Ong, Chang Hua Wong, Chiea Chuen Khor, Rosemary Petric, Martin Lloyd Hibberd, Niranjan Nagarajan · 2012 · Nucleic Acids Research
- Allele-Specific HLA Loss and Immune Escape in Lung Cancer EvolutionMcGranahan, Nicholas, Rosenthal, Rachel, Hiley, Crispin T., Rowan, Andrew J., Watkins, Thomas B.K., Wilson, Gareth A., Birkbak, Nicolai J., Veeriah, Selvaraju, Van Loo, Peter, Herrero, Javier et al. · 2017 · Cell
- Functional genomic landscape of acute myeloid leukaemiaJeffrey W Tyner, Cristina E. Tognon, Daniel Bottomly, Beth Wilmot, Stephen E. Kurtz, Samantha L. Savage, Nicola Long, Anna Reister Schultz, Elie A. Traer, Melissa L. Abel et al. · 2018 · Nature
- Disease-Specific Alterations in the Enteric Virome in Inflammatory Bowel DiseaseNorman, Jason M., Handley, Scott A., Baldridge, Megan T., Droit, Lindsay, Liu, Catherine Y., Keller, Brian C., Kambal, Amal, Monaco, Cynthia L., Zhao, Guoyan, Fleshner, Phillip et al. · 2015 · Cell
- Ancient human genomes suggest three ancestral populations for present-day EuropeansLazaridis, Iosif, Patterson, Nick, Mittnik, Alissa, Renaud, Gabriel, Mallick, Swapan, Kirsanow, Karola, Sudmant, Peter H., Schraiber, Joshua G., Castellano, Sergi, Lipson, Mark et al. · 2014 · Nature
- Implication of sperm RNAs in transgenerational inheritance of the effects of early trauma in miceGapp, Katharina, Jawaid, Ali, Sarkies, Peter, Bohacek, Johannes, Pelczar, Pawel, Prados, Julien, Farinelli, Laurent, Miska, Eric, Mansuy, Isabelle M · 2014 · Nature Neuroscience
- Identification of a novel coronavirus causing severe pneumonia in human: a descriptive study.Ren, Li-Li, Wang, Ye-Ming, Wu, Zhi-Qiang, Xiang, Zi-Chun, Guo, Li, Xu, Teng, Jiang, Yong-Zhong, Xiong, Yan, Li, Yong-Jun, Li, Xing-Wang et al. · 2020 · Chinese Medical Journal
- Anaerobic oxidation of methane coupled to nitrate reduction in a novel archaeal lineageMohamed Fauzi Haroon, Shihu Hu, Ying Shi, Michael Imelfort, Jürg Keller, Philip Hugenholtz, Zhiguo Yuan, Gene W. Tyson · 2013 · Nature
- Loss of IFN-γ pathway genes in tumor cells as a mechanism of resistance to anti-CTLA-4 therapyGao, Jianjun, Shi, Lewis Zhichang, Zhao, Hao, Chen, Jianfeng, Xiong, Liangwen, He, Qiuming, Chen, Tenghui, Roszik, Jason, Bernatchez, Chantale, Woodman, Scott E. et al. · 2016 · Cell
- Identification and assembly of genomes and genetic elements in complex metagenomic samples without using reference genomesMetaHIT Consortium, Nielsen, H Bjørn, Almeida, Mathieu, Juncker, Agnieszka Sierakowska, Rasmussen, Simon, Li, Junhua, Sunagawa, Shinichi, Plichta, Damian R, Gautier, Laurent, Pedersen, Anders G et al. · 2014 · Nature Biotechnology
- Performance comparison of benchtop high-throughput sequencing platformsNicholas James Loman, Raju Misra, Timothy J. Dallman, Chrystala Constantinidou, Saheer E. Gharbia, John R. Wain, Mark John Pallen · 2012 · Nature Biotechnology
- A Single-Cell Transcriptome Atlas of the Human PancreasMauro J. Muraro, Gitanjali Dharmadhikari, Dominic Grün, Nathalie Gröen, Tim Dielen, Erik Jansen, Léon van Gurp, Marten A. Engelse, Françoise Carlotti, Eelco J.P. de Koning et al. · 2016 · Cell Systems
- Genetic diagnosis by whole exome capture and massively parallel DNA sequencingMurim Choi, Ute I. Scholl, Weizhen Ji, Tiewen Liu, Irina R. Tikhonova, Paul Zumbo, Ahmet Nayır, Ayşı̇n Bakkaloğlu, Seza Özen, Sami A. Sanjad et al. · 2009 · Proceedings of the National Academy of Sciences
- A reference genome for common bean and genome-wide analysis of dual domesticationsJeremy Schmutz, Phillip E. McClean, Sujan Mamidi, Guohong Albert Wu, Steven B. Cannon, Jane Grimwood, Jerry W. Jenkins, Shengqiang Shu, Qijian Song, Carolina M Chavarro et al. · 2014 · Nature Genetics
- Personal omics profiling reveals dynamic molecular and medical phenotypesChen, Rui, Mias, George I., Li-Pook-Than, Jennifer, Jiang, Lihua, Lam, Hugo Y.K., Chen, Rong, Miriami, Elana, Karczewski, Konrad J., Hariharan, Manoj, Dewey, Frederick E. et al. · 2012 · Cell
- Complex archaea that bridge the gap between prokaryotes and eukaryotesSpang, Anja, Saw, Jimmy H., Jørgensen, Steffen L., Zaremba-Niedzwiedzka, Katarzyna, Martijn, Joran, Lind, Anders E., van Eijk, Roel, Schleper, Christa, Guy, Lionel, Ettema, Thijs J. G. · 2015 · Nature
- Distinct cellular mechanisms underlie anti-CTLA-4 and anti-PD-1 checkpoint blockadeWei, Spencer C., Levine, Jacob H., Cogdill, Alexandria P., Zhao, Yang, Anang, Nana-Ama A.S., Andrews, Miles C., Sharma, Padmanee, Wang, Jing, Wargo, Jennifer A., Pe’er, Dana et al. · 2017 · Cell
- Punctuated Evolution of Prostate Cancer GenomesSylvan C. Baca, Davide Prandi, Michael S. Lawrence, Juan Miguel Mosquera, Alessandro Romanel, Yotam Drier, Kyung Park, Naoki Kitabayashi, Theresa Y. MacDonald, Mahmoud Ghandi et al. · 2013 · Cell
- A new genomic blueprint of the human gut microbiotaAlmeida, Alexandre, Mitchell, Alex L., Boland, Miguel, Forster, Samuel C., Gloor, Gregory B., Tarkowska, Aleksandra, Lawley, Trevor D., Finn, Robert D. · 2019 · Nature
- Spatial and temporal heterogeneity of mouse and human microglia at single-cell resolutionMasuda, Takahiro, Sankowski, Roman, Staszewski, Ori, Böttcher, Chotima, Amann, Lukas, Sagar, Scheiwe, Christian, Nessler, Stefan, Kunz, Patrik, van Loo, Geert et al. · 2019 · Nature
- Genomic spectra of biliary tract cancerHiromi K. Nakamura, Yasuhito Arai, Yasushi Totoki, Tomoki Shirota, Asmaa Elzawahry, Mamoru Kato, Natsuko Hama, Fumie Hosoda, Tomoko Urushidate, Shoko Ohashi et al. · 2015 · Nature Genetics
- Cancer exome analysis reveals a T-cell-dependent mechanism of cancer immunoeditingHirokazu Matsushita, Matthew D. Vesely, Daniel C. Koboldt, Charles G. Rickert, Ravindra Uppaluri, Vincent J. Magrini, Cora D. Arthur, J. Michael White, Yee-Shiuan Chen, Lauren Kelly Shea et al. · 2012 · Nature