The Sequence Alignment/Map format and SAMtools

Cited by (1,715)

Items 701–800 of 1,715

1. A benzene-degrading nitrate-reducing microbial consortium displays aerobic and anaerobic benzene degradation pathways
   Siavash Atashgahi, Bastian Hornung, Marcelle J. van der Waals, Ulisses Nunes da Rocha, Floor Hugenholtz, Bart Nijsse, Douwe Molenaar B, Rob J. M. van Spanning, Alfons J. M. Stams, Jan Gerritse et al. · 2018 · Scientific Reports
2. Oak genome reveals facets of long lifespan
   Christophe Plomion, Jean‐Marc Aury, Joëlle Amselem, Thibault Leroy, Florent Murat, Sébastien Duplessis, Sébastien Faye, Nicolas Francillonne, Karine Labadie, Grégoire Le Provost et al. · 2018 · Nature Plants
3. The sequences of 150,119 genomes in the UK Biobank
   Halldorsson, Bjarni V., Eggertsson, Hannes P., Moore, Kristjan H. S., Hauswedell, Hannes, Eiriksson, Ogmundur, Ulfarsson, Magnus O., Palsson, Gunnar, Hardarson, Marteinn T., Oddsson, Asmundur, Jensson, Brynjar O. et al. · 2022 · Nature
4. Genomic and archaeological evidence suggest a dual origin of domestic dogs
   Laurent Frantz, Victoria E. Mullin, Maud Pionnier-Capitan, Ophélie Lebrasseur, Morgane Ollivier, Angela R. Perri, Anna E. Linderholm, Valeria Mattiangeli, Matthew D. Teasdale, Evangelos A. Dimopoulos et al. · 2016 · Science
5. Chromosome and gene copy number variation allow major structural change between species and strains of Leishmania
   Matthew B. Rogers, James D. Hilley, Nicholas J. Dickens, Jon Wilkes, Paul A. Bates, Daniel P. Depledge, David Harris, Yerim Her, Pawel Herzyk, Hideo Imamura et al. · 2011 · Genome Research
6. MMAPPR: Mutation Mapping Analysis Pipeline for Pooled RNA-seq
   Jonathon T. Hill, Bradley L. Demarest, Brent W. Bisgrove, Bushra Gorsi, Yi Su, H. Joseph Yost · 2013 · Genome Research
7. Microbial abundance, activity and population genomic profiling with mOTUs2
   Milanese, Alessio, Mende, Daniel R, Paoli, Lucas, Salazar, Guillem, Ruscheweyh, Hans-Joachim, Cuenca, Miguelangel, Hingamp, Pascal, Alves, Renato, Costea, Paul I, Coelho, Luis Pedro et al. · 2019 · Nature Communications
8. Studying vertical microbiome transmission from mothers to infants by strain-level metagenomic profiling
   Asnicar, Francesco, Manara, Serena, Zolfo, Moreno, Truong, Duy Tin, Scholz, Matthias, Armanini, Federica, Ferretti, Pamela, Gorfer, Valentina, Pedrotti, Anna, Tett, Adrian et al. · 2017 · mSystems
9. EIF2AK4 mutations cause pulmonary veno-occlusive disease, a recessive form of pulmonary hypertension
   Mélanie Eyries, David Montani, Barbara Girerd, Claire Perret, Anne Leroy, Christine Lonjou, Nadjim Chelghoum, Florence Coulet, Damien Bonnet, Peter Dorfmüller et al. · 2013 · Nature Genetics
10. Postglacial viability and colonization in North America’s ice-free corridor
    Mikkel Winther Pedersen, Anthony Ruter, Charles E. Schweger, Harvey Friebe, Richard A. Staff, Kristian K. Kjeldsen, Marie Lisandra Zepeda Mendoza, Alwynne B. Beaudoin, Cynthia Zutter, Nicolaj K. Larsen et al. · 2016 · Nature
11. Polyploidy can drive rapid adaptation in yeast
    Anna M. Selmecki, Yosef E. Maruvka, Phillip A. Richmond, Marie Guillet, Noam Shoresh F, Amber L. Sorenson, Subhajyoti De, Roy Kishony, Franziska Michor A, Robin D. Dowell et al. · 2015 · Nature
12. Altered intestinal microbiota–host mitochondria crosstalk in new onset Crohn’s disease
    Walid Mottawea, Cheng‐Kang Chiang, Marcus Mühlbauer, Amanda E. Starr, James Butcher, Turki S. Abujamel, Shelley A. Deeke, Annette Brandel, Hu Zhou, Shadi Shokralla et al. · 2016 · Nature Communications
13. Genome sequence of the progenitor of wheat A subgenome Triticum urartu
    Hong‐Qing Ling, Bin Ma, Xiaoli Shi, Hui Liu, Lingli Dong, Hua Sun, Yinghao Cao, Qiang Gao, Shusong Zheng, Ye Li et al. · 2018 · Nature
14. The genetic and epigenetic landscape of the Arabidopsis centromeres
    Matthew Naish, Michael Alonge, Piotr Włodzimierz, Andrew J. Tock, Bradley W. Abramson, Anna Schmücker, Terezie M. Mandáková, Bhagyshree Jamge, Christophe Lambing, Pallas C. Kuo et al. · 2021 · Science
15. Low concordance of multiple variant-calling pipelines: practical implications for exome and genome sequencing
    Jason O'Rawe, Tao Jiang, Guangqing Sun, Yiyang Wu, Wei Wang, Jingchu Hu, Paul Bodily, Lifeng Tian, Hakon H. Hakonarson, William Evan Johnson et al. · 2013 · Genome Medicine
16. Targeting of cancer neoantigens with donor-derived T cell receptor repertoires
    Erlend Strønen, Mireille Toebes, Sander Kelderman, Marit M. van Buuren, Weiwen Yang, Nienke van Rooij, Marco Donia, Maxi-Lu Böschen, Fridtjof Lund‐Johansen, Johanna Olweus et al. · 2016 · Science
17. A comparative genomics multitool for scientific discovery and conservation
    Zoonomia Consortium, Genereux, Diane P., Serres, Aitor, Armstrong, Joel, Johnson, Jeremy, Marinescu, Voichita D., Murén, Eva, Juan, David, Bejerano, Gill, Casewell, Nicholas R. et al. · 2020 · Nature
18. Dissecting direct reprogramming from fibroblast to neuron using single-cell RNA-seq
    Barbara Treutlein, Qian Yi Lee, J. Gray Camp, Moritz Mall, Winston Lian Chye Koh, S. Ali Shariati, Sopheak Sim, Norma F Neff, Jan Marcel Skotheim, Marius Wernig et al. · 2016 · Nature
19. Targeting REGNASE-1 programs long-lived effector T cells for cancer therapy
    Jun Wei, Lingyun Long, Wenting Zheng, Yogesh Dhungana, Seon Ah Lim, Cliff S. Guy, Yanyan Wang, Yong‐Dong Wang, Chenxi Qian, Beisi Xu et al. · 2019 · Nature
20. Common Molecular Subtypes Among Asian Hepatocellular Carcinoma and Cholangiocarcinoma
    Chaisaingmongkol, Jittiporn, Budhu, Anuradha, Dang, Hien, Rabibhadana, Siritida, Pupacdi, Benjarath, Kwon, So Mee, Forgues, Marshonna, Pomyen, Yotsawat, Bhudhisawasdi, Vajarabhongsa, Lertprasertsuke, Nirush et al. · 2017 · Cancer Cell
21. Large-scale ruminant genome sequencing provides insights into their evolution and distinct traits
    Chen, Lei, Qiu, Qiang, Jiang, Yu, Wang, Kun, Lin, Zeshan, Li, Zhipeng, Bibi, Faysal, Yang, Yongzhi, Wang, Jinhuan, Nie, Wenhui et al. · 2019 · Science
22. Whole-Virome Analysis Sheds Light on Viral Dark Matter in Inflammatory Bowel Disease
    Adam G. Clooney, Thomas Sutton, Andrey Nikolaevich Shkoporov, Ross Holohan, Karen M. Daly, Orla O’Regan, Feargal J. Ryan, Lorraine A. Draper, Scott Eric Plevy, R. Paul Ross et al. · 2019 · Cell Host & Microbe
23. Passive and active DNA methylation and the interplay with genetic variation in gene regulation
    Gutierrez-Arcelus, Maria, Lappalainen, Tuuli, Montgomery, Stephen B, Buil, Alfonso, Ongen, Halit, Yurovsky, Alisa, Bryois, Julien, Giger, Thomas, Romano, Luciana, Planchon, Alexandra et al. · 2013 · eLife
24. Distinct genetic architectures for syndromic and nonsyndromic congenital heart defects identified by exome sequencing
    the INTERVAL Study, Alejandro Sifrim, the Deciphering Developmental Disorders Study, Marc‐Phillip Hitz, Anna Wilsdon, Jeroen Breckpot, Saeed H. Al Turki, Bernard Thienpont, Jeremy F. McRae, Tomas W. Fitzgerald et al. · 2016 · Nature Genetics
25. The mammalian ribo-interactome reveals ribosome functional diversity and heterogeneity
    Simsek, Deniz, Tiu, Gerald C., Flynn, Ryan A., Byeon, Gun W., Leppek, Kathrin, Xu, Adele F., Chang, Howard Y., Barna, Maria · 2017 · Cell
26. Uncovering the Complexity of Transcriptomes with RNA-Seq
    Valerio Costa, Claudia Angelini, Italia De Feis, Alfredo Ciccodicola · 2010 · BioMed Research International
27. PlantPAN3.0: a new and updated resource for reconstructing transcriptional regulatory networks from ChIP-seq experiments in plants
    Chi-Nga Chow, Tzong-Yi Lee, Yu-Cheng Hung, Guan-Zhen Li, Kuan-Chieh Tseng, Ya-Hsin Liu, Po-Li Kuo, Han-Qin Zheng, Wen‐Chi Chang · 2018 · Nucleic Acids Research
28. Increased exonic de novo mutation rate in individuals with schizophrenia
    Girard, Simon L, Gauthier, Julie, Noreau, Anne, Xiong, Lan, Zhou, Sirui, Jouan, Loubna, Dionne-Laporte, Alexandre, Spiegelman, Dan, Henrion, Edouard, Diallo, Ousmane et al. · 2011 · Nature Genetics
29. The genome of Aiptasia , a sea anemone model for coral symbiosis
    Sebastian Baumgarten, Oleg Simakov, Lisl Y. Esherick, Yi Jin Liew, Erik M Lehnert, Craig Michell, Yong Li, Elizabeth A. Hambleton, Annika Guse, Matt E. Oates et al. · 2015 · Proceedings of the National Academy of Sciences
30. Dissection of genetically complex traits with extremely large pools of yeast segregants
    Ian M. Ehrenreich, Noorossadat Torabi, Yue Jia, Jonathan D. Kent, Stephen Martis, Joshua A. Shapiro, David Gresham, Amy A. Caudy, Leonid Kruglyak · 2010 · Nature
31. Somatic Mutational Landscape of Splicing Factor Genes and Their Functional Consequences across 33 Cancer Types
    Michael Seiler, Shouyong Peng, Anant A. Agrawal, James J. Palacino, Teng Teng, Ping Zhu, Peter G. Smith, Rory Johnson, John A. Demchok, Ina Felau et al. · 2018 · Cell Reports
32. The iPlant Collaborative: Cyberinfrastructure for Plant Biology
    Stephen A. Goff, Matthew W. Vaughn, Sheldon McKay, Eric H. Lyons, Ann E. Stapleton, Damian D. G. Gessler, Naim Matasci, Liya Wang, Matthew R. Hanlon, Andrew Lenards et al. · 2011 · Frontiers in Plant Science
33. Chromatin accessibility: a window into the genome
    Maria Tsompana, Michael Joseph Buck · 2014 · Epigenetics & Chromatin
34. Interpreting type 1 diabetes risk with genetics and single-cell epigenomics
    Joshua Chiou, Ryan J. Geusz, Mei-Lin Okino, Jee Yun Han, Michael Miller, Rebecca L. Melton, Elisha Beebe, Paola Benaglio, Serina Huang, Katha Korgaonkar et al. · 2021 · Nature
35. A field guide to whole‐genome sequencing, assembly and annotation
    Robert Ekblom, Jochen B. W. Wolf · 2014 · Evolutionary Applications
36. Identification of transcription factor binding sites using ATAC-seq
    Zhijian Li, Marcel H. Schulz, Thomas Look, Matthias Begemann, Martin Zenke, Ivan G. Costa · 2019 · Genome biology
37. Genetic Insights Into Biological Mechanisms Governing Human Ovarian Ageing
    Katherine S. Ruth, Felix R. Day, Jazib Hussain, Ana Martínez-Marchal, Catherine Aiken, Ajuna Azad, Deborah J. Thompson, Lucie Knoblochová, Hironori Abe, Jane L. Tarry‐Adkins et al. · 2021 · Nature
38. A cascade of DNA-binding proteins for sexual commitment and development in Plasmodium
    Abhinav Sinha, Katie R. Hughes, Katarzyna Modrzynska, Thomas D. Otto, Claudia Pfander, Nicholas J. Dickens, Agnieszka A. Religa, Ellen Bushell, Anne Graham, Rachael Cameron et al. · 2014 · Nature
39. Recurrent mutation of the ID3 gene in Burkitt lymphoma identified by integrated genome, exome and transcriptome sequencing
    the ICGC MMML-Seq Project · 2012 · Nature Genetics
40. The rubber tree genome reveals new insights into rubber production and species adaptation
    Chaorong Tang, Meng Yang, Yongjun Fang, Yingfeng Luo, Shenghan Gao, Xiaohu Xiao, Zewei An, Binhui Zhou, Bing Zhang, Xinyu Tan et al. · 2016 · Nature Plants
41. The genomic landscape of rapid repeated evolutionary adaptation to toxic pollution in wild fish
    Noah M. Reid, Dina A. Proestou, Bryan W. Clark, Wesley C. Warren, John K. Colbourne, Joseph R. Shaw, Sibel I. Karchner, Mark E. Hahn, Diane E. Nacci, Marjorie F. Oleksiak et al. · 2016 · Science
42. Genome-centric view of carbon processing in thawing permafrost
    Ben J. Woodcroft, Caitlin M. Singleton, Joel A. Boyd, Paul N. Evans, Joanne Emerson, Ahmed A. Zayed, Robert D. Hoelzle, Timothy O. Lamberton, Carmody Kathryn Mccalley, Suzanne B. Hodgkins et al. · 2018 · Nature
43. Mapping 3D genome organization relative to nuclear compartments using TSA-Seq as a cytological ruler
    Yu Chen, Yang Zhang, Yuchuan Wang, Liguo Zhang, Eva Karina Brinkman, Stephen A. Adam, Robert D. Goldman, Bas van Steensel, Jian Ma, Andrew S. Belmont · 2018 · The Journal of Cell Biology
44. Discovery of antimicrobial peptides in the global microbiome with machine learning
    Célio Dias Santos Júnior, Marcelo D. T. Torres, Yiqian Duan, Álvaro Rodríguez del Río, Thomas Schmidt, Hui Chong, Anthony Fullam, Michael Kuhn, Chengkai Zhu, Amy Houseman et al. · 2024 · Cell
45. Adaptive Evolution within Gut Microbiomes of Healthy People
    Zhao, Shijie, Lieberman, Tami D., Poyet, Mathilde, Kauffman, Kathryn M., Gibbons, Sean M., Groussin, Mathieu, Xavier, Ramnik J., Alm, Eric J. · 2019 · Cell Host & Microbe
46. Exome sequencing identifies GATA-2 mutation as the cause of dendritic cell, monocyte, B and NK lymphoid deficiency
    Rachel Emma Dickinson, Helen R Griffin, Venetia Bigley, Louise N. Reynard, Rafiqul Hussain, Muzlifah A. Haniffa, Jeremy H. Lakey, Thahira Rahman, Xiao-Nong Wang, Naomi N. McGovern et al. · 2011 · Blood
47. An international effort towards developing standards for best practices in analysis, interpretation and reporting of clinical genome sequencing results in the CLARITY Challenge
    Catherine A. Brownstein, Alan H. Beggs, Nils Homer, Barry Merriman, Timothy W. Yu, Katherine C Flannery, Elizabeth T. DeChene, Meghan C. Towne, Sarah K Savage, Emily Price et al. · 2014 · Genome biology
48. MEGARes 2.0: a database for classification of antimicrobial drug, biocide and metal resistance determinants in metagenomic sequence data
    Enrique Doster, Steven M. Lakin, Christopher Dean, Cory A. Wolfe, Jared G Young, Christina A. Boucher, K. E. Belk, Noelle Robertson Noyes, Paul S. Morley · 2019 · Nucleic Acids Research
49. Characterization of antimicrobial-resistant Gram-negative bacteria that cause neonatal sepsis in seven low- and middle-income countries
    Kirsty M. Sands, Maria J. Carvalho, Edward A. R. Portal, Kathryn Thomson, Calie Dyer, Chinenye Akpulu, Robert Andrews, Ana Ferreira, David Gillespie, Thomas Hender et al. · 2021 · Nature Microbiology
50. Sequence Kernel Association Tests for the Combined Effect of Rare and Common Variants
    Ionita-Laza, Iuliana, Lee, Seunggeun, Makarov, Vlad, Buxbaum, Joseph D., Lin, Xihong · 2013 · The American Journal of Human Genetics
51. Homoeolog expression bias and expression level dominance in allopolyploid cotton
    M-J Yoo, Emmanuel Szadkowski, Jonathan F. Wendel · 2012 · Heredity
52. Linking pangenomes and metagenomes: the Prochlorococcus metapangenome
    Tom O. Delmont, A. Murat Eren · 2018 · PeerJ
53. Noncoding CGG repeat expansions in neuronal intranuclear inclusion disease, oculopharyngodistal myopathy and an overlapping disease
    Hiroyuki Ishiura, Shota Shibata, Jun Yoshimura, Yuta Suzuki, Wei Qü, Koichiro Doi, M. Asem Almansour, Junko Kanda Kikuchi, Makiko Taira, Jun Mitsui et al. · 2019 · Nature Genetics
54. RNA modifications detection by comparative Nanopore direct RNA sequencing
    Adrien Léger, Paulo Amaral, Luca Pandolfini, Charlotte Capitanchik, Federica Capraro, Valentina Miano, Valentina Migliori, Patrick Toolan-Kerr, Theodora C. Sideri, Anton James Enright et al. · 2021 · Nature Communications
55. Promiscuous RNA binding by Polycomb repressive complex 2
    Chen Davidovich, Léon Zheng, Karen J. Goodrich, Thomas R. Cech · 2013 · Nature Structural & Molecular Biology
56. An overview of the Hadoop/MapReduce/HBase framework and its current applications in bioinformatics
    Ronald C. Taylor · 2010 · BMC Bioinformatics
57. Inferring expressed genes by whole-genome sequencing of plasma DNA
    Peter Ulz, Gerhard Thallinger, Martina Auer, Ricarda Graf, Karl Kashofer, Stephan Wenzel Jahn, Luca Abete, Gunda Pristauz, Edgar Petru, Jochen B. Geigl et al. · 2016 · Nature Genetics
58. A Biobank of Breast Cancer Explants with Preserved Intra-tumor Heterogeneity to Screen Anticancer Compounds
    Alejandra Bruna, Oscar M. Rueda, Wendy Greenwood, Ankita Sati Batra, Maurizio Callari, Rajbir Nath Batra, Katherine Lee McNamara, José Luís Sandoval, John W. Cassidy, Ana Tufegdžić Vidaković et al. · 2016 · Cell
59. Phylogenomics reveals three sources of adaptive variation during a rapid radiation
    Pease, James B., Haak, David C., Hahn, Matthew W., Moyle, Leonie C. · 2016 · PLOS Biology
60. Erratum: Guidelines for diagnostic next-generation sequencing
    Gert Matthijs, Erika L. Souche, Marielle M. Alders, Anniek Corveleyn, Sebastian H. Eck, Ilse Feenstra, Valérie Race, Erik A. Sistermans, Marc Sturm, Marjan M. Weiss et al. · 2016 · European Journal of Human Genetics
61. Coronaviruses Lacking Exoribonuclease Activity Are Susceptible to Lethal Mutagenesis: Evidence for Proofreading and Potential Therapeutics
    Everett Clinton Smith, Hervé Blanc, Marco Vignuzzi, Mark R. Denison · 2013 · PLoS Pathogens
62. RNA Binding to CBP Stimulates Histone Acetylation and Transcription
    Bose, Daniel A., Donahue, Greg, Reinberg, Danny, Shiekhattar, Ramin, Bonasio, Roberto, Berger, Shelley L. · 2017 · Cell
63. rG4-seq reveals widespread formation of G-quadruplex structures in the human transcriptome
    Chun Kit Kwok, Giovanni Marsico, Aleksandr B. Sahakyan, Vicki S. Chambers, Shankar Balasubramanian · 2016 · Nature Methods
64. MYC2 Orchestrates a Hierarchical Transcriptional Cascade That Regulates Jasmonate-Mediated Plant Immunity in Tomato
    Minmin Du, Jiuhai Zhao, David T.W. Tzeng, Yuanyuan Liu, Lei Deng, Tianxia Yang, Qingzhe Zhai, Fangming Wu, Zhuo Huang, Ming Zhou et al. · 2017 · The Plant Cell
65. Genome re-sequencing reveals the history of apple and supports a two-stage model for fruit enlargement
    Naibin Duan, Yang Bai, Honghe Sun, Nan Wang, Yumin Ma, Mingjun Li, Xin Wang, Chen Jiao, Noah Legall, Linyong Mao et al. · 2017 · Nature Communications
66. Whole genome sequencing of multiple Leishmania donovani clinical isolates provides insights into population structure and mechanisms of drug resistance
    Tim Downing, Hideo Imamura, Saskia Decuypere, Taane Gregory Clark, Graham H. Coombs, James Anthony Cotton, James D. Hilley, Simonne De Doncker, Ilse Maes, Jeremy Charles Mottram et al. · 2011 · Genome Research
67. Finding the sources of missing heritability in a yeast cross
    Joshua S. Bloom, Ian M. Ehrenreich, Wesley T. Loo, Thúy-Lan Võ Lite, Leonid Kruglyak · 2013 · Nature
68. SOAP3-dp: Fast, Accurate and Sensitive GPU-Based Short Read Aligner
    Ruibang Luo, Thomas K. F. Wong, Jian-Qiao Zhu, Chi-Man Liu, Xiaoqian Zhu, Edward Wu, Lap–Kei Lee, Haoxiang Lin, Wenjuan Zhu, David Wai-lok Cheung et al. · 2013 · PLoS ONE
69. The first horse herders and the impact of early Bronze Age steppe expansions into Asia
    Peter de Barros Damgaard, Rui Martiniano, Jack Kamm, J. Víctor Moreno-Mayar, Guus Kroonen, Michaël Peyrot, Gojko Barjamovic, Simon Rasmussen, Claus M. Zacho, Nurbol Baimukhanov et al. · 2018 · Science
70. Long-read-based human genomic structural variation detection with cuteSV
    Tao Jiang, Yongzhuang Liu, Yue Jiang, Junyi Li, Yan Ping Gao, Zhe Cui, Bo Liu, Bo Liu, Yadong Wang · 2020 · Genome biology
71. A Y-chromosome–encoded small RNA acts as a sex determinant in persimmons
    Takashi Akagi, Isabelle Marie Henry, Ryutaro Tao, Luca Comai · 2014 · Science
72. GEMINI: Integrative Exploration of Genetic Variation and Genome Annotations
    Umadevi Paila, Brad Chapman, Rory Kirchner, Aaron R. Quinlan · 2013 · PLoS Computational Biology
73. Differences between germline and somatic mutation rates in humans and mice
    Brandon Milholland, Xiao Dong, Lei Zhang, Xiaoxiao Hao, Yousin Suh, Jan Vijg · 2017 · Nature Communications
74. The draft genomes of soft-shell turtle and green sea turtle yield insights into the development and evolution of the turtle-specific body plan
    Zhuo Wang, Juan Pascual‐Anaya, Amonida Zadissa, Wenqi Li, Yoshihito Niimura, Zhiyong Huang, Chunyi Li, Simon White, Zhiqiang Xiong, Dongming Fang et al. · 2013 · Nature Genetics
75. De novo mutations in ATP1A3 cause alternating hemiplegia of childhood
    Erin L. Heinzen, Kathryn J. Swoboda, Yuki Hitomi, Fiorella Gurrieri, Sophie Nicole, Boukje de Vries, Francesco Danilo Tiziano, Bertrand Fontaine, Nicole M Walley, Sinéad B. Heavin et al. · 2012 · Nature Genetics
76. Terminal Pleistocene Alaskan genome reveals first founding population of Native Americans
    J. Víctor Moreno-Mayar, Ben A. Potter, Lasse Vinner, Matthias Steinrücken, Simon Rasmussen, Jonathan Terhorst, Jack Kamm, Anders Albrechtsen, Anna‐Sapfo Malaspinas, Martin Sikora et al. · 2018 · Nature
77. EzBioCloud: a genome-driven database and platform for microbiome identification and discovery
    Mauricio Chalita, Yeong Ouk Kim, Sein Park, Hyun‐Seok Oh, Jae Hyoung Cho, Jeongsup Moon, Nuga Baek, Changsik Moon, Kihyun Lee, Jun-Won Yang et al. · 2024 · INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY
78. Control of the Inheritance of Regulatory T Cell Identity by a cis Element in the Foxp3 Locus
    Feng, Yongqiang, Arvey, Aaron, Chinen, Takatoshi, van der Veeken, Joris, Gasteiger, Georg, Rudensky, Alexander Y. · 2014 · Cell
79. Transcriptional Architecture of Synaptic Communication Delineates GABAergic Neuron Identity
    Paul, Anirban, Crow, Megan, Raudales, Ricardo, He, Miao, Gillis, Jesse, Huang, Z. Josh · 2017 · Cell
80. Genebank genomics highlights the diversity of a global barley collection
    Sara G. Milner, Matthias Jost, Shin Taketa, Elena Rey Mazón, Axel Himmelbach, Markus Oppermann, Stephan F. Weise, H. Knüpffer, Martín Basterrechea, Patrick König et al. · 2018 · Nature Genetics
81. Persistent complement dysregulation with signs of thromboinflammation in active Long Covid
    Carlo Cervia, Sarah C. Brüningk, Tobias Hoch, Bowen Fan, Giulia Muzio, Ryan C. Thompson, Laura Ceglarek, Roman Meledin, Patrick Westermann, Marc Emmenegger et al. · 2024 · Science
82. A pan-cancer mycobiome analysis reveals fungal involvement in gastrointestinal and lung tumors
    Anders B. Dohlman, Jared Klug, Marissa Mesko, Iris Hanxing Gao, Steven M. Lipkin, Xiling Shen, Iliyan Dimitrov Iliev · 2022 · Cell
83. Assembly: a resource for assembled genomes at NCBI
    Kitts, Paul A., Church, Deanna M., Thibaud-Nissen, Françoise, Choi, Jinna, Hem, Vichet, Sapojnikov, Victor, Smith, Robert G., Tatusova, Tatiana, Xiang, Charlie, Zherikov, Andrey et al. · 2016 · Nucleic Acids Research
84. Kraken: A set of tools for quality control and analysis of high-throughput sequence data
    Matthew P. A. Davis, Stijn van Dongen, Cei Abreu‐Goodger, Nenad Bartoniček, Anton James Enright · 2013 · Methods
85. Rapid cloning of disease-resistance genes in plants using mutagenesis and sequence capture
    Burkhard Steuernagel, Sambasivam K. Periyannan, Inmaculada Hernández‐Pinzón, Kamil Witek, Matthew N. Rouse, Guotai Yu, Asyraf Hatta, Mick Ayliffe, Harbans S. Bariana, Jonathan D. G. Jones et al. · 2016 · Nature Biotechnology
86. The Physcomitrella patens chromosome‐scale assembly reveals moss genome structure and evolution
    Daniel Lang, Kristian K Ullrich, Florent Murat, Jörg Fuchs, Jerry W. Jenkins, Fabian B. Haas, Mathieu Piednoël, Heidrun Gundlach, Michiel Van Bel, Rabea Meyberg et al. · 2017 · The Plant Journal
87. Hexokinase 2-mediated gene expression via histone lactylation is required for hepatic stellate cell activation and liver fibrosis
    Hyunsoo Rho, Alexander R. Terry, Constantinos Chronis, Nissim Hay · 2023 · Cell Metabolism
88. Upper Palaeolithic genomes reveal deep roots of modern Eurasians
    Jones, Eppie R., Gonzalez-Fortes, Gloria, Connell, Sarah, Siska, Veronika, Eriksson, Anders, Martiniano, Rui, McLaughlin, Russell L., Gallego Llorente, Marcos, Cassidy, Lara M., Gamba, Cristina et al. · 2015 · Nature Communications
89. Sequencing error profiles of Illumina sequencing instruments
    Nicholas Stoler, Anton Nekrutenko · 2021 · NAR Genomics and Bioinformatics
90. Human Lung Stem Cell-Based Alveolospheres Provide Insights into SARS-CoV-2-Mediated Interferon Responses and Pneumocyte Dysfunction
    Katsura, Hiroaki, Sontake, Vishwaraj, Tata, Aleksandra, Kobayashi, Yoshihiko, Edwards, Caitlin E., Heaton, Brook E., Konkimalla, Arvind, Asakura, Takanori, Mikami, Yu, Fritch, Ethan J. et al. · 2020 · Cell Stem Cell
91. A human breast cancer-derived xenograft and organoid platform for drug discovery and precision oncology
    Guillen, Katrin P., Fujita, Maihi, Butterfield, Andrew J., Scherer, Sandra D., Bailey, Matthew H., Chu, Zhengtao, DeRose, Yoko S., Zhao, Ling, Cortes-Sanchez, Emilio, Yang, Chieh-Hsiang et al. · 2022 · Nature Cancer
92. Dietary Modulation of Gut Microbiota Contributes to Alleviation of Both Genetic and Simple Obesity in Children
    Chenhong Zhang, Aihua Yin, Hongde Li, Ruirui Wang, Guojun Gary Wu, Jian Shen, Menghui H. Zhang, Linghua Wang, Yaping Hou, Haimei OuYang et al. · 2015 · EBioMedicine
93. ADAR1 masks the cancer immunotherapeutic promise of ZBP1-driven necroptosis
    Ting Zhang, Chaoran Yin, Aleksandr Fedorov, Liangjun Qiao, Hong‐Liang Bao, Nazar Beknazarov, Shiyu Wang, Avishekh Gautam, Riley M. Williams, Jeremy Chase Crawford et al. · 2022 · Nature
94. Nonlinear control of transcription through enhancer–promoter interactions
    Zuin, Jessica, Roth, Gregory, Zhan, Yinxiu, Cramard, Julie, Redolfi, Josef, Piskadlo, Ewa, Mach, Pia, Kryzhanovska, Mariya, Tihanyi, Gergely, Kohler, Hubertus et al. · 2022 · Nature
95. The Capsella rubella genome and the genomic consequences of rapid mating system evolution
    Tanja Slotte, Khaled M. Hazzouri, J. Arvid Ågren, Daniel Koenig, Florian Maumus, Ya‐Long Guo, Kim A. Steige, Adrian E. Platts, Juan Sebastián Escobar, L. Killian Newman et al. · 2013 · Nature Genetics
96. MAP-RSeq: Mayo Analysis Pipeline for RNA sequencing
    Krishna R. Kalari, Asha Nair, Jaysheel Bhavsar, Daniel R. O’Brien, Jaime I Davila, Matthew A. Bockol, Jinfu J. Nie, Xiaojia Tang, Saurabh Baheti, Jay B Doughty et al. · 2014 · BMC Bioinformatics
97. Trastuzumab deruxtecan in metastatic breast cancer with variable HER2 expression: the phase 2 DAISY trial
    Fernanda Mosele, Élise Deluche, Amélie Lusque, Loïc Le Bescond, Thomas Filleron, Yoann Pradat, Agnès Ducoulombier, Barbara Pistilli, Thomas Bachelot, F. Viret et al. · 2023 · Nature Medicine
98. Modularly assembled designer TAL effector nucleases for targeted gene knockout and gene replacement in eukaryotes
    Ting Li, Sheng Huang, Xuefeng Zhao, David Alan Wright, Susan L. Carpenter, Martin H. Spalding, Donald P. Weeks, Bing Yang · 2011 · Nucleic Acids Research
99. Exploring genetic variation in the tomato ( Solanum section Lycopersicon ) clade by whole‐genome sequencing
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