Fast gapped-read alignment with Bowtie 2

Cited by (908)

Items 701–800 of 908

1. Controlled DNA double-strand break induction in mice reveals post-damage transcriptome stability
   Kim, Jeongkyu, Sturgill, David, Tran, Andy D., Sinclair, David A., Oberdoerffer, Philipp · 2016 · Nucleic Acids Research
2. Genetic and epigenetic regulation of skeletal muscle ribosome biogenesis with exercise
   Figueiredo, Vandré C., Wen, Yuan, Alkner, Björn, Fernandez‐Gonzalo, Rodrigo, Norrbom, Jessica, Vechetti, Ivan J., Valentino, Taylor, Mobley, C. Brooks, Zentner, Gabriel E., Peterson, Charlotte A. et al. · 2021 · The Journal of Physiology
3. Candidate probiotic Lactiplantibacillus plantarum HNU082 rapidly and convergently evolves within human, mice, and zebrafish gut but differentially influences the resident microbiome
   Huang, Shi, Jiang, Shuaiming, Huo, Dongxue, Allaband, Celeste, Estaki, Mehrbod, Cantu, Victor, Belda-Ferre, Pedro, Vázquez-Baeza, Yoshiki, Zhu, Qiyun, Ma, Chenchen et al. · 2021 · Microbiome
4. Hallstatt miners consumed blue cheese and beer during the Iron Age and retained a non-Westernized gut microbiome until the Baroque period
   Maixner, Frank, Sarhan, Mohamed S., Huang, Kun D., Tett, Adrian, Schoenafinger, Alexander, Zingale, Stefania, Blanco-Míguez, Aitor, Manghi, Paolo, Cemper-Kiesslich, Jan, Rosendahl, Wilfried et al. · 2021 · Current Biology
5. Adaptive evolution of the enigmatic Takakia now facing climate change in Tibet
   Hu, Ruoyang, Li, Xuedong, Hu, Yong, Zhang, Runjie, Lv, Qiang, Zhang, Min, Sheng, Xianyong, Zhao, Feng, Chen, Zhijia, Ding, Yuhan et al. · 2023 · Cell
6. Single-cell multi-omics sequencing of human spermatogenesis reveals a DNA demethylation event associated with male meiotic recombination
   Huang, Yaping, Li, Lin, An, Geng, Yang, Xinyan, Cui, Manman, Song, Xiuling, Lin, Jing, Zhang, Xiaoling, Yao, Zhaokai, Wan, Cong et al. · 2023 · Nature Cell Biology
7. ARID1A facilitates KRAS signaling-regulated enhancer activity in an AP1-dependent manner in colorectal cancer cells
   Sen, Madhobi, Wang, Xin, Hamdan, Feda H., Rapp, Jacobe, Eggert, Jessica, Kosinsky, Robyn Laura, Wegwitz, Florian, Kutschat, Ana Patricia, Younesi, Fereshteh S., Gaedcke, Jochen et al. · 2019 · Clinical Epigenetics
8. Profiling DNA break sites and transcriptional changes in response to contextual fear learning
   Stott, Ryan T., Kritsky, Oleg, Tsai, Li-Huei · 2021 · PLOS ONE
9. A chromosome 4 trisomy contributes to increased fluconazole resistance in a clinical isolate of Candida albicans
   Anderson, Matthew Z., Saha, Amrita, Haseeb, Abid, Bennett, Richard J. · 2017 · Microbiology
10. TIGAR2: sensitive and accurate estimation of transcript isoform expression with longer RNA-Seq reads
    Nariai, Naoki, Kojima, Kaname, Mimori, Takahiro, Sato, Yukuto, Kawai, Yosuke, Yamaguchi-Kabata, Yumi, Nagasaki, Masao · 2014 · BMC Genomics
11. Vitamin B12 is a limiting factor for induced cellular plasticity and tissue repair
    Kovatcheva, Marta, Melendez, Elena, Chondronasiou, Dafni, Pietrocola, Federico, Bernad, Raquel, Caballe, Adrià, Junza, Alexandra, Capellades, Jordi, Holguín-Horcajo, Adrián, Prats, Neus et al. · 2023 · Nature Metabolism
12. A fluorophore-conjugated reagent enabling rapid detection, isolation and live tracking of senescent cells
    Magkouta, Sophia, Veroutis, Dimitris, Pousias, Athanasios, Papaspyropoulos, Angelos, Pippa, Natassa, Lougiakis, Nikolaos, Kambas, Konstantinos, Lagopati, Nefeli, Polyzou, Aikaterini, Georgiou, Maria et al. · 2023 · Molecular Cell
13. Bacterial SNPs in the human gut microbiome associate with host BMI
    Zahavi, Liron, Lavon, Amit, Reicher, Lee, Shoer, Saar, Godneva, Anastasia, Leviatan, Sigal, Rein, Michal, Weissbrod, Omer, Weinberger, Adina, Segal, Eran · 2023 · Nature Medicine
14. Safeguard function of PU.1 shapes the inflammatory epigenome of neutrophils
    Fischer, Josephine, Walter, Carolin, Tönges, Alexander, Aleth, Hanna, Jordão, Marta Joana Costa, Leddin, Mathias, Gröning, Verena, Erdmann, Tabea, Lenz, Georg, Roth, Johannes et al. · 2019 · Nature Immunology
15. Genome-wide target analysis of NEUROD2 provides new insights into regulation of cortical projection neuron migration and differentiation
    Bayam, Efil, Sahin, Gulcan Semra, Guzelsoy, Gizem, Guner, Gokhan, Kabakcioglu, Alkan, Ince-Dunn, Gulayse · 2015 · BMC Genomics
16. Astrocyte-specific transcriptome responses to chronic ethanol consumption
    Erickson, Emma K., Farris, Sean P., Blednov, Yuri A., Mayfield, R. Dayne, Harris, R. Adron · 2018 · The Pharmacogenomics Journal
17. HNF4A and HNF1A exhibit tissue specific target gene regulation in pancreatic beta cells and hepatocytes
    Ng, Natasha Hui Jin, Ghosh, Soumita, Bok, Chek Mei, Ching, Carmen, Low, Blaise Su Jun, Chen, Juin Ting, Lim, Euodia, Miserendino, María Clara, Tan, Yaw Sing, Hoon, Shawn et al. · 2024 · Nature Communications
18. Earliest modern human genomes constrain timing of Neanderthal admixture
    Sümer, Arev P., Rougier, Hélène, Villalba-Mouco, Vanessa, Huang, Yilei, Iasi, Leonardo N. M., Essel, Elena, Bossoms Mesa, Alba, Furtwaengler, Anja, Peyrégne, Stéphane, de Filippo, Cesare et al. · 2025 · Nature
19. Reducing mitochondrial reads in ATAC-seq using CRISPR/Cas9
    Montefiori, Lindsey, Hernandez, Liana, Zhang, Zijie, Gilad, Yoav, Ober, Carole, Crawford, Gregory, Nobrega, Marcelo, Jo Sakabe, Noboru · 2017 · Scientific Reports
20. Molecular and Pathology Features of Colorectal Tumors and Patient Outcomes Are Associated with <i>Fusobacterium nucleatum</i> and Its Subspecies <i>animalis</i>
    Borozan, Ivan, Zaidi, Syed H., Harrison, Tabitha A., Phipps, Amanda I., Zheng, Jiayin, Lee, Stephen, Trinh, Quang M., Steinfelder, Robert S., Adams, Jeremy, Banbury, Barbara L. et al. · 2022 · Cancer Epidemiology, Biomarkers &amp; Prevention
21. Identification of Essential Genes and Fluconazole Susceptibility Genes in <i>Candida glabrata</i> by Profiling <i>Hermes</i> Transposon Insertions
    Gale, Andrew N, Sakhawala, Rima M, Levitan, Anton, Sharan, Roded, Berman, Judith, Timp, Winston, Cunningham, Kyle W · 2020 · G3 Genes|Genomes|Genetics
22. Atypical plant homeodomain of UBR7 functions as an H2BK120Ub ligase and breast tumor suppressor
    Adhikary, Santanu, Chakravarti, Deepavali, Terranova, Christopher, Sengupta, Isha, Maitituoheti, Mayinuer, Dasgupta, Anirban, Srivastava, Dushyant Kumar, Ma, Junsheng, Raman, Ayush T., Tarco, Emily et al. · 2019 · Nature Communications
23. The chromatin landscape of Th17 cells reveals mechanisms of diversification of regulatory and pro-inflammatory states
    Thakore, Pratiksha I., Schnell, Alexandra, Zhao, Maryann, Huang, Linglin, Hou, Yu, Christian, Elena, Zaghouani, Sarah, Wang, Chao, Singh, Vasundhara, Ma, Sai et al. · 2022
24. Dissecting key regulators of transcriptome kinetics through scalable single-cell RNA profiling of pooled CRISPR screens
    Xu, Zihan, Sziraki, Andras, Lee, Jasper, Zhou, Wei, Cao, Junyue · 2024 · Nature Biotechnology
25. DMRT1-mediated reprogramming drives development of cancer resembling human germ cell tumors with features of totipotency
    Taguchi, Jumpei, Shibata, Hirofumi, Kabata, Mio, Kato, Masaki, Fukuda, Kei, Tanaka, Akito, Ohta, Sho, Ukai, Tomoyo, Mitsunaga, Kanae, Yamada, Yosuke et al. · 2021 · Nature Communications
26. Multifaceted modes of action of the anticancer probiotic Enterococcus hirae
    Goubet, Anne-Gaëlle, Wheeler, Richard, Fluckiger, Aurélie, Qu, Bo, Lemaître, Fabien, Iribarren, Kristina, Mondragón, Laura, Tidjani Alou, Maryam, Pizzato, Eugénie, Durand, Sylvère et al. · 2021 · Cell Death &amp; Differentiation
27. Multifaceted role for p53 in pancreatic cancer suppression
    Mello, Stephano S., Flowers, Brittany M., Mazur, Pawel K., Lee, James J., Müller, Fabian, Denny, Sarah K., Ferreira, Sofia, Hanson, Kathryn, Kim, Seung K., Greenleaf, William J. et al. · 2023 · Proceedings of the National Academy of Sciences
28. Structural Variation and Introgression from Wild Populations in East Asian Cattle Genomes Confer Adaptation to Local Environment
    Xia, Xiaoting, Zhang, Fengwei, Li, Shuang, Luo, Xiaoyu, Peng, Lixin, Dong, Zheng, Pausch, Hubert, Leonard, Alexander S., Crysnanto, Danang, Wang, Shikang et al. · 2023 · Genome biology
29. Nuclear genome sequence of the plastid-lacking cryptomonad Goniomonas avonlea provides insights into the evolution of secondary plastids
    Cenci, Ugo, Sibbald, Shannon J., Curtis, Bruce A., Kamikawa, Ryoma, Eme, Laura, Moog, Daniel, Henrissat, Bernard, Maréchal, Eric, Chabi, Malika, Djemiel, Christophe et al. · 2018 · BMC Biology
30. AlgaePath: comprehensive analysis of metabolic pathways using transcript abundance data from next-generation sequencing in green algae
    Zheng, Han-Qin, Chiang-Hsieh, Yi-Fan, Chien, Chia-Hung, Hsu, Bo-Kai Justin, Liu, Tsung-Lin, Chen, Ching-Nen Nathan, Chang, Wen-Chi · 2014 · BMC Genomics
31. Revealing the microbial heritage of traditional Brazilian cheeses through metagenomics
    Kothe, Caroline Isabel, Mohellibi, Nacer, Renault, Pierre · 2022 · Food Research International
32. BHLHE40/41 regulate Microglia and Peripheral Macrophage Responses Associated With Alzheimer's Disease and Other Disorders of Lipid‐rich Tissues
    Podleśny-Drabiniok, Anna, Novikova, Gloriia, Liu, Yiyuan, Dunst, Josefine, Temizer, Rose, Giannarelli, Chiara, Marro, Samuele, Kreslavsky, Taras, Marcora, Edoardo, Goate, Alison Mary · 2024 · Nature Communications
33. Genome-wide association studies identify<i>PRKCB</i>as a novel genetic susceptibility locus for primary biliary cholangitis in the Japanese population
    Kawashima, Minae, Hitomi, Yuki, Aiba, Yoshihiro, Nishida, Nao, Kojima, Kaname, Kawai, Yosuke, Nakamura, Hitomi, Tanaka, Atsushi, Zeniya, Mikio, Hashimoto, Etsuko et al. · 2017 · Human Molecular Genetics
34. Precise CRISPR-Cas-mediated gene repair with minimal off-target and unintended on-target mutations in human hematopoietic stem cells
    Tran, Ngoc Tung, Danner, Eric, Li, Xun, Graf, Robin, Lebedin, Mikhail, de la Rosa, Kathrin, Kühn, Ralf, Rajewsky, Klaus, Chu, Van Trung · 2022 · Science Advances
35. Potential Skin Protective Effects after UVB Irradiation Afforded by an Antioxidant Peptide from Odorrana Andersonii
    Yin, Saige, Wang, Ying, Liu, Naixin, Yang, Meifeng, Hu, Yan, Li, Xiaojie, Fu, Yang, Luo, Mingying, Sun, Jun, Yang, Xinwang · 2019 · Biomedicine &amp; Pharmacotherapy
36. Gut Microbiome Wellness Index 2 enhances health status prediction from gut microbiome taxonomic profiles
    Chang, Daniel, Gupta, Vinod K., Hur, Benjamin, Cobo-López, Sergio, Cunningham, Kevin Y., Han, Nam Soo, Lee, Insuk, Kronzer, Vanessa L., Teigen, Levi M., Karnatovskaia, Lioudmila V. et al. · 2024 · Nature Communications
37. Discovery of disease-adapted bacterial lineages in inflammatory bowel diseases
    Kumbhari, Adarsh, Cheng, Thomas N.H., Ananthakrishnan, Ashwin N., Kochar, Bharati, Burke, Kristin E., Shannon, Kevin, Lau, Helena, Xavier, Ramnik J., Smillie, Christopher S. · 2024 · Cell Host &amp; Microbe
38. Universal promoter scanning by Pol II during transcription initiation in Saccharomyces cerevisiae
    Qiu, Chenxi, Jin, Huiyan, Vvedenskaya, Irina, Llenas, Jordi Abante, Zhao, Tingting, Malik, Indranil, Visbisky, Alex M., Schwartz, Scott L., Cui, Ping, Čabart, Pavel et al. · 2020 · Genome Biology
39. Deconstructing <i>Methanosarcina acetivorans</i> into an acetogenic archaeon
    Schöne, Christian, Poehlein, Anja, Jehmlich, Nico, Adlung, Norman, Daniel, Rolf, von Bergen, Martin, Scheller, Silvan, Rother, Michael · 2022 · Proceedings of the National Academy of Sciences
40. Pro-neuronal activity of Myod1 due to promiscuous binding to neuronal genes
    Lee, Qian Yi, Mall, Moritz, Chanda, Soham, Zhou, Bo, Sharma, Kylesh S., Schaukowitch, Katie, Adrian-Segarra, Juan M., Grieder, Sarah D., Kareta, Michael S., Wapinski, Orly L. et al. · 2020 · Nature Cell Biology
41. Induction of a colitogenic phenotype in Th1-like cells depends on interleukin-23 receptor signaling
    Pawlak, Mathias, DeTomaso, David, Schnell, Alexandra, Meyer zu Horste, Gerd, Lee, Youjin, Nyman, Jackson, Dionne, Danielle, Regan, Brianna M.L., Singh, Vasundhara, Delorey, Toni et al. · 2022 · Immunity
42. The HDAC inhibitor CI-994 acts as a molecular memory aid by facilitating synaptic and intracellular communication after learning
    Burns, Allison M., Farinelli-Scharly, Mélissa, Hugues-Ascery, Sandrine, Sanchez-Mut, Jose Vicente, Santoni, Giulia, Gräff, Johannes · 2022 · Proceedings of the National Academy of Sciences
43. A Uniform Computational Approach Improved on Existing Pipelines to Reveal Microbiome Biomarkers of Nonresponse to Immune Checkpoint Inhibitors
    Shaikh, Fyza Y., White, James R., Gills, Joell J., Hakozaki, Taiki, Richard, Corentin, Routy, Bertrand, Okuma, Yusuke, Usyk, Mykhaylo, Pandey, Abhishek, Weber, Jeffrey S. et al. · 2021 · Clinical Cancer Research
44. Parasex Generates Phenotypic Diversity <i>de Novo</i> and Impacts Drug Resistance and Virulence in <i>Candida albicans</i>
    Hirakawa, Matthew P, Chyou, Darius E, Huang, Denis, Slan, Aaron R, Bennett, Richard J · 2017 · Genetics
45. Frequent lack of repressive capacity of promoter DNA methylation identified through genome-wide epigenomic manipulation
    Ford, Ethan, Grimmer, Matthew R., Stolzenburg, Sabine, Bogdanovic, Ozren, Mendoza, Alex de, Farnham, Peggy J., Blancafort, Pilar, Lister, Ryan · 2017
46. Common Regulatory Targets of NFIA, NFIX and NFIB during Postnatal Cerebellar Development
    Fraser, James, Essebier, Alexandra, Brown, Alexander S., Davila, Raul Ayala, Harkins, Danyon, Zalucki, Oressia, Shapiro, Lauren P., Penzes, Peter, Wainwright, Brandon J., Scott, Matthew P. et al. · 2020 · The Cerebellum
47. Sequence data for Clostridium autoethanogenum using three generations of sequencing technologies
    Utturkar, Sagar M, Klingeman, Dawn M, Bruno-Barcena, José M, Chinn, Mari S, Grunden, Amy M, Köpke, Michael, Brown, Steven D · 2015 · Scientific Data
48. Transcriptional regulatory dynamics drive coordinated metabolic and neural response to social challenge in mice
    Saul, Michael C., Seward, Christopher H., Troy, Joseph M., Zhang, Huimin, Sloofman, Laura G., Lu, Xiaochen, Weisner, Patricia A., Caetano-Anolles, Derek, Sun, Hao, Zhao, Sihai Dave et al. · 2017 · Genome Research
49. Gut microbiota-derived hexa-acylated lipopolysaccharides enhance cancer immunotherapy responses
    Sardar, Puspendu, Beresford-Jones, Benjamin S., Xia, Wangmingyu, Shabana, Omar, Suyama, Satoshi, Ramos, Ruben J. F., Soderholm, Amelia T., Tourlomousis, Panagiotis, Kuo, Paula, Evans, Alexander C. et al. · 2025 · Nature Microbiology
50. The NuRD complex cooperates with SALL4 to orchestrate reprogramming
    Wang, Bo, Li, Chen, Ming, Jin, Wu, Linlin, Fang, Shicai, Huang, Yi, Lin, Lihui, Liu, He, Kuang, Junqi, Zhao, Chengchen et al. · 2023 · Nature Communications
51. Gorillas have been infected with the HERV-K (HML-2) endogenous retrovirus much more recently than humans and chimpanzees
    Holloway, Joseph R., Williams, Zachary H., Freeman, Michael M., Bulow, Uriel, Coffin, John M. · 2019 · Proceedings of the National Academy of Sciences
52. Transcriptomic Insights into the Growth Phase- and Sugar-Associated Changes in the Exopolysaccharide Production of a High EPS-Producing Streptococcus thermophilus ASCC 1275
    Padmanabhan, Aparna, Tong, Ying, Wu, Qinglong, Zhang, Jiangwen, Shah, Nagendra P. · 2018 · Frontiers in Microbiology
53. BRD4 inhibitors block telomere elongation
    Wang, Steven, Pike, Alexandra M., Lee, Stella S., Strong, Margaret A., Connelly, Carla J., Greider, Carol W. · 2017 · Nucleic Acids Research
54. Capturing the antibiotic resistome of preterm infants reveals new benefits of probiotic supplementation
    Guitor, Allison K., Yousuf, Efrah I., Raphenya, Amogelang R., Hutton, Eileen K., Morrison, Katherine M., McArthur, Andrew G., Wright, Gerard D., Stearns, Jennifer C. · 2022 · Microbiome
55. HDAC7-mediated control of tumour microenvironment maintains proliferative and stemness competence of human mammary epithelial cells
    Cutano, Valentina, Di Giorgio, Eros, Minisini, Martina, Picco, Raffaella, Dalla, Emiliano, Brancolini, Claudio · 2019 · Molecular Oncology
56. Pyruvate kinase variant of fission yeast tunes carbon metabolism, cell regulation, growth and stress resistance
    Kamrad, Stephan, Grossbach, Jan, Rodríguez‐López, Maria, Mülleder, Michael, Townsend, StJohn, Cappelletti, Valentina, Stojanovski, Gorjan, Correia‐Melo, Clara, Picotti, Paola, Beyer, Andreas et al. · 2020 · Molecular Systems Biology
57. Structure and function of virion RNA polymerase of a crAss-like phage
    Drobysheva, Arina V., Panafidina, Sofia A., Kolesnik, Matvei V., Klimuk, Evgeny I., Minakhin, Leonid, Yakunina, Maria V., Borukhov, Sergei, Nilsson, Emelie, Holmfeldt, Karin, Yutin, Natalya et al. · 2021 · Nature
58. Fast and accurate metagenotyping of the human gut microbiome with GT-Pro
    Shi, Zhou Jason, Dimitrov, Boris, Zhao, Chunyu, Nayfach, Stephen, Pollard, Katherine S. · 2022 · Nature Biotechnology
59. The Rim pathway mediates antifungal tolerance in Candida albicans through newly identified Rim101 transcriptional targets, including Hsp90 and Ipt1
    Garnaud, Cécile, García-Oliver, Encar, Wang, Yan, Maubon, Danièle, Bailly, Sébastien, Despinasse, Quentin, Champleboux, Morgane, Govin, Jérôme, Cornet, Muriel · 2018 · Antimicrobial Agents and Chemotherapy
60. Genetic mapping of microbial and host traits reveals production of immunomodulatory lipids by Akkermansia muciniphila in the murine gut
    Zhang, Q., Linke, V., Overmyer, K. A., Traeger, L. L., Kasahara, K., Miller, I. J., Manson, D. E., Polaske, T. J., Kerby, R. L., Kemis, J. H. et al. · 2023 · Nature Microbiology
61. FOXP3 recognizes microsatellites and bridges DNA through multimerization
    Zhang, Wenxiang, Leng, Fangwei, Wang, Xi, Ramirez, Ricardo N., Park, Jinseok, Benoist, Christophe, Hur, Sun · 2023 · Nature
62. Fungal acetylome comparative analysis identifies an essential role of acetylation in human fungal pathogen virulence
    Li, Yanjian, Li, Hailong, Sui, Mingfei, Li, Minghui, Wang, Jiamei, Meng, Yang, Sun, Tianshu, Liang, Qiaojing, Suo, Chenhao, Gao, Xindi et al. · 2019 · Communications Biology
63. Dysregulated Expression of Monoacylglycerol Lipase Is a Marker for Anti-Diabetic Drug Metformin-Targeted Therapy to Correct Impaired Neurogenesis and Spatial Memory in Alzheimer’s Disease
    Syal, Charvi, Kosaraju, Jayasankar, Hamilton, Laura, Aumont, Anne, Chu, Alphonse, Sarma, Sailendra Nath, Thomas, Jacob, Seegobin, Matthew, Dilworth, F Jeffrey, He, Ling et al. · 2020 · Theranostics
64. Large-Scale Transcriptional Response to Hypoxia in Aspergillus fumigatus Observed Using RNAseq Identifies a Novel Hypoxia Regulated ncRNA
    Losada, Liliana, Barker, Bridget M., Pakala, Suman, Pakala, Suchitra, Joardar, Vinita, Zafar, Nikhat, Mounaud, Stephanie, Fedorova, Natalie, Nierman, William C., Cramer, Robert A. · 2014 · Mycopathologia
65. Reading and Writing Digital Information in TNA
    Yang, Kefan, McCloskey, Cailen M., Chaput, John C. · 2020 · ACS Synthetic Biology
66. Bistable auto-aggregation phenotype in Lactiplantibacillus plantarum emerges after cultivation in in vitro colonic microbiota
    Isenring, Julia, Geirnaert, Annelies, Lacroix, Christophe, Stevens, Marc J. A. · 2021 · BMC Microbiology
67. Transcriptome dynamics over a lunar month in a broadcast spawning acroporid coral
    Oldach, Matthew J., Workentine, Matthew, Matz, Mikhail V., Fan, Tung‐Yung, Vize, Peter D. · 2017 · Molecular Ecology
68. Combined chemosensitivity and chromatin profiling prioritizes drug combinations in CLL
    Schmidl, Christian, Vladimer, Gregory I., Rendeiro, André F., Schnabl, Susanne, Krausgruber, Thomas, Taubert, Christina, Krall, Nikolaus, Pemovska, Tea, Araghi, Mohammad, Snijder, Berend et al. · 2019 · Nature Chemical Biology
69. CDK4 inhibition diminishes p53 activation by MDM2 antagonists
    Sriraman, Anusha, Dickmanns, Antje, Najafova, Zeynab, Johnsen, Steven A., Dobbelstein, Matthias · 2018 · Cell Death &amp; Disease
70. Multiplexed Quantitation of Intraphagocyte Mycobacterium tuberculosis Secreted Protein Effectors
    Sayes, Fadel, Blanc, Catherine, Ates, Louis S., Deboosere, Nathalie, Orgeur, Mickael, Le Chevalier, Fabien, Gröschel, Matthias I., Frigui, Wafa, Song, Ok-Ryul, Lo-Man, Richard et al. · 2018 · Cell Reports
71. Transcriptomic time-series analysis of cold- and heat-shock response in psychrotrophic lactic acid bacteria
    Duru, Ilhan Cem, Ylinen, Anne, Belanov, Sergei, Pulido, Alan Avila, Paulin, Lars, Auvinen, Petri · 2021 · BMC Genomics
72. Longitudinal analysis of the gut microbiota during anti-PD-1 therapy reveals stable microbial features of response in melanoma patients
    Macandog, Angeli D.G., Catozzi, Carlotta, Capone, Mariaelena, Nabinejad, Amir, Nanaware, Padma P., Liu, Shujing, Vinjamuri, Smita, Stunnenberg, Johanna A., Galiè, Serena, Jodice, Maria Giovanna et al. · 2024 · Cell Host &amp; Microbe
73. Protein quality control and regulated proteolysis in the genome‐reduced organism Mycoplasma pneumoniae
    Burgos, Raul, Weber, Marc, Martinez, Sira, Lluch‐Senar, Maria, Serrano, Luis · 2020 · Molecular Systems Biology
74. Inherited Chromosomally Integrated Human Herpesvirus 6 Demonstrates Tissue-Specific RNA Expression <i>In Vivo</i> That Correlates with an Increased Antibody Immune Response
    Peddu, Vikas, Dubuc, Isabelle, Gravel, Annie, Xie, Hong, Huang, Meei-Li, Tenenbaum, Dan, Jerome, Keith R., Tardif, Jean-Claude, Dubé, Marie-Pierre, Flamand, Louis et al. · 2019 · Journal of Virology
75. EspL is essential for virulence and stabilizes EspE, EspF and EspH levels in Mycobacterium tuberculosis
    Sala, Claudia, Odermatt, Nina T., Soler-Arnedo, Paloma, Gülen, Muhammet F., von Schultz, Sofia, Benjak, Andrej, Cole, Stewart T. · 2018 · PLOS Pathogens
76. Quantification of Translocation-Specific ctDNA Provides an Integrating Parameter for Early Assessment of Treatment Response and Risk Stratification in Ewing Sarcoma
    Krumbholz, Manuela, Eiblwieser, Johanna, Ranft, Andreas, Zierk, Jakob, Schmidkonz, Christian, Stütz, Adrian M, Peneder, Peter, Tomazou, Eleni M., Agaimy, Abbas, Bäuerle, Tobias et al. · 2021 · Clinical Cancer Research
77. An integrated functional and clinical genomics approach reveals genes driving aggressive metastatic prostate cancer
    Das, Rajdeep, Sjöström, Martin, Shrestha, Raunak, Yogodzinski, Christopher, Egusa, Emily A., Chesner, Lisa N., Chen, William S., Chou, Jonathan, Dang, Donna K., Swinderman, Jason T. et al. · 2021 · Nature Communications
78. Comparative analysis of the brain transcriptome in a hyper-aggressive fruit fly, Drosophila prolongata
    Kudo, Ayumi, Shigenobu, Shuji, Kadota, Koji, Nozawa, Masafumi, Shibata, Tomoko F., Ishikawa, Yukio, Matsuo, Takashi · 2017 · Insect Biochemistry and Molecular Biology
79. Monospecific renaming within the cyanobacterial genus <i>Limnospira</i> (Spirulina) and consequences for food authorization
    Roussel, Théotime, Halary, Sébastien, Duval, Charlotte, Piquet, Bérénice, Cadoret, Jean-Paul, Vernès, Léa, Bernard, Cécile, Marie, Benjamin · 2023 · Journal of Applied Microbiology
80. Abscisic acid alleviates mercury toxicity in wheat (Triticum aestivum L.) by promoting cell wall formation
    Wang, Jinxi, Gao, Jie, Zheng, Lanjie, Fu, Yihan, Ji, Li, Wang, Changyu, Yuan, Shasha, Yang, Jingyu, Liu, Jin, Li, Gezi et al. · 2023 · Journal of Hazardous Materials
81. MybA, a transcription factor involved in conidiation and conidial viability of the human pathogen <i>Aspergillus fumigatus</i>
    Valsecchi, Isabel, Sarikaya‐Bayram, Özlem, Wong Sak Hoi, Joanne, Muszkieta, Laetitia, Gibbons, John, Prevost, Marie‐Christine, Mallet, Adeline, Krijnse‐Locker, Jacomina, Ibrahim‐Granet, Oumaima, Mouyna, Isabelle et al. · 2017 · Molecular Microbiology
82. High-throughput transcriptomics of 409 bacteria–drug pairs reveals drivers of gut microbiota perturbation
    Ricaurte, Deirdre, Huang, Yiming, Sheth, Ravi U., Gelsinger, Diego Rivera, Kaufman, Andrew, Wang, Harris H. · 2024 · Nature Microbiology
83. Synergy between regulatory elements can render cohesin dispensable for distal enhancer function
    Hansen, Karissa L., Adachi, Annie S., Braccioli, Luca, Kadvani, Smit, Boileau, Ryan M., Martinovic, Moreno, Pokorny, Bozhena, Shah, Rini, Anderson, Erika C., Zhang, Kaite et al. · 2026 · Science
84. Degradation of Non-coding RNAs Promotes Recycling of Termination Factors at Sites of Transcription
    Villa, Tommaso, Barucco, Mara, Martin-Niclos, Maria-Jose, Jacquier, Alain, Libri, Domenico · 2020 · Cell Reports
85. Growth and stress tolerance comprise independent metabolic strategies critical for Staphylococcus aureus infection
    Kim, Gyu-Lee, Hooven, Thomas A., Norambuena, Javiera, Li, Barry, Boyd, Jeffrey M., Yang, Jason H., Parker, Dane · 2021 · mBio
86. High-resolution microbiome profiling for detection and tracking of Salmonella enterica
    Grim, Christopher J., Daquigan, Ninalynn, Lusk Pfefer, Tina S., Ottesen, Andrea R., White, James R., Jarvis, Karen G. · 2017 · Frontiers in Microbiology
87. Nuclear actin structure regulates chromatin accessibility
    Sen, Buer, Xie, Zhihui, Thomas, Michelle D., Pattenden, Samantha G., Howard, Sean, McGrath, Cody, Styner, Maya, Uzer, Gunes, Furey, Terrence S., Rubin, Janet · 2024 · Nature Communications
88. Impact of early life antibiotic and probiotic treatment on gut microbiome and resistome of very-low-birth-weight preterm infants.
    Kiu, Raymond, Darby, Elizabeth M., Alcon-Giner, Cristina, Acuna-Gonzalez, Antia, Camargo, Anny, Lamberte, Lisa E., Phillips, Sarah, Sim, Kathleen, Shaw, Alexander G., Clarke, Paul et al. · 2025 · Nature communications
89. Genomic insights into antibiotic resistance and mobilome of lactic acid bacteria and bifidobacteria
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