featureCounts: an efficient general purpose program for assigning sequence reads to genomic features

Cited by (428)

Items 201–300 of 428

1. Dichotomous engagement of HDAC3 activity governs inflammatory responses
   Nguyen, Hoang C. B., Adlanmerini, Marine, Hauck, Amy K., Lazar, Mitchell A. · 2020 · Nature
2. Microglia mediate neurocognitive deficits by eliminating C1q-tagged synapses in sepsis-associated encephalopathy
   Chung, Ha-Yeun, Wickel, Jonathan, Hahn, Nina, Mein, Nils, Schwarzbrunn, Meike, Koch, Philipp, Ceanga, Mihai, Haselmann, Holger, Baade-Büttner, Carolin, von Stackelberg, Nikolai et al. · 2023 · Science Advances
3. Developmental regulation of human cortex transcription and its clinical relevance at single base resolution
   Jaffe, Andrew E, Shin, Jooheon, Collado-Torres, Leonardo, Leek, Jeffrey T, Tao, Ran, Li, Chao, Gao, Yuan, Jia, Yankai, Maher, Brady J, Hyde, Thomas M et al. · 2015 · Nature Neuroscience
4. 11-Ketotestosterone is the Dominant Circulating Bioactive Androgen During Normal and Premature Adrenarche
   Rege, Juilee, Turcu, Adina, Kasa-Vubu, Josephine Z, Lerario, Antonio M, Auchus, Gabriela C, Auchus, Richard J, Smith, Joshua M, White, Perrin C, Rainey, William E · 2018 · The Journal of Clinical Endocrinology & Metabolism
5. The transcription factor Grainy head primes epithelial enhancers for spatiotemporal activation by displacing nucleosomes
   Jacobs, Jelle, Atkins, Mardelle, Davie, Kristofer, Imrichova, Hana, Romanelli, Lucia, Christiaens, Valerie, Hulselmans, Gert, Potier, Delphine, Wouters, Jasper, Taskiran, Ibrahim I. et al. · 2018 · Nature Genetics
6. Spatial transcriptomic landscape unveils immunoglobin-associated senescence as a hallmark of aging
   Ma, Shuai, Ji, Zhejun, Zhang, Bin, Geng, Lingling, Cai, Yusheng, Nie, Chao, Li, Jiaming, Zuo, Yuesheng, Sun, Yuzhe, Xu, Gang et al. · 2024 · Cell
7. Tumor-associated B-cells induce tumor heterogeneity and therapy resistance
   Somasundaram, Rajasekharan, Zhang, Gao, Fukunaga-Kalabis, Mizuho, Perego, Michela, Krepler, Clemens, Xu, Xiaowei, Wagner, Christine, Hristova, Denitsa, Zhang, Jie, Tian, Tian et al. · 2017 · Nature Communications
8. Precardiac organoids form two heart fields via Bmp/Wnt signaling
   Andersen, Peter, Tampakakis, Emmanouil, Jimenez, Dennisse V., Kannan, Suraj, Miyamoto, Matthew, Shin, Hye Kyung, Saberi, Amir, Murphy, Sean, Sulistio, Edrick, Chelko, Stephen P. et al. · 2018 · Nature Communications
9. Combined mutation in Vhl, Trp53 and Rb1 causes clear cell renal cell carcinoma in mice
   Harlander, Sabine, Schönenberger, Désirée, Toussaint, Nora C, Prummer, Michael, Catalano, Antonella, Brandt, Laura, Moch, Holger, Wild, Peter J, Frew, Ian J · 2017 · Nature Medicine
10. Dendritic cell–derived hepcidin sequesters iron from the microbiota to promote mucosal healing
    Bessman, Nicholas J., Mathieu, Jacques R. R., Renassia, Cyril, Zhou, Lei, Fung, Thomas C., Fernandez, Keith C., Austin, Christine, Moeller, Jesper B., Zumerle, Sara, Louis, Sabine et al. · 2020 · Science
11. Single-cell senescence identification reveals senescence heterogeneity, trajectory, and modulators
    Tao, Wanyu, Yu, Zhengqing, Han, Jing-Dong J. · 2024 · Cell Metabolism
12. Single-cell analyses of X Chromosome inactivation dynamics and pluripotency during differentiation
    Chen, Geng, Schell, John Paul, Benitez, Julio Aguila, Petropoulos, Sophie, Yilmaz, Marlene, Reinius, Björn, Alekseenko, Zhanna, Shi, Leming, Hedlund, Eva, Lanner, Fredrik et al. · 2016 · Genome Research
13. 3D Culture Method for Alzheimer's Disease Modeling Reveals Interleukin-4 Rescues Aβ42-Induced Loss of Human Neural Stem Cell Plasticity
    Papadimitriou, Christos, Celikkaya, Hilal, Cosacak, Mehmet I., Mashkaryan, Violeta, Bray, Laura, Bhattarai, Prabesh, Brandt, Kerstin, Hollak, Heike, Chen, Xin, He, Shuijin et al. · 2018 · Developmental Cell
14. Adeno-to-squamous transition drives resistance to KRAS inhibition in LKB1 mutant lung cancer
    Tong, Xinyuan, Patel, Ayushi S., Kim, Eejung, Li, Hongjun, Chen, Yueqing, Li, Shuai, Liu, Shengwu, Dilly, Julien, Kapner, Kevin S., Zhang, Ningxia et al. · 2024 · Cancer Cell
15. A <i>Candida auris</i> –specific adhesin, Scf1 <i>,</i> governs surface association, colonization, and virulence
    Santana, Darian J., Anku, Juliet A. E., Zhao, Guolei, Zarnowski, Robert, Johnson, Chad J., Hautau, Haley, Visser, Noelle D., Ibrahim, Ashraf S., Andes, David, Nett, Jeniel E. et al. · 2023 · Science
16. Highly efficient and rapid generation of human pluripotent stem cells by chemical reprogramming.
    Liuyang, Shijia, Wang, Guan, Wang, Yanglu, He, Huanjing, Lyu, Yulin, Cheng, Lin, Yang, Zhihan, Guan, Jingyang, Fu, Yao, Zhu, Jialiang et al. · 2023 · Cell Stem Cell
17. Human brown adipose tissue is phenocopied by classical brown adipose tissue in physiologically humanized mice
    de Jong, Jasper M. A., Sun, Wenfei, Pires, Nuno D., Frontini, Andrea, Balaz, Miroslav, Jespersen, Naja Z., Feizi, Amir, Petrovic, Katarina, Fischer, Alexander W., Bokhari, Muhammad Hamza et al. · 2019 · Nature Metabolism
18. Acute sleep loss results in tissue-specific alterations in genome-wide DNA methylation state and metabolic fuel utilization in humans
    Cedernaes, Jonathan, Schönke, Milena, Westholm, Jakub Orzechowski, Mi, Jia, Chibalin, Alexander, Voisin, Sarah, Osler, Megan, Vogel, Heike, Hörnaeus, Katarina, Dickson, Suzanne L. et al. · 2018 · Science Advances
19. qSVA framework for RNA quality correction in differential expression analysis
    Jaffe, Andrew E., Tao, Ran, Norris, Alexis L., Kealhofer, Marc, Nellore, Abhinav, Shin, Joo Heon, Kim, Dewey, Jia, Yankai, Hyde, Thomas M., Kleinman, Joel E. et al. · 2017 · Proceedings of the National Academy of Sciences
20. Genetically Defined Syngeneic Mouse Models of Ovarian Cancer as Tools for the Discovery of Combination Immunotherapy
    Iyer, Sonia, Zhang, Shuang, Yucel, Simge, Horn, Heiko, Smith, Sean G., Reinhardt, Ferenc, Hoefsmit, Esmee, Assatova, Bimarzhan, Casado, Julia, Meinsohn, Marie-Charlotte et al. · 2021 · Cancer Discovery
21. An RNA-Seq atlas of gene expression in mouse and rat normal tissues
    Söllner, Julia F., Leparc, German, Hildebrandt, Tobias, Klein, Holger, Thomas, Leo, Stupka, Elia, Simon, Eric · 2017 · Scientific Data
22. Multi-omic rejuvenation and lifespan extension on exposure to youthful circulation
    Zhang, Bohan, Lee, David E., Trapp, Alexandre, Tyshkovskiy, Alexander, Lu, Ake T., Bareja, Akshay, Kerepesi, Csaba, McKay, Lauren K., Shindyapina, Anastasia V., Dmitriev, Sergey E. et al. · 2023 · Nature Aging
23. Neuronal ambient RNA contamination causes misinterpreted and masked cell types in brain single-nuclei datasets
    Caglayan, Emre, Liu, Yuxiang, Konopka, Genevieve · 2022 · Neuron
24. FOXA1 mutations reveal distinct chromatin profiles and influence therapeutic response in breast cancer
    Arruabarrena-Aristorena, Amaia, Maag, Jesper L.V., Kittane, Srushti, Cai, Yanyan, Karthaus, Wouter R., Ladewig, Erik, Park, Jane, Kannan, Srinivasaraghavan, Ferrando, Lorenzo, Cocco, Emiliano et al. · 2020 · Cancer Cell
25. TBL1XR1 mutations drive extranodal lymphoma by inducing a pro-tumorigenic memory fate
    Venturutti, Leandro, Teater, Matt, Zhai, Andrew, Chadburn, Amy, Babiker, Leena, Kim, Daleum, Béguelin, Wendy, Lee, Tak C., Kim, Youngjun, Chin, Christopher R. et al. · 2020 · Cell
26. Human ESC-derived chimeric mouse models of Huntington's disease reveal cell-intrinsic defects in glial progenitor cell differentiation
    Osipovitch, Mikhail, Asenjo Martinez, Andrea, Mariani, John N., Cornwell, Adam, Dhaliwal, Simrat, Zou, Lisa, Chandler-Militello, Devin, Wang, Su, Li, Xiaojie, Benraiss, Sarah-Jehanne et al. · 2019 · Cell Stem Cell
27. Skeletal muscle transcriptome in healthy aging
    Tumasian, Robert A., Harish, Abhinav, Kundu, Gautam, Yang, Jen-Hao, Ubaida-Mohien, Ceereena, Gonzalez-Freire, Marta, Kaileh, Mary, Zukley, Linda M., Chia, Chee W., Lyashkov, Alexey et al. · 2021 · Nature Communications
28. A NPAS4–NuA4 complex couples synaptic activity to DNA repair
    Pollina, Elizabeth A., Gilliam, Daniel T., Landau, Andrew T., Lin, Cindy, Pajarillo, Naomi, Davis, Christopher P., Harmin, David A., Yap, Ee-Lynn, Vogel, Ian R., Griffith, Eric C. et al. · 2023 · Nature
29. Different effects of constitutive and induced microbiota modulation on microglia in a mouse model of Alzheimer’s disease
    Mezö, Charlotte, Dokalis, Nikolaos, Mossad, Omar, Staszewski, Ori, Neuber, Jana, Yilmaz, Bahtiyar, Schnepf, Daniel, de Agüero, Mercedes Gomez, Ganal-Vonarburg, Stephanie C., Macpherson, Andrew J. et al. · 2020 · Acta Neuropathologica Communications
30. Micro-environmental sensing by bone marrow stroma identifies IL-6 and TGFβ1 as regulators of hematopoietic ageing
    Valletta, Simona, Thomas, Alexander, Meng, Yiran, Ren, Xiying, Drissen, Roy, Sengül, Hilal, Di Genua, Cristina, Nerlov, Claus · 2020 · Nature Communications
31. Habenular TCF7L2 links nicotine addiction to diabetes
    Duncan, Alexander, Heyer, Mary P., Ishikawa, Masago, Caligiuri, Stephanie P. B., Liu, Xin-an, Chen, Zuxin, Micioni Di Bonaventura, Maria Vittoria, Elayouby, Karim S., Ables, Jessica L., Howe, William M. et al. · 2019 · Nature
32. A mouse tissue atlas of small noncoding RNA
    Isakova, Alina, Fehlmann, Tobias, Keller, Andreas, Quake, Stephen R. · 2020 · Proceedings of the National Academy of Sciences
33. Astrocytes and neurons share region-specific transcriptional signatures that confer regional identity to neuronal reprogramming
    Herrero-Navarro, Álvaro, Puche-Aroca, Lorenzo, Moreno-Juan, Verónica, Sempere-Ferràndez, Alejandro, Espinosa, Ana, Susín, Rafael, Torres-Masjoan, Laia, Leyva-Díaz, Eduardo, Karow, Marisa, Figueres-Oñate, María et al. · 2021 · Science Advances
34. Niche stiffening compromises hair follicle stem cell potential during ageing by reducing bivalent promoter accessibility
    Koester, Janis, Miroshnikova, Yekaterina A., Ghatak, Sushmita, Chacón-Martínez, Carlos Andrés, Morgner, Jessica, Li, Xinping, Atanassov, Ilian, Altmüller, Janine, Birk, David E., Koch, Manuel et al. · 2021 · Nature Cell Biology
35. Cross-species analysis of enhancer logic using deep learning
    Minnoye, Liesbeth, Taskiran, Ibrahim Ihsan, Mauduit, David, Fazio, Maurizio, Van Aerschot, Linde, Hulselmans, Gert, Christiaens, Valerie, Makhzami, Samira, Seltenhammer, Monika, Karras, Panagiotis et al. · 2020 · Genome Research
36. A spatial vascular transcriptomic, proteomic, and phosphoproteomic atlas unveils an angiocrine Tie-Wnt signaling axis in the liver
    Inverso, Donato, Shi, Jingjing, Lee, Ki Hong, Jakab, Moritz, Ben-Moshe, Shani, Kulkarni, Shubhada R., Schneider, Martin, Wang, Guanxiong, Komeili, Marziyeh, Vélez, Paula Argos et al. · 2021 · Developmental Cell
37. Arid1b haploinsufficient mice reveal neuropsychiatric phenotypes and reversible causes of growth impairment
    Celen, Cemre, Chuang, Jen-Chieh, Luo, Xin, Nijem, Nadine, Walker, Angela K, Chen, Fei, Zhang, Shuyuan, Chung, Andrew S, Nguyen, Liem H, Nassour, Ibrahim et al. · 2017 · eLife
38. ELOF1 is a transcription-coupled DNA repair factor that directs RNA polymerase II ubiquitylation
    van der Weegen, Yana, de Lint, Klaas, van den Heuvel, Diana, Nakazawa, Yuka, Mevissen, Tycho E. T., van Schie, Janne J. M., San Martin Alonso, Marta, Boer, Daphne E. C., González-Prieto, Román, Narayanan, Ishwarya V. et al. · 2021 · Nature Cell Biology
39. HIF inhibitor 32-134D eradicates murine hepatocellular carcinoma in combination with anti-PD1 therapy
    Salman, Shaima, Meyers, David J., Wicks, Elizabeth E., Lee, Sophia N., Datan, Emmanuel, Thomas, Aline M., Anders, Nicole M., Hwang, Yousang, Lyu, Yajing, Yang, Yongkang et al. · 2022 · Journal of Clinical Investigation
40. A multicenter study benchmarking single-cell RNA sequencing technologies using reference samples
    Chen, Wanqiu, Zhao, Yongmei, Chen, Xin, Yang, Zhaowei, Xu, Xiaojiang, Bi, Yingtao, Chen, Vicky, Li, Jing, Choi, Hannah, Ernest, Ben et al. · 2021 · Nature Biotechnology
41. Genome-Wide CRISPR Screens Identify Multiple Synthetic Lethal Targets That Enhance KRASG12C Inhibitor Efficacy
    Mukhopadhyay, Suman, Huang, Hsin-Yi, Lin, Ziyan, Ranieri, Michela, Li, Shuai, Sahu, Soumyadip, Liu, Yingzhuo, Ban, Yi, Guidry, Kayla, Hu, Hai et al. · 2023 · Cancer Research
42. Absolute Quantification of Transcription Factors Reveals Principles of Gene Regulation in Erythropoiesis
    Gillespie, Mark A., Palii, Carmen G., Sanchez-Taltavull, Daniel, Shannon, Paul, Longabaugh, William J.R., Downes, Damien J., Sivaraman, Karthi, Espinoza, Herbert M., Hughes, Jim R., Price, Nathan D. et al. · 2020 · Molecular Cell
43. Large-scale chromatin reorganization reactivates placenta-specific genes that drive cellular aging
    Liu, Zunpeng, Ji, Qianzhao, Ren, Jie, Yan, Pengze, Wu, Zeming, Wang, Si, Sun, Liang, Wang, Zehua, Li, Jiaming, Sun, Guoqiang et al. · 2022 · Developmental Cell
44. Substantial somatic genomic variation and selection for BCOR mutations in human induced pluripotent stem cells
    Rouhani, Foad J., Zou, Xueqing, Danecek, Petr, Badja, Cherif, Amarante, Tauanne Dias, Koh, Gene, Wu, Qianxin, Memari, Yasin, Durbin, Richard, Martincorena, Inigo et al. · 2022 · Nature Genetics
45. Extensive remodeling of the extracellular matrix during aging contributes to age-dependent impairments of muscle stem cell functionality
    Schüler, Svenja C., Kirkpatrick, Joanna M., Schmidt, Manuel, Santinha, Deolinda, Koch, Philipp, Di Sanzo, Simone, Cirri, Emilio, Hemberg, Martin, Ori, Alessandro, von Maltzahn, Julia · 2021 · Cell Reports
46. An organoid-based screen for epigenetic inhibitors that stimulate antigen presentation and potentiate T-cell-mediated cytotoxicity
    Zhou, Zhuolong, Van der Jeught, Kevin, Fang, Yuanzhang, Yu, Tao, Li, Yujing, Ao, Zheng, Liu, Sheng, Zhang, Lu, Yang, Yang, Eyvani, Haniyeh et al. · 2021 · Nature Biomedical Engineering
47. IFN signaling and neutrophil degranulation transcriptional signatures are induced during SARS-CoV-2 infection
    Rosa, Bruce A., Ahmed, Mushtaq, Singh, Dhiraj K., Choreño-Parra, José Alberto, Cole, Journey, Jiménez-Álvarez, Luis Armando, Rodríguez-Reyna, Tatiana Sofía, Singh, Bindu, Gonzalez, Olga, Carrion, Ricardo et al. · 2021 · Communications Biology
48. Interaction of bacterial genera associated with therapeutic response to immune checkpoint PD-1 blockade in a United States cohort
    Newsome, Rachel C., Gharaibeh, Raad Z., Pierce, Christine M., da Silva, Wildson Vieira, Paul, Shirlene, Hogue, Stephanie R., Yu, Qin, Antonia, Scott, Conejo-Garcia, Jose R., Robinson, Lary A. et al. · 2022 · Genome Medicine
49. Epigenomic map of human liver reveals principles of zonated morphogenic and metabolic control
    Brosch, Mario, Kattler, Kathrin, Herrmann, Alexander, von Schönfels, Witigo, Nordström, Karl, Seehofer, Daniel, Damm, Georg, Becker, Thomas, Zeissig, Sebastian, Nehring, Sophie et al. · 2018 · Nature Communications
50. Transcription Factor PU.1 Promotes Conventional Dendritic Cell Identity and Function via Induction of Transcriptional Regulator DC-SCRIPT
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51. Cell-specific proteome analyses of human bone marrow reveal molecular features of age-dependent functional decline
    Hennrich, Marco L., Romanov, Natalie, Horn, Patrick, Jaeger, Samira, Eckstein, Volker, Steeples, Violetta, Ye, Fei, Ding, Ximing, Poisa-Beiro, Laura, Lai, Mang Ching et al. · 2018 · Nature Communications
52. A reanalysis of mouse ENCODE comparative gene expression data
    Gilad, Yoav, Mizrahi-Man, Orna · 2015 · F1000Research
53. Hsf1 promotes hematopoietic stem cell fitness and proteostasis in response to ex vivo culture stress and aging
    Kruta, Miriama, Sunshine, Mary Jean, Chua, Bernadette A., Fu, Yunpeng, Chawla, Ashu, Dillingham, Christopher H., Hidalgo San Jose, Lorena, De Jong, Bijou, Zhou, Fanny J., Signer, Robert A.J. · 2021 · Cell Stem Cell
54. COX2 regulates senescence secretome composition and senescence surveillance through PGE2
    Gonçalves, Susana, Yin, Kelvin, Ito, Yoko, Chan, Adelyne, Olan, Ioana, Gough, Sarah, Cassidy, Liam, Serrao, Eva, Smith, Stephen, Young, Andrew et al. · 2021 · Cell Reports
55. The 10q26 Risk Haplotype of Age-Related Macular Degeneration Aggravates Subretinal Inflammation by Impairing Monocyte Elimination
    Beguier, Fanny, Housset, Michael, Roubeix, Christophe, Augustin, Sebastien, Zagar, Yvrick, Nous, Caroline, Mathis, Thibaud, Eandi, Chiara, Benchaboune, Mustapha, Drame-Maigné, Adèle et al. · 2020 · Immunity
56. Detecting heterogeneity in single-cell RNA-Seq data by non-negative matrix factorization
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57. Transcriptomics and proteomics reveal a cooperation between interferon and T-helper 17 cells in neuromyelitis optica
    Agasing, Agnieshka M., Wu, Qi, Khatri, Bhuwan, Borisow, Nadja, Ruprecht, Klemens, Brandt, Alexander Ulrich, Gawde, Saurabh, Kumar, Gaurav, Quinn, James L., Ko, Rose M. et al. · 2020 · Nature Communications
58. Engineering a haematopoietic stem cell niche by revitalizing mesenchymal stromal cells
    Nakahara, Fumio, Borger, Daniel K., Wei, Qiaozhi, Pinho, Sandra, Maryanovich, Maria, Zahalka, Ali H., Suzuki, Masako, Cruz, Cristian D., Wang, Zichen, Xu, Chunliang et al. · 2019 · Nature Cell Biology
59. Transcription-associated topoisomerase 2α (TOP2A) activity is a major effector of cytotoxicity induced by G-quadruplex ligands
    Bossaert, Madeleine, Pipier, Angélique, Riou, Jean-Francois, Noirot, Céline, Nguyên, Linh-Trang, Serre, Remy-Felix, Bouchez, Olivier, Defrancq, Eric, Calsou, Patrick, Britton, Sébastien et al. · 2021 · eLife
60. Hierarchical and stage-specific regulation of murine cardiomyocyte maturation by serum response factor
    Guo, Yuxuan, Jardin, Blake D., Zhou, Pingzhu, Sethi, Isha, Akerberg, Brynn N., Toepfer, Christopher N, Ai, Yulan, Li, Yifei, Ma, Qing, Guatimosim, Silvia et al. · 2018 · Nature Communications
61. HSV-1-induced disruption of transcription termination resembles a cellular stress response but selectively increases chromatin accessibility downstream of genes
    Hennig, Thomas, Michalski, Marco, Rutkowski, Andrzej J., Djakovic, Lara, Whisnant, Adam W., Friedl, Marie-Sophie, Jha, Bhaskar Anand, Baptista, Marisa A. P., L’Hernault, Anne, Erhard, Florian et al. · 2018 · PLOS Pathogens
62. Analysis of whole genome-transcriptomic organization in brain to identify genes associated with alcoholism
    Kapoor, Manav, Wang, Jen-Chyong, Farris, Sean P., Liu, Yunlong, McClintick, Jeanette, Gupta, Ishaan, Meyers, Jacquelyn L., Bertelsen, Sarah, Chao, Michael, Nurnberger, John et al. · 2019 · Translational Psychiatry
63. Disruption of <i>SUV39H1</i> -Mediated H3K9 Methylation Sustains CAR T-cell Function
    Jain, Nayan, Zhao, Zeguo, Koche, Richard P., Antelope, Chenling, Gozlan, Yosi, Montalbano, Antonino, Brocks, David, Lopez, Michael, Dobrin, Anton, Shi, Yuzhe et al. · 2024 · Cancer Discovery
64. A transcriptomic atlas of mammalian olfactory mucosae reveals an evolutionary influence on food odor detection in humans
    Saraiva, Luis R., Riveros-McKay, Fernando, Mezzavilla, Massimo, Abou-Moussa, Eman H., Arayata, Charles J., Makhlouf, Melanie, Trimmer, Casey, Ibarra-Soria, Ximena, Khan, Mona, Van Gerven, Laura et al. · 2019 · Science Advances
65. FOXC2 controls adult lymphatic endothelial specialization, function, and gut lymphatic barrier preventing multiorgan failure
    González-Loyola, Alejandra, Bovay, Esther, Kim, Jaeryung, Lozano, Tania Wyss, Sabine, Amélie, Renevey, Francois, Arroz-Madeira, Silvia, Rapin, Alexis, Wypych, Tomasz P., Rota, Giorgia et al. · 2021 · Science Advances
66. Histone H3K4me1 and H3K27ac play roles in nucleosome eviction and eRNA transcription, respectively, at enhancers
    Kang, Yujin, Kim, Yea Woon, Kang, Jin, Kim, AeRi · 2021 · The FASEB Journal
67. Cell culture-based profiling across mammals reveals DNA repair and metabolism as determinants of species longevity
    Ma, Siming, Upneja, Akhil, Galecki, Andrzej, Tsai, Yi-Miau, Burant, Charles F, Raskind, Sasha, Zhang, Quanwei, Zhang, Zhengdong D, Seluanov, Andrei, Gorbunova, Vera et al. · 2016 · eLife
68. Arrayed CRISPRi and quantitative imaging describe the morphotypic landscape of essential mycobacterial genes
    de Wet, Timothy J, Winkler, Kristy R, Mhlanga, Musa, Mizrahi, Valerie, Warner, Digby F · 2020 · eLife
69. Single-cell epigenome analysis reveals age-associated decay of heterochromatin domains in excitatory neurons in the mouse brain
    Zhang, Yanxiao, Amaral, Maria Luisa, Zhu, Chenxu, Grieco, Steven Francis, Hou, Xiaomeng, Lin, Lin, Buchanan, Justin, Tong, Liqi, Preissl, Sebastian, Xu, Xiangmin et al. · 2022 · Cell Research
70. Immune correlates of tuberculosis disease and risk translate across species
    Ahmed, Mushtaq, Thirunavukkarasu, Shyamala, Rosa, Bruce A., Thomas, Kimberly A., Das, Shibali, Rangel-Moreno, Javier, Lu, Lan, Mehra, Smriti, Mbandi, Stanley Kimbung, Thackray, Larissa B. et al. · 2020 · Science Translational Medicine
71. Endothelial sensing of AHR ligands regulates intestinal homeostasis
    Wiggins, Benjamin G., Wang, Yi-Fang, Burke, Alice, Grunberg, Nil, Vlachaki Walker, Julia M., Dore, Marian, Chahrour, Catherine, Pennycook, Betheney R., Sanchez-Garrido, Julia, Vernia, Santiago et al. · 2023 · Nature
72. Impact of low dose oral exposure to bisphenol A (BPA) on the neonatal rat hypothalamic and hippocampal transcriptome: a clarity-BPA consortium study
    Arambula, Sheryl E., Belcher, Scott M., Planchart, Antonio, Turner, Stephen D., Patisaul, Heather B. · 2016 · Endocrinology
73. Consensus molecular subtype classification of colorectal adenomas
    Komor, Malgorzata A, Bosch, Linda JW, Bounova, Gergana, Bolijn, Anne S, Delis‐van Diemen, Pien M, Rausch, Christian, Hoogstrate, Youri, Stubbs, Andrew P, de Jong, Mark, Jenster, Guido et al. · 2018 · The Journal of Pathology
74. Trisomy 21–induced dysregulation of microglial homeostasis in Alzheimer’s brains is mediated by USP25
    Zheng, Qiuyang, Li, Guilin, Wang, Shihua, Zhou, Ying, Liu, Ke, Gao, Yue, Zhou, Yulin, Zheng, Liangkai, Zhu, Lin, Deng, Qingfang et al. · 2021 · Science Advances
75. Bacterially produced metabolites protect C. elegans neurons from degeneration
    Urrutia, Arles, García-Angulo, Víctor A., Fuentes, Andrés, Caneo, Mauricio, Legüe, Marcela, Urquiza, Sebastián, Delgado, Scarlett E., Ugalde, Juan, Burdisso, Paula, Calixto, Andrea · 2020 · PLOS Biology
76. DNA damage contributes to neurotoxic inflammation in Aicardi-Goutières syndrome astrocytes
    Giordano, Anna Maria Sole, Luciani, Marco, Gatto, Francesca, Abou Alezz, Monah, Beghè, Chiara, Della Volpe, Lucrezia, Migliara, Alessandro, Valsoni, Sara, Genua, Marco, Dzieciatkowska, Monika et al. · 2022 · Journal of Experimental Medicine
77. Activation of endogenous retroviruses during brain development causes an inflammatory response
    Jönsson, Marie E, Garza, Raquel, Sharma, Yogita, Petri, Rebecca, Södersten, Erik, Johansson, Jenny G, Johansson, Pia A, Atacho, Diahann AM, Pircs, Karolina, Madsen, Sofia et al. · 2021 · The EMBO Journal
78. Deciphering the decline of metabolic elasticity in aging and obesity
    Zhou, Qiuzhong, Yu, Lexiang, Cook, Joshua R., Qiang, Li, Sun, Lei · 2023 · Cell Metabolism
79. Functional multi-organelle units control inflammatory lipid metabolism of macrophages
    Zimmermann, Julia A., Lucht, Kerstin, Stecher, Manuel, Badhan, Chahat, Glaser, Katharina M., Epple, Maximilian W., Koch, Lena R., Deboutte, Ward, Manke, Thomas, Ebnet, Klaus et al. · 2024 · Nature Cell Biology
80. Heritable Epigenomic Changes to the Maize Methylome Resulting from Tissue Culture
    Han, Zhaoxue, Crisp, Peter A, Stelpflug, Scott, Kaeppler, Shawn M, Li, Qing, Springer, Nathan M · 2018 · Genetics
81. Autoantigen-specific CD4+ T cells acquire an exhausted phenotype and persist in human antigen-specific autoimmune diseases
    Saggau, Carina, Bacher, Petra, Esser, Daniela, Rasa, Mahdi, Meise, Silja, Mohr, Nicola, Kohlstedt, Nora, Hutloff, Andreas, Schacht, Sarah-Sophie, Dargvainiene, Justina et al. · 2024 · Immunity
82. Interleukin 4 modulates microglia homeostasis and attenuates the early slowly progressive phase of amyotrophic lateral sclerosis
    Rossi, Chiara, Cusimano, Melania, Zambito, Martina, Finardi, Annamaria, Capotondo, Alessia, Garcia-Manteiga, Jose Manuel, Comi, Giancarlo, Furlan, Roberto, Martino, Gianvito, Muzio, Luca · 2018 · Cell Death &amp; Disease
83. Transcription-dependent cohesin repositioning rewires chromatin loops in cellular senescence
    Olan, Ioana, Parry, Aled J., Schoenfelder, Stefan, Narita, Masako, Ito, Yoko, Chan, Adelyne S. L., Slater, Guy St.C., Bihary, Dóra, Bando, Masashige, Shirahige, Katsuhiko et al. · 2020 · Nature Communications
84. An integrated flow cytometry-based platform for isolation and molecular characterization of circulating tumor single cells and clusters
    Bhagwat, Neha, Dulmage, Keely, Pletcher, Charles H., Wang, Ling, DeMuth, William, Sen, Moen, Balli, David, Yee, Stephanie S., Sa, Silin, Tong, Frances et al. · 2018 · Scientific Reports
85. Regulation of RNA polymerase II processivity by Spt5 is restricted to a narrow window during elongation
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86. Single-nucleus RNA-seq2 reveals functional crosstalk between liver zonation and ploidy
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