Comprehensive Integration of Single-Cell Data

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Items 101–200 of 497

1. Single-cell atlas reveals correlates of high cognitive function, dementia, and resilience to Alzheimer’s disease pathology
   Mathys, Hansruedi, Peng, Zhuyu, Boix, Carles A., Victor, Matheus B., Leary, Noelle, Babu, Sudhagar, Abdelhady, Ghada, Jiang, Xueqiao, Ng, Ayesha P., Ghafari, Kimia et al. · 2023 · Cell
2. Single-cell transcriptomics reveals cell-type-specific diversification in human heart failure
   Koenig, Andrew L., Shchukina, Irina, Amrute, Junedh, Andhey, Prabhakar S., Zaitsev, Konstantin, Lai, Lulu, Bajpai, Geetika, Bredemeyer, Andrea, Smith, Gabriella, Jones, Cameran et al. · 2022 · Nature Cardiovascular Research
3. Integrated Single-Cell Atlas of Endothelial Cells of the Human Lung
   Schupp, Jonas C., Adams, Taylor S., Cosme, Carlos, Raredon, Micha Sam Brickman, Yuan, Yifan, Omote, Norihito, Poli, Sergio, Chioccioli, Maurizio, Rose, Kadi-Ann, Manning, Edward P. et al. · 2021 · Circulation
4. Autism genes converge on asynchronous development of shared neuron classes
   Paulsen, Bruna, Velasco, Silvia, Kedaigle, Amanda J., Pigoni, Martina, Quadrato, Giorgia, Deo, Anthony J., Adiconis, Xian, Uzquiano, Ana, Sartore, Rafaela, Yang, Sung Min et al. · 2022 · Nature
5. Hair-bearing human skin generated entirely from pluripotent stem cells
   Lee, Jiyoon, Rabbani, Cyrus C., Gao, Hongyu, Steinhart, Matthew R., Woodruff, Benjamin M., Pflum, Zachary E., Kim, Alexander, Heller, Stefan, Liu, Yunlong, Shipchandler, Taha Z. et al. · 2020 · Nature
6. Single-cell CUT&Tag profiles histone modifications and transcription factors in complex tissues
   Bartosovic, Marek, Kabbe, Mukund, Castelo-Branco, Gonçalo · 2021 · Nature Biotechnology
7. Heterogeneity of meningeal B cells reveals a lymphopoietic niche at the CNS borders
   Brioschi, Simone, Wang, Wei-Le, Peng, Vincent, Wang, Meng, Shchukina, Irina, Greenberg, Zev J., Bando, Jennifer K., Jaeger, Natalia, Czepielewski, Rafael S., Swain, Amanda et al. · 2021 · Science
8. Microglia use TAM receptors to detect and engulf amyloid β plaques
   Huang, Youtong, Happonen, Kaisa E., Burrola, Patrick G., O’Connor, Carolyn, Hah, Nasun, Huang, Ling, Nimmerjahn, Axel, Lemke, Greg · 2021 · Nature Immunology
9. Myelin dysfunction drives amyloid-β deposition in models of Alzheimer’s disease
   Depp, Constanze, Sun, Ting, Sasmita, Andrew Octavian, Spieth, Lena, Berghoff, Stefan A., Nazarenko, Taisiia, Overhoff, Katharina, Steixner-Kumar, Agnes A., Subramanian, Swati, Arinrad, Sahab et al. · 2023 · Nature
10. Computational principles and challenges in single-cell data integration
    Argelaguet, Ricard, Cuomo, Anna S. E., Stegle, Oliver, Marioni, John C. · 2021 · Nature Biotechnology
11. Molecular logic of cellular diversification in the mouse cerebral cortex
    Di Bella, Daniela J., Habibi, Ehsan, Stickels, Robert R., Scalia, Gabriele, Brown, Juliana, Yadollahpour, Payman, Yang, Sung Min, Abbate, Catherine, Biancalani, Tommaso, Macosko, Evan Z. et al. · 2021 · Nature
12. Comprehensive analysis of single cell ATAC-seq data with SnapATAC
    Fang, Rongxin, Preissl, Sebastian, Li, Yang, Hou, Xiaomeng, Lucero, Jacinta, Wang, Xinxin, Motamedi, Amir, Shiau, Andrew K., Zhou, Xinzhu, Xie, Fangming et al. · 2021 · Nature Communications
13. Benchmarking spatial and single-cell transcriptomics integration methods for transcript distribution prediction and cell type deconvolution
    Li, Bin, Zhang, Wen, Guo, Chuang, Xu, Hao, Li, Longfei, Fang, Minghao, Hu, Yinlei, Zhang, Xinye, Yao, Xinfeng, Tang, Meifang et al. · 2022 · Nature Methods
14. Microbial metabolite enhances immunotherapy efficacy by modulating T cell stemness in pan-cancer
    Jia, Dingjiacheng, Wang, Qiwen, Qi, Yadong, Jiang, Yao, He, Jiamin, Lin, Yifeng, Sun, Yong, Xu, Jilei, Chen, Wenwen, Fan, Lina et al. · 2024 · Cell
15. Spatial deconvolution of HER2-positive breast cancer delineates tumor-associated cell type interactions
    Andersson, Alma, Larsson, Ludvig, Stenbeck, Linnea, Salmén, Fredrik, Ehinger, Anna, Wu, Sunny Z., Al-Eryani, Ghamdan, Roden, Daniel, Swarbrick, Alex, Borg, Åke et al. · 2021 · Nature Communications
16. Meningeal lymphatics affect microglia responses and anti-Aβ immunotherapy
    Da Mesquita, Sandro, Papadopoulos, Zachary, Dykstra, Taitea, Brase, Logan, Farias, Fabiana Geraldo, Wall, Morgan, Jiang, Hong, Kodira, Chinnappa Dilip, de Lima, Kalil Alves, Herz, Jasmin et al. · 2021 · Nature
17. The Power of Plasticity—Metabolic Regulation of Hepatic Stellate Cells
    Trivedi, Parth, Wang, Shuang, Friedman, Scott L. · 2021 · Cell Metabolism
18. Distinct amyloid-β and tau-associated microglia profiles in Alzheimer’s disease
    Gerrits, Emma, Brouwer, Nieske, Kooistra, Susanne M., Woodbury, Maya E., Vermeiren, Yannick, Lambourne, Mirjam, Mulder, Jan, Kummer, Markus, Möller, Thomas, Biber, Knut et al. · 2021 · Acta Neuropathologica
19. Dissection of artifactual and confounding glial signatures by single-cell sequencing of mouse and human brain
    Marsh, Samuel E., Walker, Alec J., Kamath, Tushar, Dissing-Olesen, Lasse, Hammond, Timothy R., de Soysa, T. Yvanka, Young, Adam M. H., Murphy, Sarah, Abdulraouf, Abdulraouf, Nadaf, Naeem et al. · 2022 · Nature Neuroscience
20. 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
21. Promotion of cholangiocarcinoma growth by diverse cancer-associated fibroblast subpopulations
    Affo, Silvia, Nair, Ajay, Brundu, Francesco, Ravichandra, Aashreya, Bhattacharjee, Sonakshi, Matsuda, Michitaka, Chin, LiKang, Filliol, Aveline, Wen, Wen, Song, Xinhua et al. · 2021 · Cancer Cell
22. High-plex protein and whole transcriptome co-mapping at cellular resolution with spatial CITE-seq
    Liu, Yang, DiStasio, Marcello, Su, Graham, Asashima, Hiromitsu, Enninful, Archibald, Qin, Xiaoyu, Deng, Yanxiang, Nam, Jungmin, Gao, Fu, Bordignon, Pino et al. · 2023 · Nature Biotechnology
23. Spatial profiling of chromatin accessibility in mouse and human tissues
    Deng, Yanxiang, Bartosovic, Marek, Ma, Sai, Zhang, Di, Kukanja, Petra, Xiao, Yang, Su, Graham, Liu, Yang, Qin, Xiaoyu, Rosoklija, Gorazd B. et al. · 2022 · Nature
24. Astrocytes and oligodendrocytes undergo subtype-specific transcriptional changes in Alzheimer’s disease.
    Sadick, Jessica S., O’Dea, Michael R., Hasel, Philip, Dykstra, Taitea, Faustin, Arline, Liddelow, Shane A. · 2022 · Neuron
25. A transcriptomic and epigenomic cell atlas of the mouse primary motor cortex
    Yao, Zizhen, Liu, Hanqing, Xie, Fangming, Fischer, Stephan, Adkins, Ricky S., Aldridge, Andrew I., Ament, Seth A., Bartlett, Anna, Behrens, M. Margarita, Van den Berge, Koen et al. · 2021 · Nature
26. Spatial-CUT&Tag: Spatially resolved chromatin modification profiling at the cellular level
    Deng, Yanxiang, Bartosovic, Marek, Kukanja, Petra, Zhang, Di, Liu, Yang, Su, Graham, Enninful, Archibald, Bai, Zhiliang, Castelo-Branco, Gonçalo, Fan, Rong · 2022 · Science
27. Chemical reprogramming of human somatic cells to pluripotent stem cells.
    Guan, Jingyang, Wang, Guan, Wang, Jinlin, Zhang, Zhengyuan, Fu, Yao, Cheng, Lin, Meng, Gaofan, Lyu, Yulin, Zhu, Jialiang, Li, Yanqin et al. · 2022 · Nature
28. Local and systemic responses to SARS-CoV-2 infection in children and adults
    Yoshida, Masahiro, Worlock, Kaylee B., Huang, Ni, Lindeboom, Rik G. H., Butler, Colin R., Kumasaka, Natsuhiko, Dominguez Conde, Cecilia, Mamanova, Lira, Bolt, Liam, Richardson, Laura et al. · 2022 · Nature
29. Microglia Require CD4 T Cells to Complete the Fetal-to-Adult Transition
    Pasciuto, Emanuela, Burton, Oliver T., Roca, Carlos P., Lagou, Vasiliki, Rajan, Wenson D., Theys, Tom, Mancuso, Renzo, Tito, Raul Y., Kouser, Lubna, Callaerts-Vegh, Zsuzsanna et al. · 2020 · Cell
30. Dual ontogeny of disease-associated microglia and disease inflammatory macrophages in aging and neurodegeneration
    Silvin, Aymeric, Uderhardt, Stefan, Piot, Cecile, Da Mesquita, Sandro, Yang, Katharine, Geirsdottir, Laufey, Mulder, Kevin, Eyal, David, Liu, Zhaoyuan, Bridlance, Cecile et al. · 2022 · Immunity
31. <i>Enterococcus</i> peptidoglycan remodeling promotes checkpoint inhibitor cancer immunotherapy
    Griffin, Matthew E., Espinosa, Juliel, Becker, Jessica L., Luo, Ji-Dung, Carroll, Thomas S., Jha, Jyoti K., Fanger, Gary R., Hang, Howard C. · 2021 · Science
32. The splanchnic mesenchyme is the tissue of origin for pancreatic fibroblasts during homeostasis and tumorigenesis
    Han, Lu, Wu, Yongxia, Fang, Kun, Sweeney, Sean, Roesner, Ulyss K., Parrish, Melodie, Patel, Khushbu, Walter, Tom, Piermattei, Julia, Trimboli, Anthony et al. · 2023 · Nature Communications
33. Single-cell proteomics enabled by next-generation sequencing or mass spectrometry
    Bennett, Hayley M., Stephenson, William, Rose, Christopher M., Darmanis, Spyros · 2023 · Nature Methods
34. The triumphs and limitations of computational methods for scRNA-seq
    Kharchenko, Peter V. · 2021 · Nature Methods
35. Spatiotemporal single-cell analysis of gene expression in the mouse suprachiasmatic nucleus
    Wen, Shao’ang, Ma, Danyi, Zhao, Meng, Xie, Lucheng, Wu, Qingqin, Gou, Lingfeng, Zhu, Chuanzhen, Fan, Yuqi, Wang, Haifang, Yan, Jun · 2020 · Nature Neuroscience
36. Single-cell epigenomic analyses implicate candidate causal variants at inherited risk loci for Alzheimer’s and Parkinson’s diseases
    Corces, M. Ryan, Shcherbina, Anna, Kundu, Soumya, Gloudemans, Michael J., Frésard, Laure, Granja, Jeffrey M., Louie, Bryan H., Eulalio, Tiffany, Shams, Shadi, Bagdatli, S. Tansu et al. · 2020 · Nature Genetics
37. Microbial single-cell RNA sequencing by split-pool barcoding
    Kuchina, Anna, Brettner, Leandra M., Paleologu, Luana, Roco, Charles M., Rosenberg, Alexander B., Carignano, Alberto, Kibler, Ryan, Hirano, Matthew, DePaolo, R. William, Seelig, Georg · 2021 · Science
38. T cells specific for α-myosin drive immunotherapy-related myocarditis
    Axelrod, Margaret L., Meijers, Wouter C., Screever, Elles M., Qin, Juan, Carroll, Mary Grace, Sun, Xiaopeng, Tannous, Elie, Zhang, Yueli, Sugiura, Ayaka, Taylor, Brandie C. et al. · 2022 · Nature
39. Integrative Single-Cell RNA-Seq and ATAC-Seq Analysis of Human Developmental Hematopoiesis
    Ranzoni, Anna Maria, Tangherloni, Andrea, Berest, Ivan, Riva, Simone Giovanni, Myers, Brynelle, Strzelecka, Paulina M., Xu, Jiarui, Panada, Elisa, Mohorianu, Irina, Zaugg, Judith B. et al. · 2021 · Cell Stem Cell
40. A blood atlas of COVID-19 defines hallmarks of disease severity and specificity
    Ahern, David J., Ai, Zhichao, Ainsworth, Mark, Allan, Chris, Allcock, Alice, Angus, Brian, Ansari, M. Azim, Arancibia-Cárcamo, Carolina V., Aschenbrenner, Dominik, Attar, Moustafa et al. · 2022 · Cell
41. The enteric nervous system relays psychological stress to intestinal inflammation
    Schneider, Kai Markus, Blank, Niklas, Alvarez, Yelina, Thum, Katharina, Lundgren, Patrick, Litichevskiy, Lev, Sleeman, Madeleine, Bahnsen, Klaas, Kim, Jihee, Kardo, Simon et al. · 2023 · Cell
42. Maturation and persistence of the anti-SARS-CoV-2 memory B cell response
    Sokal, Aurélien, Chappert, Pascal, Barba-Spaeth, Giovanna, Roeser, Anais, Fourati, Slim, Azzaoui, Imane, Vandenberghe, Alexis, Fernandez, Ignacio, Meola, Annalisa, Bouvier-Alias, Magali et al. · 2021 · Cell
43. Gut-licensed IFNγ+ NK cells drive LAMP1+TRAIL+ anti-inflammatory astrocytes
    Sanmarco, Liliana M., Wheeler, Michael A., Gutiérrez-Vázquez, Cristina, Polonio, Carolina Manganeli, Linnerbauer, Mathias, Pinho-Ribeiro, Felipe A., Li, Zhaorong, Giovannoni, Federico, Batterman, Katelyn V., Scalisi, Giulia et al. · 2021 · Nature
44. Human germinal centres engage memory and naive B cells after influenza vaccination
    Turner, Jackson S., Zhou, Julian Q., Han, Julianna, Schmitz, Aaron J., Rizk, Amena A., Alsoussi, Wafaa B., Lei, Tingting, Amor, Mostafa, McIntire, Katherine M., Meade, Philip et al. · 2020 · Nature
45. Inferring and perturbing cell fate regulomes in human brain organoids
    Fleck, Jonas Simon, Jansen, Sophie Martina Johanna, Wollny, Damian, Zenk, Fides, Seimiya, Makiko, Jain, Akanksha, Okamoto, Ryoko, Santel, Malgorzata, He, Zhisong, Camp, J. Gray et al. · 2023 · Nature
46. Selective removal of astrocytic APOE4 strongly protects against tau-mediated neurodegeneration and decreases synaptic phagocytosis by microglia
    Wang, Chao, Xiong, Monica, Gratuze, Maud, Bao, Xin, Shi, Yang, Andhey, Prabhakar Sairam, Manis, Melissa, Schroeder, Caitlin, Yin, Zhuoran, Madore, Charlotte et al. · 2021 · Neuron
47. Somatic mutations and cell identity linked by Genotyping of Transcriptomes
    Nam, Anna S., Kim, Kyu-Tae, Chaligne, Ronan, Izzo, Franco, Ang, Chelston, Taylor, Justin, Myers, Robert M., Abu-Zeinah, Ghaith, Brand, Ryan, Omans, Nathaniel D. et al. · 2019 · Nature
48. Alignment and integration of spatial transcriptomics data
    Zeira, Ron, Land, Max, Strzalkowski, Alexander, Raphael, Benjamin J. · 2022 · Nature Methods
49. Single-Nucleus RNA-Seq Is Not Suitable for Detection of Microglial Activation Genes in Humans
    Thrupp, Nicola, Sala Frigerio, Carlo, Wolfs, Leen, Skene, Nathan G., Fattorelli, Nicola, Poovathingal, Suresh, Fourne, Yannick, Matthews, Paul M., Theys, Tom, Mancuso, Renzo et al. · 2020 · Cell Reports
50. Single-cell transcriptional profiles in human skeletal muscle
    Rubenstein, Aliza B., Smith, Gregory R., Raue, Ulrika, Begue, Gwénaëlle, Minchev, Kiril, Ruf-Zamojski, Frederique, Nair, Venugopalan D., Wang, Xingyu, Zhou, Lan, Zaslavsky, Elena et al. · 2020 · Scientific Reports
51. Single-cell and spatial transcriptomics: deciphering brain complexity in health and disease
    Piwecka, Monika, Rajewsky, Nikolaus, Rybak-Wolf, Agnieszka · 2023 · Nature Reviews Neurology
52. Microbiota-specific T follicular helper cells drive tertiary lymphoid structures and anti-tumor immunity against colorectal cancer
    Overacre-Delgoffe, Abigail E., Bumgarner, Hannah J., Cillo, Anthony R., Burr, Ansen H.P., Tometich, Justin T., Bhattacharjee, Amrita, Bruno, Tullia C., Vignali, Dario A.A., Hand, Timothy W. · 2021 · Immunity
53. Predicting cellular responses to complex perturbations in high‐throughput screens
    Lotfollahi, Mohammad, Klimovskaia Susmelj, Anna, De Donno, Carlo, Hetzel, Leon, Ji, Yuge, Ibarra, Ignacio L, Srivatsan, Sanjay R, Naghipourfar, Mohsen, Daza, Riza M, Martin, Beth et al. · 2023 · Molecular Systems Biology
54. The neurons that restore walking after paralysis
    Kathe, Claudia, Skinnider, Michael A., Hutson, Thomas H., Regazzi, Nicola, Gautier, Matthieu, Demesmaeker, Robin, Komi, Salif, Ceto, Steven, James, Nicholas D., Cho, Newton et al. · 2022 · Nature
55. Capturing Cardiogenesis in Gastruloids
    Rossi, Giuliana, Broguiere, Nicolas, Miyamoto, Matthew, Boni, Andrea, Guiet, Romain, Girgin, Mehmet, Kelly, Robert G., Kwon, Chulan, Lutolf, Matthias P. · 2021 · Cell Stem Cell
56. Impaired death receptor signaling in leukemia causes antigen-independent resistance by inducing CAR T-cell dysfunction
    Singh, Nathan, Lee, Yong Gu, Shestova, Olga, Ravikumar, Pranali, Hayer, Katharina E., Hong, Seok Jae, Lu, Xueqing Maggie, Pajarillo, Raymone, Agarwal, Sangya, Kuramitsu, Shunichiro et al. · 2020 · Cancer Discovery
57. γδ T cells are effectors of immunotherapy in cancers with HLA class I defects
    de Vries, Natasja L., van de Haar, Joris, Veninga, Vivien, Chalabi, Myriam, Ijsselsteijn, Marieke E., van der Ploeg, Manon, van den Bulk, Jitske, Ruano, Dina, van den Berg, Jose G., Haanen, John B. et al. · 2023 · Nature
58. Single-cell meta-analyses reveal responses of tumor-reactive CXCL13+ T cells to immune-checkpoint blockade
    Liu, Baolin, Zhang, Yuanyuan, Wang, Dongfang, Hu, Xueda, Zhang, Zemin · 2022 · Nature Cancer
59. Transcriptomic taxonomy and neurogenic trajectories of adult human, macaque, and pig hippocampal and entorhinal cells
    Franjic, Daniel, Skarica, Mario, Ma, Shaojie, Arellano, Jon I., Tebbenkamp, Andrew T.N., Choi, Jinmyung, Xu, Chuan, Li, Qian, Morozov, Yury M., Andrijevic, David et al. · 2022 · Neuron
60. Bacterial droplet-based single-cell RNA-seq reveals antibiotic-associated heterogeneous cellular states
    Ma, Peijun, Amemiya, Haley M., He, Lorrie L., Gandhi, Shivam J., Nicol, Robert, Bhattacharyya, Roby P., Smillie, Christopher S., Hung, Deborah T. · 2023 · Cell
61. Single-cell transcriptomes and whole-brain projections of serotonin neurons in the mouse dorsal and median raphe nuclei
    Ren, Jing, Isakova, Alina, Friedmann, Drew, Zeng, Jiawei, Grutzner, Sophie M, Pun, Albert, Zhao, Grace Q, Kolluru, Sai Saroja, Wang, Ruiyu, Lin, Rui et al. · 2019 · eLife
62. Joint profiling of histone modifications and transcriptome in single cells from mouse brain
    Zhu, Chenxu, Zhang, Yanxiao, Li, Yang Eric, Lucero, Jacinta, Behrens, M. Margarita, Ren, Bing · 2021 · Nature Methods
63. Trem2 restrains the enhancement of tau accumulation and neurodegeneration by β-amyloid pathology
    Lee, Seung-Hye, Meilandt, William J., Xie, Luke, Gandham, Vineela D., Ngu, Hai, Barck, Kai H., Rezzonico, Mitchell G., Imperio, Jose, Lalehzadeh, Guita, Huntley, Melanie A. et al. · 2021 · Neuron
64. Integrative multi-omics approaches in cancer research: from biological networks to clinical subtypes
    Heo, Yong Jin, Hwa, Chanwoong, Lee, Gang-Hee, Park, Jae-Min, An, Joon-Yong · 2021 · Molecules and Cells
65. Novel Alzheimer risk genes determine the microglia response to amyloid-β but not to TAU pathology
    Sierksma, Annerieke, Lu, Ashley, Mancuso, Renzo, Fattorelli, Nicola, Thrupp, Nicola, Salta, Evgenia, Zoco, Jesus, Blum, David, Buée, Luc, De Strooper, Bart et al. · 2020 · EMBO Molecular Medicine
66. Tau Activation of Microglial cGAS–IFN Reduces MEF2C‐mediated Cognitive Resilience
    Udeochu, Joe C., Amin, Sadaf, Huang, Yige, Fan, Li, Torres, Eileen Ruth S., Carling, Gillian K., Liu, Bangyan, McGurran, Hugo, Coronas-Samano, Guillermo, Kauwe, Grant et al. · 2023 · Nature Neuroscience
67. SARS-CoV-2 receptor and entry genes are expressed by sustentacular cells in the human olfactory neuroepithelium
    Fodoulian, Leon, Tuberosa, Joel, Rossier, Daniel, Boillat, Madlaina, Kan, Chenda, Pauli, Véronique, Egervari, Kristof, Lobrinus, Johannes A., Landis, Basile N., Carleton, Alan et al. · 2020
68. Heterogeneity in old fibroblasts is linked to variability in reprogramming and wound healing
    Mahmoudi, Salah, Mancini, Elena, Xu, Lucy, Moore, Alessandra, Jahanbani, Fereshteh, Hebestreit, Katja, Srinivasan, Rajini, Li, Xiyan, Devarajan, Keerthana, Prélot, Laurie et al. · 2019 · Nature
69. Human neocortical expansion involves glutamatergic neuron diversification
    Berg, Jim, Sorensen, Staci A., Ting, Jonathan T., Miller, Jeremy A., Chartrand, Thomas, Buchin, Anatoly, Bakken, Trygve E., Budzillo, Agata, Dee, Nick, Ding, Song-Lin et al. · 2021 · Nature
70. Single-cell brain organoid screening identifies developmental defects in autism
    Li, Chong, Fleck, Jonas Simon, Martins-Costa, Catarina, Burkard, Thomas R., Themann, Jan, Stuempflen, Marlene, Peer, Angela Maria, Vertesy, Ábel, Littleboy, Jamie B., Esk, Christopher et al. · 2023 · Nature
71. Single-cell sequencing techniques from individual to multiomics analyses
    Kashima, Yukie, Sakamoto, Yoshitaka, Kaneko, Keiya, Seki, Masahide, Suzuki, Yutaka, Suzuki, Ayako · 2020 · Experimental &amp; Molecular Medicine
72. Three-dimensional human alveolar stem cell culture models reveal infection response to SARS-CoV-2
    Youk, Jeonghwan, Kim, Taewoo, Evans, Kelly V., Jeong, Young-Il, Hur, Yongsuk, Hong, Seon Pyo, Kim, Je Hyoung, Yi, Kijong, Kim, Su Yeon, Na, Kwon Joong et al. · 2020 · Cell Stem Cell
73. BANKSY unifies cell typing and tissue domain segmentation for scalable spatial omics data analysis
    Singhal, Vipul, Chou, Nigel, Lee, Joseph, Yue, Yifei, Liu, Jinyue, Chock, Wan Kee, Lin, Li, Chang, Yun-Ching, Teo, Erica Mei Ling, Aow, Jonathan et al. · 2024 · Nature Genetics
74. Transplantation of chemically induced pluripotent stem-cell-derived islets under abdominal anterior rectus sheath in a type 1 diabetes patient.
    Wang, Shusen, Du, Yuanyuan, Zhang, Boya, Meng, Gaofan, Liu, Zewen, Liew, Soon Yi, Liang, Rui, Zhang, Zhengyuan, Cai, Xiangheng, Wu, Shuangshuang et al. · 2024 · Cell
75. Neuronal diversity and convergence in a visual system developmental atlas
    Özel, Mehmet Neset, Simon, Félix, Jafari, Shadi, Holguera, Isabel, Chen, Yen-Chung, Benhra, Najate, El-Danaf, Rana Naja, Kapuralin, Katarina, Malin, Jennifer Amy, Konstantinides, Nikolaos et al. · 2021 · Nature
76. Targeted Perturb-seq enables genome-scale genetic screens in single cells
    Schraivogel, Daniel, Gschwind, Andreas R., Milbank, Jennifer H., Leonce, Daniel R., Jakob, Petra, Mathur, Lukas, Korbel, Jan O., Merten, Christoph A., Velten, Lars, Steinmetz, Lars M. · 2020 · Nature Methods
77. Conservation and divergence of cortical cell organization in human and mouse revealed by MERFISH
    Fang, Rongxin, Xia, Chenglong, Close, Jennie L., Zhang, Meng, He, Jiang, Huang, Zhengkai, Halpern, Aaron R., Long, Brian, Miller, Jeremy A., Lein, Ed S. et al. · 2022 · Science
78. Multimodal pooled Perturb-CITE-seq screens in patient models define mechanisms of cancer immune evasion
    Frangieh, Chris J., Melms, Johannes C., Thakore, Pratiksha I., Geiger-Schuller, Kathryn R., Ho, Patricia, Luoma, Adrienne M., Cleary, Brian, Jerby-Arnon, Livnat, Malu, Shruti, Cuoco, Michael S. et al. · 2021 · Nature Genetics
79. The CD155/TIGIT axis promotes and maintains immune evasion in neoantigen-expressing pancreatic cancer
    Freed-Pastor, William A., Lambert, Laurens J., Ely, Zackery A., Pattada, Nimisha B., Bhutkar, Arjun, Eng, George, Mercer, Kim L., Garcia, Ana P., Lin, Lin, Rideout, William M. et al. · 2021 · Cancer Cell
80. DestVI identifies continuums of cell types in spatial transcriptomics data
    Lopez, Romain, Li, Baoguo, Keren-Shaul, Hadas, Boyeau, Pierre, Kedmi, Merav, Pilzer, David, Jelinski, Adam, Yofe, Ido, David, Eyal, Wagner, Allon et al. · 2022 · Nature Biotechnology
81. SARS-CoV-2 mRNA vaccination induces functionally diverse antibodies to NTD, RBD, and S2
    Amanat, Fatima, Thapa, Mahima, Lei, Tinting, Ahmed, Shaza M. Sayed, Adelsberg, Daniel C., Carreño, Juan Manuel, Strohmeier, Shirin, Schmitz, Aaron J., Zafar, Sarah, Zhou, Julian Q. et al. · 2021 · Cell
82. Spatially resolved single-cell genomics and transcriptomics by imaging
    Zhuang, Xiaowei · 2021 · Nature Methods
83. Brain expression quantitative trait locus and network analyses reveal downstream effects and putative drivers for brain-related diseases
    de Klein, Niek, Tsai, Ellen A., Vochteloo, Martijn, Baird, Denis, Huang, Yunfeng, Chen, Chia-Yen, van Dam, Sipko, Oelen, Roy, Deelen, Patrick, Bakker, Olivier B. et al. · 2023 · Nature Genetics
84. Novel antigen-presenting cell imparts Treg-dependent tolerance to gut microbiota
    Akagbosu, Blossom, Tayyebi, Zakieh, Shibu, Gayathri, Paucar Iza, Yoselin A., Deep, Deeksha, Parisotto, Yollanda Franco, Fisher, Logan, Pasolli, H. Amalia, Thevin, Valentin, Elmentaite, Rasa et al. · 2022 · Nature
85. Single-cell technologies in hepatology: new insights into liver biology and disease pathogenesis
    Ramachandran, Prakash, Matchett, Kylie P., Dobie, Ross, Wilson-Kanamori, John R., Henderson, Neil C. · 2020 · Nature Reviews Gastroenterology &amp; Hepatology
86. Cell type prioritization in single-cell data
    Skinnider, Michael A., Squair, Jordan W., Kathe, Claudia, Anderson, Mark A., Gautier, Matthieu, Matson, Kaya J. E., Milano, Marco, Hutson, Thomas H., Barraud, Quentin, Phillips, Aaron A. et al. · 2021 · Nature Biotechnology
87. HypoMap—a unified single-cell gene expression atlas of the murine hypothalamus
    Steuernagel, Lukas, Lam, Brian Y. H., Klemm, Paul, Dowsett, Georgina K. C., Bauder, Corinna A., Tadross, John A., Hitschfeld, Tamara Sotelo, del Rio Martin, Almudena, Chen, Weiyi, de Solis, Alain J. et al. · 2022 · Nature Metabolism
88. Stem-like intestinal Th17 cells give rise to pathogenic effector T cells during autoimmunity
    Schnell, Alexandra, Huang, Linglin, Singer, Meromit, Singaraju, Anvita, Barilla, Rocky M., Regan, Brianna M.L., Bollhagen, Alina, Thakore, Pratiksha I., Dionne, Danielle, Delorey, Toni M. et al. · 2021 · Cell
89. Characterizing the molecular regulation of inhibitory immune checkpoints with multimodal single-cell screens
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90. Simultaneous trimodal single-cell measurement of transcripts, epitopes, and chromatin accessibility using TEA-seq
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