Comprehensive Classification of Retinal Bipolar Neurons by Single-Cell Transcriptomics

Shekhar, Karthik, Lapan, Sylvain W., Whitney, Irene E., Tran, Nicholas M., Macosko, Evan Z., Kowalczyk, Monika, Adiconis, Xian, Levin, Joshua Z. +6 more·2016·Cell

Cited by (1,000)

Items 201–300 of 1,000

  1. Functional and anatomical specificity in a higher olfactory centre
    Frechter, Shahar, Bates, Alexander Shakeel, Tootoonian, Sina, Dolan, Michael-John, Manton, James, Jamasb, Arian Rokkum, Kohl, Johannes, Bock, Davi, Jefferis, Gregory · 2019 · eLife
  2. Feature Detection by Retinal Ganglion Cells
    Daniel Kerschensteiner · 2022 · Annual Review of Vision Science
  3. Zero-preserving imputation of scRNA-seq data using low-rank approximation
    George C. Linderman, Jun Zhao, Yuval Kluger · 2018 · bioRxiv (Cold Spring Harbor Laboratory)
  4. Cross-Species Analysis of Single-Cell Transcriptomic Data
    Maxwell E. R. Shafer · 2019 · Frontiers in Cell and Developmental Biology
  5. Effects of 3D culturing conditions on the transcriptomic profile of stem-cell-derived neurons
    Halil Tekin, Sean Simmons, Beryl B. Cummings, Linyi Alex Gao, Xian Adiconis, Cynthia C. Hession, Ayan Ghoshal, Danielle Ashley Dionne, Sourav Choudhury, Volkan Yesilyurt et al. · 2018 · Nature Biomedical Engineering
  6. Cell-Type-Specific Complement Expression in the Healthy and Diseased Retina
    Diana Pauly, Divyansh Agarwal, Nicholas Dana, Nicole Schäfer, Josef Biber, Kirsten A. Wunderlich, Yassin Jabri, Tobias Straub, Nancy Ruonan Zhang, Avneesh Kumar Gautam et al. · 2019 · Cell Reports
  7. A Single Cell but Many Different Transcripts: A Journey into the World of Long Non-Coding RNAs
    Enrico Alessio, Raphael Severino Bonadio, Lisa Buson, Francesco Chemello, Stefano Cagnin · 2020 · International Journal of Molecular Sciences
  8. Single cell transcriptomics in neuroscience: cell classification and beyond
    Tasic, Bosiljka · 2018 · Current Opinion in Neurobiology
  9. Cell-Specific Transcriptome Analysis Shows That Adult Pillar and Deiters' Cells Express Genes Encoding Machinery for Specializations of Cochlear Hair Cells
    Huizhan Liu, Lei Chen, Kimberlee P. Giffen, Sean T. Stringham, Yi Li, Paul D. Judge, Kirk W. Beisel, David Z. Z. He · 2018 · Frontiers in Molecular Neuroscience
  10. Investigating cone photoreceptor development using patient-derived NRL null retinal organoids
    Alyssa Kallman, Elizabeth E. Capowski, Jie Wang, Aniruddha M. Kaushik, Alex D. Jansen, Kimberly L. Edwards, Liben Chen, Cynthia A. Berlinicke, M. Joseph Phillips, Eric A. Pierce et al. · 2020 · Communications Biology
  11. Endothelial cell heterogeneity and microglia regulons revealed by a pig cell landscape at single-cell level
    Fei Wang, Peiwen Ding, Xue Liang, Xiangning Ding, Camilla Blunk Brandt, Evelina Sjöstedt, Jiacheng Zhu, Saga Bolund, Lijing Zhang, Laura P. M. H. de Rooij et al. · 2022 · Nature Communications
  12. Cortical Neural Stem Cell Lineage Progression Is Regulated by Extrinsic Signaling Molecule Sonic Hedgehog
    Yue Zhang, Guoping Liu, Teng Guo, Xiaoyi G. Liang, Heng Du, Lin Yang, Aparna Bhaduri, Xiaosu Li, Zhejun Xu, Zhuangzhi Zhang et al. · 2020 · Cell Reports
  13. Structure-preserving visualisation of high dimensional single-cell datasets
    Benjamin Szubert, Jennifer E. Cole, Claudia Gianini Monaco, Ignat A. Drozdov · 2019 · Scientific Reports
  14. Nucleome Dynamics during Retinal Development
    Jacqueline L. Norrie, Marybeth S. Lupo, Beisi Xu, Issam Aldiri, Marc B. Valentine, Daniel K. Putnam, Lyra M. Griffiths, Jiakun Zhang, Dianna A. Johnson, John B. Easton et al. · 2019 · Neuron
  15. Dyslipidemia in retinal metabolic disorders
    Zhongjie Fu, Chuck T. Chen, Gaël Cagnone, Émilie Heckel, Ye Sun, Bertan Cakir, Yohei Tomita, Shuo Huang, Qian Li, William R. Britton et al. · 2019 · EMBO Molecular Medicine
  16. Combinatorial prediction of marker panels from single‐cell transcriptomic data
    Conor Delaney, Alexandra Schnell, Louis V. Cammarata, Aaron Yao-Smith, Aviv Regev, Vijay Kumar Kuchroo, Meromit Singer · 2019 · Molecular Systems Biology
  17. Single-cell transcriptomic analysis of adult mouse pituitary reveals sexual dimorphism and physiologic demand-induced cellular plasticity
    Yugong Ho, Peng Hu, Michael T. Peel, Sixing Chen, Pablo G. Cámara, Douglas J. Epstein, Hao Wu, Stephen A. Liebhaber · 2020 · Protein & Cell
  18. Endocrine lineage biases arise in temporally distinct endocrine progenitors during pancreatic morphogenesis
    Marissa A. Scavuzzo, Matthew C. Hill, Jolanta Chmielowiec, Diane Yang, Jessica Teaw, Kuanwei Sheng, Yuelin Kong, Maria Bettini, Chenghang Chuck Zong, James F. Martin et al. · 2018 · Nature Communications
  19. Comprehensive single-cell atlas of the mouse retina
    Jin Li, Jongsu Choi, Xuesen Cheng, Justin Ma, Shahil P. Pema, Joshua R. Sanes, Graeme Mardon, Benjamin J. Frankfort, Nicholas M. Tran, Yumei Li et al. · 2024 · iScience
  20. Developmental and genetic mechanisms of neural circuit evolution
    Maria Antonietta Tosches · 2017 · Developmental Biology
  21. Role for Wnt Signaling in Retinal Neuropil Development: Analysis via RNA-Seq and In Vivo Somatic CRISPR Mutagenesis
    Sumeet Sarin, Elizabeth Zuniga-Sanchez, Yerbol Z. Kurmangaliyev, Henry C. Cousins, Mili Patel, Jeanette Hernandez, Kelvin Xi Zhang, Melanie A. Samuel, Marta Morey, Joshua R. Sanes et al. · 2018 · Neuron
  22. Learning interpretable cellular and gene signature embeddings from single-cell transcriptomic data
    Yifan Zhao, Huiyu Cai, Zuobai Zhang, Jian Tang, Yue Li · 2021 · Nature Communications
  23. Organoid single cell profiling identifies a transcriptional signature of glomerular disease
    Jennifer L. Harder, Rajasree Menon, Edgar A. Otto, Jian Zhou, Sean F. Eddy, Noel L. Wys, Christopher Lund O'Connor, Jinghui Luo, Viji Nair, Cristina Cebrián et al. · 2019 · JCI Insight
  24. Mapping human cell phenotypes to genotypes with single-cell genomics
    J. Gray Camp, Randall J. Platt, Barbara Treutlein · 2019 · Science
  25. Large-scale reconstruction of cell lineages using single-cell readout of transcriptomes and CRISPR–Cas9 barcodes by scGESTALT
    Bushra Raj, James A. Gagnon, Alexander F. Schier · 2018 · Nature Protocols
  26. Microfluidics for Neuronal Cell and Circuit Engineering
    Rouhollah Habibey, Jesús Eduardo Rojo Arias, Johannes Striebel, Volker Busskamp · 2022 · Chemical Reviews
  27. Continuous Variation within Cell Types of the Nervous System
    Mark S. Cembrowski, Vilas Menon · 2018 · Trends in Neurosciences
  28. Single-Cell Multi-omics: An Engine for New Quantitative Models of Gene Regulation
    Jonathan S. Packer, Cole Trapnell · 2018 · Trends in Genetics
  29. Neural circuit basis of placebo pain relief
    Chong Chen, Jesse K. Niehaus, Fatih Dinç, Karen L. Huang, Alexander L. Barnette, Adrien Tassou, S. Andrew Shuster, Lihua Wang, Andrew L. Lemire, Vilas Menon et al. · 2024 · Nature
  30. Leveraging Zebrafish to Study Retinal Degenerations
    Juan Manuel Angueyra, Katie S. Kindt · 2018 · Frontiers in Cell and Developmental Biology
  31. Integrated analysis of single cell transcriptomic data across conditions, technologies, and species
    Butler, Andrew, Satija, Rahul · 2017
  32. Selecting single cell clustering parameter values using subsampling-based robustness metrics
    Ryan B. Patterson Cross, Ariel J. Levine, Vilas Menon · 2021 · BMC Bioinformatics
  33. Single-cell RNA sequencing in facioscapulohumeral muscular dystrophy disease etiology and development
    Anita van den Heuvel, Ahmed Essam Mahfouz, Susan L. Kloet, Judit Balog, Baziel G.M. van Engelen, Rabi Tawil, Stephen J. Tapscott, Silvère M. van der Maarel · 2018 · Human Molecular Genetics
  34. Single-cell genomics to guide human stem cell and tissue engineering
    J. Gray Camp, Damian Wollny, Barbara Treutlein · 2018 · Nature Methods
  35. The State of the NIH BRAIN Initiative
    Walter J. Koroshetz, Joshua A. Gordon, Amy Bany Adams, Andrea C. Beckel-Mitchener, James D. Churchill, Gregory K. Farber, Michelle P. Freund, Jim Gnadt, Nina S. Hsu, Nicholas B. Langhals et al. · 2018 · Journal of Neuroscience
  36. Batch alignment of single-cell transcriptomics data using deep metric learning
    Xiaokang Yu, Xinyi Xu, Jingxiao Zhang, Xiangjie Li · 2023 · Nature Communications
  37. scID Uses Discriminant Analysis to Identify Transcriptionally Equivalent Cell Types across Single-Cell RNA-Seq Data with Batch Effect
    Katerina Boufea, Sohan Seth, Nizar N. Batada · 2020 · iScience
  38. Single-Cell Classification Using Mass Spectrometry through Interpretable Machine Learning
    Yuxuan Richard Xie, Daniel C. Castro, Sara E. Bell, Stanislav S. Rubakhin, Jonathan V. Sweedler · 2020 · Analytical Chemistry
  39. Molecular identity of human limbal heterogeneity involved in corneal homeostasis and privilege
    Shengqian Dou, Qun Wang, Xia Qi, Bin Zhang, Hui Jiang, Shengwen Chen, Haoyun Duan, Yao Lu, Jiaoyang Dong, Yihai Cao et al. · 2021 · The Ocular Surface
  40. Biology-inspired data-driven quality control for scientific discovery in single-cell transcriptomics
    Ayshwarya Subramanian, Mikhail Alperovich, Yiming Yang, Bo Li · 2022 · Genome biology
  41. Diversity of oligodendrocytes and their progenitors
    Leda Dimou, Mikael Simons · 2017 · Current Opinion in Neurobiology
  42. A single-cell transcriptomic atlas of the developing chicken limb
    Christian Feregrino, Fabio Sacher, Oren Parnas, Patrick Tschopp · 2019 · BMC Genomics
  43. Single cell RNA sequencing (scRNA-Seq) deciphering pathological alterations in streptozotocin-induced diabetic retinas
    Licheng Sun, Ruonan Wang, Guangyi Hu, Huazhen Liu, Kangjia Lv, Yi Duan, Ning Shen, Jiali Wu, Jing Hu, Yujuan Liu et al. · 2021 · Experimental Eye Research
  44. GiniClust2: a cluster-aware, weighted ensemble clustering method for cell-type detection
    Daphne M. Tsoucas, Guo‐Cheng Yuan · 2018 · Genome biology
  45. Transsynaptic Binding of Orphan Receptor GPR179 to Dystroglycan-Pikachurin Complex Is Essential for the Synaptic Organization of Photoreceptors
    Cesare Orlandi, Yoshihiro Omori, Yuchen Wang, Yan Cao, Akiko M. Ueno, Michel Joseph Roux, Giuseppe Condomitti, Joris de Wit, Motoi Kanagawa, Takahisa Furukawa et al. · 2018 · Cell Reports
  46. Brain Transcriptome Databases: A User's Guide
    Jason M. Keil, Adel Qalieh, Kenneth Y. Kwan · 2018 · Journal of Neuroscience
  47. Postnatal Alveologenesis Depends on FOXF1 Signaling in c-KIT+ Endothelial Progenitor Cells
    Xiaomeng Ren, Vladimir Ustiyan, Minzhe Guo, Guolun Wang, Craig Bolte, Yufang Zhang, Yan Juan Xu, Jeffrey A. Whitsett, Tanya V. Kalin, Vladimir V. Kalinichenko · 2019 · American Journal of Respiratory and Critical Care Medicine
  48. A statistical simulator scDesign for rational scRNA-seq experimental design
    Wei Vivian Li, Jingyi Jessica Li · 2019 · Bioinformatics
  49. Light-Seq: light-directed in situ barcoding of biomolecules in fixed cells and tissues for spatially indexed sequencing
    Jocelyn Y. Kishi, Ninning Liu, Emma R. West, Kuanwei Sheng, Jack J. Jordanides, Matthew P. Serrata, Constance L. Cepko, Sinem K. Saka, Peng Yin · 2022 · Nature Methods
  50. Clustering single cells: a review of approaches on high-and low-depth single-cell RNA-seq data
    Vilas Menon · 2017 · Briefings in Functional Genomics
  51. SuperCT: a supervised-learning framework for enhanced characterization of single-cell transcriptomic profiles
    Xie, Peng, Gao, Mingxuan, Wang, Chunming, Zhang, Jianfei, Noel, Pawan, Yang, Chaoyong, Von Hoff, Daniel, Han, Haiyong, Zhang, Michael Q, Lin, Wei · 2019 · Nucleic Acids Research
  52. The promise of single-cell RNA sequencing for kidney disease investigation
    Hao Wu, Benjamin D. Humphreys · 2017 · Kidney International
  53. Deep learning tackles single-cell analysis—a survey of deep learning for scRNA-seq analysis
    Mario A. Flores, Zhentao Liu, Tinghe Zhang, Md Musaddaqui Hasib, Yu‐Chiao Chiu, Zhenqing Ye, Karla Paniagua, Sumin Jo, Jianqiu Zhang, Shou‐Jiang Gao et al. · 2021 · Briefings in Bioinformatics
  54. Insulin-like Growth Factor 1 Supports a Pulmonary Niche that Promotes Type 3 Innate Lymphoid Cell Development in Newborn Lungs
    Katherine Oherle, Elizabeth Acker, Madeline Bonfield, Timothy Wang, Jerilyn K. Gray, Ian Lang, James P. Bridges, Ian Paul Lewkowich, Yan Juan Xu, Shawn K. Ahlfeld et al. · 2020 · Immunity
  55. Single-cell RNA-seq clustering: datasets, models, and algorithms
    Lihong Peng, Xiongfei Tian, Geng Tian, Junlin Xu, Xin Huang, Yanbin Weng, Jialiang Yang, Liqian Zhou · 2020 · RNA Biology
  56. Single-cell transcriptomics of the developing lateral geniculate nucleus reveals insights into circuit assembly and refinement
    Brian Thomas Kalish, Lucas Cheadle, Siniša Hrvatin, M. Aurel Nagy, Samuel A. Rivera, Megan Crow, Jesse A Gillis, Rory D. Kirchner, Michael E. Greenberg · 2018 · Proceedings of the National Academy of Sciences
  57. The Human Cell Atlas
    Aviv Regev, Sarah Amalia Teichmann, Eric S. Lander, Ido Amit, Christophe O. Benoist, Ewan Birney, Bernd Bodenmiller, Peter J. Campbell, Piero Carninci, Menna Ruth Clatworthy et al. · 2017 · bioRxiv (Cold Spring Harbor Laboratory)
  58. Adult Human Glioblastomas Harbor Radial Glia-like Cells
    Rong Wang, Roshan Sharma, Xiaojuan Shen, Ashley Marie Laughney, Kosuke Funato, Philip J. Clark, Monika Shpokayte, Peter F. Morgenstern, Monalisa Navare, Yichi Xu et al. · 2020 · Stem Cell Reports
  59. Single-cell analysis reveals inflammatory interactions driving macular degeneration
    Manik Razdan Kuchroo, Marcello DiStasio, Eric Song, Eda Calapkulu, Le Zhang, Maryam Ige, Amar H. Sheth, Abdelilah Majdoubi, Madhvi Menon, Alexander Tong et al. · 2023 · Nature Communications
  60. Diversification of multipotential postmitotic mouse retinal ganglion cell precursors into discrete types
    Shekhar, Karthik, Whitney, Irene E, Butrus, Salwan, Peng, Yi-Rong, Sanes, Joshua R · 2022 · eLife
  61. Spatial transcriptome profiling by MERFISH reveals fetal liver hematopoietic stem cell niche architecture
    Yanfang Lu, Miao Liu, Jennifer Yang, Sherman M. Weissman, Xinghua Pan, Samuel G. Katz, Siyuan Wang · 2021 · Cell Discovery
  62. Single-cell transcriptome analysis of regenerating RGCs reveals potent glaucoma neural repair genes
    Liang Li, Fang Fang, Xue Feng, Pei Zhuang, Haoliang Huang, Pingting Liu, Liang Liu, Adam Z Xu, Lei S. Qi, Le Cong et al. · 2022 · Neuron
  63. A single-cell transcriptome atlas of glial diversity in the human hippocampus across the postnatal lifespan
    Su, Yijing, Zhou, Yi, Bennett, Mariko L., Li, Shiying, Carceles-Cordon, Marc, Lu, Lu, Huh, Sooyoung, Jimenez-Cyrus, Dennisse, Kennedy, Benjamin C., Kessler, Sudha K. et al. · 2022 · Cell Stem Cell
  64. Retinal organoids on-a-chip: a micro-millifluidic bioreactor for long-term organoid maintenance
    Xue, Yuntian, Seiler, Magdalene J., Tang, William C., Wang, Jasmine Y., Delgado, Jeffrey, McLelland, Bryce T., Nistor, Gabriel, Keirstead, Hans S., Browne, Andrew W. · 2021 · Lab on a Chip
  65. Spatial organization of the mouse retina at single cell resolution by MERFISH
    Jongsu Choi, Jin Li, Salma Ferdous, Qingnan Liang, Jeffrey R. Moffitt, Rui Chen · 2023 · Nature Communications
  66. Fasting reshapes tissue-specific niches to improve NK cell-mediated anti-tumor immunity
    Rebecca B. Delconte, Mark Owyong, Endi K. Santosa, Katja Srpan, Sam Sheppard, Tomi J. McGuire, Aamna J. Abbasi, Carlos Díaz-Salazar, Jerold J. M. Chun, Inez Rogatsky et al. · 2024 · Immunity
  67. Fluorescent analysis of bioactive molecules in single cells based on microfluidic chips
    Yuanyuan Fan, Defang Dong, Qingling Li, Haibin Si, Haimeng Pei, Li Lu, Bo Tang · 2018 · Lab on a Chip
  68. Optic nerve regeneration screen identifies multiple genes restricting adult neural repair
    Jane A. Lindborg, Nicholas M. Tran, Devon M. Chenette, Kristin DeLuca, Yram Foli, Ramakrishnan Kannan, Yuichi Sekine, Xingxing Wang, Marius Wollan, In-Jung Kim et al. · 2021 · Cell Reports
  69. Automatic cell type identification methods for single-cell RNA sequencing
    Xie, Bingbing, Jiang, Qin, Mora, Antonio, Li, Xuri · 2021 · Computational and Structural Biotechnology Journal
  70. Single-Cell Transcriptomics in Cancer Immunobiology: The Future of Precision Oncology
    Fátima Valdés‐Mora, Kristina Handler, Andrew M. K. Law, Robert Salomon, Samantha Richelle Oakes, Christopher John Ormandy, David Gallego‐Ortega · 2018 · Frontiers in Immunology
  71. On and off signaling pathways in the retina and the visual system
    Tomomi Ichinose, Samar Habib · 2022 · Frontiers in Ophthalmology
  72. A Modular Organization of LRR Protein-Mediated Synaptic Adhesion Defines Synapse Identity.
    A. Schroeder, Jeroen Vanderlinden, K. Vints, Luís F. Ribeiro, Kristel M. Vennekens, Natalia V. Gounko, Keimpe D. Wierda, J. de Wit · 2018 · Neuron
  73. Subcellular proteomics of dopamine neurons in the mouse brain
    Benjamin D. Hobson, Se Joon Choi, Eugene V Mosharov, Rajesh K Soni, David Sulzer, Peter A. Sims · 2022 · eLife
  74. Bi-order multimodal integration of single-cell data
    Jinzhuang Dou, Shaoheng Liang, Vakul Mohanty, Qi Miao, Yuefan Huang, Qingnan Liang, Xuesen Cheng, Sangbae Kim, Jongsu Choi, Yumei Li et al. · 2022 · Genome biology
  75. Single cell transcriptomics reveals lineage trajectory of retinal ganglion cells in wild-type and Atoh7-null retinas
    Fuguo Wu, Jonathan Bard, Julien Kann, Donald Albert Yergeau, Darshan Sapkota, Yichen Ge, Zihua Hu, Jie Wang, Tao Liu, Xiuqian Mu · 2021 · Nature Communications
  76. Monocyte-derived SDF1 supports optic nerve regeneration and alters retinal ganglion cells’ response to Pten deletion
    Lili Xie, Ling‐Ping Cen, Yiqing Li, Hui-ya Gilbert, Oleksandr Strelko, Cynthia A. Berlinicke, Mihaela A. Stavarache, Madeline Ma, Yongting Wang, Qi Cui et al. · 2022 · Proceedings of the National Academy of Sciences
  77. Advances and applications in single-cell and spatial genomics
    Jingjing Wang, Fang Ye, Haoxi Chai, Yujia Jiang, Teng Wang, Xia Ran, Qimin Xia, Ziye Xu, Yuting Fu, Guodong Zhang et al. · 2024 · Science China Life Sciences
  78. Single-cell transcriptional logic of cell-fate specification and axon guidance in early born retinal neurons
    Quentin Lo Giudice, Marion Leleu, Gioele La Manno, Pierre J. Fabre · 2019 · Development
  79. Molecular signatures of retinal ganglion cells revealed through single cell profiling
    Lauren A. Laboissonniere, Jillian J. Goetz, Gregory M. Martin, Ran Bi, Terry J. S. Lund, Laura Ellson, Madison R. Lynch, Bailey Mooney, Hannah Wickham, Peng Liu et al. · 2019 · Scientific Reports
  80. A single-cell and single-nucleus RNA-seq toolbox for fresh and frozen human tumors
    Michal Slyper, Caroline B. M. Porter, Orr Ashenberg, Julia Waldman, Eugene Drokhlyansky, Isaac Wakiro, Christopher S. Smillie, Gabriela Smith-Rosario, Jingyi Wu, Danielle Ashley Dionne et al. · 2019 · bioRxiv (Cold Spring Harbor Laboratory)
  81. Limitations and Promise of Retinal Tissue From Human Pluripotent Stem Cells for Developing Therapies of Blindness
    Ratnesh Kumar Singh, Igor O. Nasonkin · 2020 · Frontiers in Cellular Neuroscience
  82. Mafb and c-Maf Have Prenatal Compensatory and Postnatal Antagonistic Roles in Cortical Interneuron Fate and Function
    Emily Ling-Lin Pai, Daniel L. Vogt, Alexandra Clemente-Perez, Gabriel L. McKinsey, Frances S. Cho, Jia Sheng Hu, Matthew Wimer, Anirban Paul, Siavash Fazel Darbandi, Ramón Pla et al. · 2019 · Cell Reports
  83. Genetic Single Neuron Anatomy Reveals Fine Granularity of Cortical Axo-Axonic Cells
    Wang, Xiaojun, Tucciarone, Jason, Jiang, Siqi, Yin, Fangfang, Wang, Bor-Shuen, Wang, Dingkang, Jia, Yao, Jia, Xueyan, Li, Yuxin, Yang, Tao et al. · 2019 · Cell Reports
  84. Single-cell RNA sequencing in vision research: Insights into human retinal health and disease
    Andrew P. Voigt, Nathaniel K. Mullin, Edwin M. Stone, Budd A. Tucker, Todd E. Scheetz, Robert F. Mullins · 2020 · Progress in Retinal and Eye Research
  85. Molecular codes for cell type specification in Brn3 retinal ganglion cells
    Szilard Sajgo, Miruna Georgiana Ghinia Tegla, Matthew Brooks, Friedrich Kretschmer, Katherine Chuang, Suja Hiriyanna, Zhijian Wu, Octavian Popescu, Tudor C. Badea · 2017 · Proceedings of the National Academy of Sciences
  86. Cell type discovery using single-cell transcriptomics: implications for ontological representation
    Brian D. Aevermann, Mark A. Novotny, Trygve E. Bakken, Jeremy A. Miller, Alexander D. Diehl, David Osumi-Sutherland, Roger S. Lasken, Ed S. Lein, Richard H. Scheuermann · 2018 · Human Molecular Genetics
  87. openTSNE : A Modular Python Library for t-SNE Dimensionality Reduction and Embedding
    Pavlin G. Poličar, Martin Stražar, Blaž Zupan · 2024 · Journal of Statistical Software
  88. An interpretable deep-learning architecture of capsule networks for identifying cell-type gene expression programs from single-cell RNA-sequencing data
    Wang, Lifei, Nie, Rui, Yu, Zeyang, Xin, Ruyue, Zheng, Caihong, Zhang, Zhang, Zhang, Jiang, Cai, Jun · 2020 · Nature Machine Intelligence
  89. Human Organoids for the Study of Retinal Development and Disease
    Claire M. Bell, Donald J. Zack, Cynthia A. Berlinicke · 2020 · Annual Review of Vision Science
  90. A multi-omics atlas of the human retina at single-cell resolution
    Qingnan Liang, Xuesen Cheng, Jun Wang, Leah A. Owen, Akbar Shakoor, John L. Lillvis, Charles Zhang, Michael H. Farkas, Ivana K. Kim, Yumei Li et al. · 2023 · Cell Genomics
  91. Homeostatic Plasticity Shapes Cell-Type-Specific Wiring in the Retina
    Nai-Wen Tien, Florentina Soto, Daniel Kerschensteiner · 2017 · Neuron
  92. Lipid Analysis of 30 000 Individual Rodent Cerebellar Cells Using High-Resolution Mass Spectrometry
    Elizabeth K. Neumann, Joanna F. Ellis, Amelia E. Triplett, Stanislav S. Rubakhin, Jonathan V. Sweedler · 2019 · Analytical Chemistry
  93. Single-Cell Profiling and SCOPE-Seq Reveal Lineage Dynamics of Adult Ventricular-Subventricular Zone Neurogenesis and NOTUM as a Key Regulator
    Doğukan Mizrak, Nermin Sumru Bayin, Jinzhou Yuan, Zhouzerui Liu, Radu M. Suciu, Micah J. Niphakis, Nhi Ngo, Kenneth M. Lum, Benjamin F. Cravatt, Alexandra L. Joyner et al. · 2020 · Cell Reports
  94. Soluble CX3CL1 gene therapy improves cone survival and function in mouse models of retinitis pigmentosa
    Sean K. Wang, Yunlu Xue, Parimal C. Rana, Christin M. Hong, Constance L. Cepko · 2019 · Proceedings of the National Academy of Sciences
  95. Synapse type-specific proteomic dissection identifies IgSF8 as a hippocampal CA3 microcircuit organizer
    Nuno Apóstolo, Samuel N. Smukowski, Jeroen Vanderlinden, Giuseppe Condomitti, Vasily Rybakin, Jolijn ten Bos, Laura Trobiani, Sybren Portegies, Kristel M. Vennekens, Natalia V. Gounko et al. · 2020 · Nature Communications
  96. Rod and cone interactions in the retina
    Gordon Fain, Alapakkam P. Sampath · 2018 · F1000Research
  97. Deciphering Brain Complexity using Single-Cell Sequencing
    Quanhua Mu, Yiyun Chen, Jiguang Wang · 2019 · Genomics Proteomics & Bioinformatics
  98. TCF21+ mesenchymal cells contribute to testis somatic cell development, homeostasis, and regeneration in mice
    Yu-chi Shen, Adrienne Niederriter Shami, Lindsay Moritz, Hailey Larose, Gabriel L. Manske, Qianyi Ma, Xianing Zheng, Meena Sukhwani, Michael J. Czerwinski, Caleb Sultan et al. · 2021 · Nature Communications
  99. Molecular dissection of CD8+ T cell dysfunction
    Chao Wang, Meromit Singer, A. Anderson · 2017 · Trends in immunology
  100. Direction selectivity in retinal bipolar cell axon terminals
    Akihiro Matsumoto, Weaam Agbariah, Stella Solveig Nolte, Rawan Andrawos, Hadara Levi, Shai Sabbah, Keisuke Yonehara · 2021 · Neuron