Combined Single-Cell Functional and Gene Expression Analysis Resolves Heterogeneity within Stem Cell Populations

Wilson, Nicola K., Kent, David G., Buettner, Florian, Shehata, Mona, Macaulay, Iain C., Calero-Nieto, Fernando J., Sánchez Castillo, Manuel, Oedekoven, Caroline A. +9 more·2015·Cell Stem Cell
DOI 10.1016/j.stem.2015.04.004

Cited by (468)

Items 401–468 of 468

  1. Maintenance of haematopoietic stem cells by JAK inhibition and increased tyrosine-unphosphorylated STAT5
    Matthew Williams, Xiaonan Wang, Hugo P. Bastos, Gabriela Grondys-Kotarba, Carys S. Johnson, Nicole Mende, Emily F. Calderbank, Michelle Wantoch, Hyun Jung Park, Qin Wu et al. · 2024 · bioRxiv (Cold Spring Harbor Laboratory)
  2. Semaphorin 4A maintains functional diversity of the hematopoietic stem cell pool
    Dorsa Toghani, Sanika Gupte, Sharon Zeng, Elmir Mahammadov, Edie I. Crosse, Negar Seyedhassantehrani, Christian S. Burns, David M. Gravano, Stefan Radtke, Hans‐Peter Kiem et al. · 2024 · bioRxiv (Cold Spring Harbor Laboratory)
  3. Glycan-Mediated Mechanosensing Regulates Megakaryocyte-Biased Hematopoietic Stem Cell Subsets
    Alejandro Roisman, Leonardo Rivadeneyra, Lindsey R. Conroy, Melissa M. Lee‐Sundlov, Natalia Weich, Simon H. Glabere, Shikan Zheng, Katelyn E. Rosenbalm, Mark Zogg, George Steinhardt et al. · 2025 · bioRxiv (Cold Spring Harbor Laboratory)
  4. Targeting RhoA activity rejuvenates aged hematopoietic stem cells
    Eva Mejía-Ramírez, Pablo Iáñez Picazo, Barbara Walter, Sara Montserrat‐Vazquez, Francesco Affuso, Stefan Wieser, Fabio Pezzano, Loïc Reymond, Jorge Castillo‐Robles, Francesca Matteini et al. · 2025 · bioRxiv (Cold Spring Harbor Laboratory)
  5. Bringing Blood Stem Cell Phenotype, Genotype, and Function Closer Together
    Wenlian Qiao, Peter W. Zandstra · 2015 · Cell stem cell
  6. METHOD Open Access
    Lasse Maretty, Jonas A. Sibbesen, Anders Krogh · 2014
  7. Quo vadis, hematológia?
    Zsolt Matula, Gyöngyi Kudlik, Veronika Urbán S., Ferenc Uher · 2016 · Orvosi Hetilap
  8. The Biology of Hematopoietic Stem Cells: transgenic approaches to Dissect Native and Perturbed Hematopoiesis
    Petter Säwén · 2017 · Lund University Publications (Lund University)
  9. Epigenetic heterogeneity revealed through single-cell DNA methylation sequencing
    Zhao Hui · 2018 · cIRcle (University of British Columbia)
  10. Malaria-induced remodelling of the bone marrow microenvironment mediates loss of haematopoietic stem cell function
    Myriam Luydmila Rachelle Haltalli, Sam Watcham, Nicola K. Wilson, Kira Eilers, Alexander Lipien, Maria L. Vainieri, Nicola Ruivo, Heather Yin-Kuan Ang, Robert E. Sinden, Ken R. Duffy et al. · 2018 · bioRxiv (Cold Spring Harbor Laboratory)
  11. Integrative Modeling and Novel Technologies in Human Genomics
    Paulina Carmona-Mora, Juan I. Young · 2019 · Elsevier eBooks
  12. Characterising the role of Zeb1 in the adult haematopoietic system
    Alhomidi Almotiri · 2019 · ORCA Online Research @Cardiff (Cardiff University)
  13. Low Intracellular Calcium is an Essential Feature of Hematopoietic Stem Cells
    Larry L. Luchsinger, Alexandros Strikoudis, Nichole M. Danzl, Prakesh Satwani, Megan Sykes, Masayuki Yasawa, Hans‐Willem Snoeck · 2018 · SSRN Electronic Journal
  14. The Characterization of Hematopoiesis in Murine Fetal Bone Marrow
    Trent Hall · 2020
  15. Mining old transcriptomes to predict HSC age
    Mathilde Poplineau, Estelle Duprez · 2021 · Blood
  16. p57Kip2 regulates embryonic haematopoietic stem cell numbers by controlling the size of the sympathoadrenal progenitor pool
    Chrysa Kapeni, Leslie Nitsche, Alastair Morris Kilpatrick, Nicola K. Wilson, Kankan Xia, Bahar Mirshekar-Syahkal, Camille Malouf, Berthold Göttgens, Kristina Kirschner, Simon R. Tomlinson et al. · 2021 · bioRxiv (Cold Spring Harbor Laboratory)
  17. Secretory MPP3 Reinforce Myeloid Differentiation Trajectory and Amplify Myeloid Cell Production
    Yoon-A Kang, Hyojung Paik, Si Yi Zhang, Jonathan Chen, Matthew R. Warr, Rong Fan, Emmanuelle A. Passegue · 2021 · SSRN Electronic Journal
  18. RNA targets in cardiac disease
    Joep Eding · 2022
  19. Faculty Opinions recommendation of From haematopoietic stem cells to complex differentiation landscapes.
    Simón Méndez‐Ferrer · 2020 · Faculty Opinions – Post-Publication Peer Review of the Biomedical Literature
  20. Faculty Opinions recommendation of Single-cell transcriptional analysis reveals ILC-like cells in zebrafish.
    Dale T. Umetsu · 2018 · Faculty Opinions – Post-Publication Peer Review of the Biomedical Literature
  21. Faculty Opinions recommendation of Single-cell transcriptional analysis reveals ILC-like cells in zebrafish.
    Serge Mostowy, Margarida Castro Gomes · 2019 · Faculty Opinions – Post-Publication Peer Review of the Biomedical Literature
  22. Adult Hematopoiesis
    David G. Kent, Connie J. Eaves · 2016 · Elsevier eBooks
  23. Differentiation latency, cell division symmetry, and dormancy signatures define fetal liver HSCs at single cell resolution
    Takashi Ishida, Juliane I Mercoli, Adam M. Heck, Ian G. Phelps, Barbara Varnum‐Finney, Stacey Dozono, Cynthia Nourigat-Mckay, Katie Kraskouskas, Rachel Wellington, Olivia G. Waltner et al. · 2023 · bioRxiv (Cold Spring Harbor Laboratory)
  24. Differentiation Latency and Dormancy Signatures Define Fetal Liver HSCs at Single Cell Resolution
    Takashi Ishida, Adam M. Heck, Barbara Varnum‐Finney, Stacey Dozono, Cynthia Nourigat-Mckay, Katie Kraskouskas, Rachel Wellington, Olivia G. Waltner, Christina Root, Dana L. Jackson et al. · 2023 · SSRN Electronic Journal
  25. CD61 identifies a superior population of aged murine hematopoietic stem cells and is required to preserve quiescence and self-renewal
    Natalia Skinder, Irene Sanz Fernández, Albertien Dethmers-Ausema, Ellen Weersing, Gerald de Haan · 2023 · bioRxiv (Cold Spring Harbor Laboratory)
  26. Basic Hematopoiesis and Leukemia Stem Cells
    William Ying Khee Hwang, Sudipto Bari, Lai Guan Ng, Koji Itahana, Shang Li, Javier Yu Peng Koh, Hein Than · 2023 · Springer eBooks
  27. Desarrollo de un sistema de monitorización de la integridad estructural para aplicaciones en ingeniería mediante técnicas de reducción de la dimensionalidad
    David Agis · 2020
  28. Collection of Hematopoietic Stem Cells and Cell Therapy Products
    Robert W. Maitta · 2024 · Elsevier eBooks
  29. Additional file 7 of Identification of diverse cell populations in skeletal muscles and biomarkers for intramuscular fat of chicken by single-cell RNA sequencing
    Jinghui Li, Siyuan Xing, Guiping Zhao, Maiqing Zheng, Xinting Yang, Jiahong Sun, Jie Wen, Ranran Liu · 2020 · Figshare
  30. NPMc+ and Flt3-ITD cooperation promotes a new oncogenic HSC state that supports transformation and leukemia stem cell maintenance
    Emanuela Colombo · 2024 · bioRxiv (Cold Spring Harbor Laboratory)
  31. Disentangling shared genetic etiologies for kidney function and cardiovascular diseases
    Jun Qiao, Kaixin Yao, Yujuan Yuan, Xichen Yang, Le Zhou, Yinqi Long, Miaoran Chen, Wenjia Xie, Yixuan Yang, Yangpo Cao et al. · 2024 · medRxiv
  32. A subset of Haematopoietic Stem Cells resists Plasmodium infection-induced stress by uncoupling interferon sensing and metabolic activation
    Christiana Georgiou, Qi Liu, Sara González Antón, Federica Bruno, Flora Birch, Sarah Kinston, Shirom Chabra, Nicola K. Wilson, Constandina Pospori, Andrew M. Blagborough et al. · 2025 · bioRxiv (Cold Spring Harbor Laboratory)
  33. UniCell: Towards a Unified Solution for Cell Annotation, Nomenclature Harmonization, Atlas Construction in Single-Cell Transcriptomics
    Luni Hu, Qianqian Chen, Ping Sun Qiu, Hua Qin, Yilin Zhang, Lei Cao, Tianyi Xia, Ziqing Deng, Yong Zhang, Shuangsang Fang et al. · 2025 · bioRxiv (Cold Spring Harbor Laboratory)
  34. A new double reporter strategy reveals a subset of non-migratory hematopoietic stem cells localized in a dynamic bone marrow niche
    Marine A. Secchi, Qi Liu, Sara González Antón, Cera Mai, Aisha Souleiman Jibril, Jiarui Xu, Dónal O’Carroll, Nicola K. Wilson, Kamil R. Kranc, Berthold Göttgens et al. · 2025 · bioRxiv (Cold Spring Harbor Laboratory)
  35. Heterogeneity in platelet differentiation pathways
    Axel Winroth · 2025
  36. Resolving hematopoietic stem versus progenitor cell potential in the mouse dorsal aorta by differential Runx1 +110 enhancer activity
    Giorgio Anselmi, Vincent Frontera, Christina Rode, Andrew Jarratt, Naeema T. Mehmood, Matthew Nicholls, Luca Buttler, Stella Antoniou, John O’Rourke, Emanuele Azzoni et al. · 2026 · Cell Reports
  37. BiAEImpute: a robust bidirectional autoencoder framework for High-fidelity dropout imputation in single-cell transcriptomics
    Yi Zhang, Xinyuan Liu, Yin Wang, Yu Wang · 2025 · BMC Genomics
  38. Spinal Cord Injury Imprints a Glucocorticoid-Driven Failure State in Hematopoietic Stem Cells
    Kyleigh A. Rodgers, Elizabeth A.R. Garfinkle, Kristina A. Kigerl, Elham Asghari Adib, Katherine A. Mifflin, Jodie C.E. Hall, Rohan SUDHIR Kulkarni, Cankun Wang, Chinmayee Goda, Ana C Rodrigues Dias et al. · 2025 · bioRxiv (Cold Spring Harbor Laboratory)
  39. Additional file 1 of VarID2 quantifies gene expression noise dynamics and unveils functional heterogeneity of ageing hematopoietic stem cells
    Reyna Edith Rosales-Alvarez, Jasmin Rettkowski, Josip S. Herman, Gabrijela Dumbović, Nina Cabezas‐Wallscheid, Dominic Grün · 2023 · Figshare
  40. Additional file 2 of Identification of diverse cell populations in skeletal muscles and biomarkers for intramuscular fat of chicken by single-cell RNA sequencing
    Li, Jinghui, Xing, Siyuan, Zhao, Guiping, Zheng, Maiqing, Yang, Xinting, Sun, Jiahong, Jie Wen, Liu, Ranran · 2020 · Figshare
  41. Additional file 5 of Identification of diverse cell populations in skeletal muscles and biomarkers for intramuscular fat of chicken by single-cell RNA sequencing
    Li, Jinghui, Xing, Siyuan, Zhao, Guiping, Zheng, Maiqing, Yang, Xinting, Sun, Jiahong, Jie Wen, Liu, Ranran · 2020 · Figshare
  42. Additional file 1 of Identification of diverse cell populations in skeletal muscles and biomarkers for intramuscular fat of chicken by single-cell RNA sequencing
    Li, Jinghui, Xing, Siyuan, Zhao, Guiping, Zheng, Maiqing, Yang, Xinting, Sun, Jiahong, Jie Wen, RanRan Liu · 2020 · Figshare
  43. Additional file 6 of Identification of diverse cell populations in skeletal muscles and biomarkers for intramuscular fat of chicken by single-cell RNA sequencing
    Li, Jinghui, Xing, Siyuan, Zhao, Guiping, Zheng, Maiqing, Yang, Xinting, Sun, Jiahong, Jie Wen, Liu, Ranran · 2020 · Figshare
  44. Additional file 2 of VarID2 quantifies gene expression noise dynamics and unveils functional heterogeneity of ageing hematopoietic stem cells
    Reyna Edith Rosales-Alvarez, Jasmin Rettkowski, Josip S. Herman, Gabrijela Dumbović, Nina Cabezas‐Wallscheid, Dominic Grün · 2023 · Figshare
  45. Additional file 4 of Identification of diverse cell populations in skeletal muscles and biomarkers for intramuscular fat of chicken by single-cell RNA sequencing
    Li, Jinghui, Xing, Siyuan, Zhao, Guiping, Zheng, Maiqing, Yang, Xinting, Sun, Jiahong, Jie Wen, Liu, Ranran · 2020 · Figshare
  46. Additional file 3 of Identification of diverse cell populations in skeletal muscles and biomarkers for intramuscular fat of chicken by single-cell RNA sequencing
    Li, Jinghui, Xing, Siyuan, Zhao, Guiping, Zheng, Maiqing, Yang, Xinting, Sun, Jiahong, Jie Wen, Liu, Ranran · 2020 · Figshare
  47. Adult Hematopoiesis
    David G Kent, Connie J. Eaves · 2016 · Elsevier eBooks
  48. Elevated endocytic trafficking mediated by GPRASP2 maintains HSC fidelity
    Alanna V. Van Huizen, Mattieu Zhai, Haruhito Totani, Dewmi Rathnayake, Emilia Kooienga, Ishani Sharma, Zakiya Kelley, Madeleine Rodgers, Federica Zanotti, lance Palmer et al. · 2026 · bioRxiv (Cold Spring Harbor Laboratory)
  49. Tracking Human HSCs and MPPs in Mice Reveals Distinct Clonal Dynamics and Responses to Pre-transplant Conditioning
    Mary C Vergel Snodgrass, Jiya Eerdeng, Patrick Condie, Rong Lu · 2026 · bioRxiv (Cold Spring Harbor Laboratory)
  50. Hematopoietic stem and progenitor cell hierarchy is established by thrombopoietin-driven neonatal hematopoiesis
    Makiko Mochizuki‐Kashio, Ayano Yahagi, Tomomasa Yokomizo, Terumasa Umemoto, Toshio Suda, Ayako Nakamura‐Ishizu · 2026 · Stem Cell Reports
  51. Spleno-Medullary Progenitor Cell Transplantation (SMPT): A Mechanistically Grounded Theoretical Framework for Autologous Restoration of Erythropoiesis in Severe Aplastic Anemia and Diamond-Blackfan Anemia
    Sami Rashid Mohammed Shibah · 2026 · SSRN Electronic Journal
  52. Advanced Difference of Convex functions Algorithms for some topics of Machine Learning with Big Data
    . Tran Bach · 2019
  53. Etude des mécanismes cellulaires et moléculaires des leucémies pédiatriques à mauvais pronostic présentant la fusion ETO2-GLIS2
    Cécile K. Lopez · 2018 · theses.fr (ABES)
  54. Rôle du facteur de transcription ETS1 dans la différenciation des lymphocytes B
    Lydie Gama · 2022
  55. Quantifying Haematopoietic Cell Dynamics
    Lucie Hustin · 2022 · theses.fr (ABES)
  56. Developmental origins of the ETO2 : GLIS2 - driven acute megakaryoblastic leukemia in humans and role of the cytokine microenvironment in leukemogenesis
    Klaudia Galant · 2024 · theses.fr (ABES)
  57. Image-enabled cell sorting permits prospective isolation of primitive hematopoietic stem cell subsets with distinct functional potential
    Lilia Cabrera-Cosme, Ellie Bennett, Joanna Milek, Zarema Albakova, Alexander J. Hogg, Sophie J Davies, Sukhveer Kaur Mann, Karen Hogg, Peter J O’Toole, David G. Kent · 2026 · Experimental Hematology
  58. Developing and Testing of an Original Molecular Panel for Evaluating the Efficacy of Acute Myeloid Leukemia Treatment and Early Diagnosis of Relapses by Quantitative Real-Time PCR
    Mamaev Nn, Ya. V. Krylova, Mikhail M. Kanunnikov, Alena Igorevna Shakirova, А. М. Садыков, Ildar Barkhatov, Bella I. Ayubova, Tatiana Gindina, Ludmila Stepanovna Zubarovskaya · 2026 · Clinical oncohematology
  59. USP7 maintains hematopoietic stem cell dormancy and function by stabilizing HMGA2
    Antoine Nouhaud, Diaz Anna, Mathieu Bouttier, Quentin Rigaud, Pauline Enfedaque, Hedi Somaï, Sylvie Hébrard, Naïs Prade, Stéphanie Dufrechou, Daniele Musiani et al. · 2026 · bioRxiv (Cold Spring Harbor Laboratory)
  60. Geneformer-guided multiomics integration identifies Pbx1 as a network hub of hematopoietic stem cell aging
    Hiroshi Kobayashi, S. Watanuki, Yusuke Shiozawa, Motohiko Oshima, Shuhei Koide, Naoya Takayama, Takayuki Morikawa, Miho Haraguchi, Shinpei Tamaki, Takayoshi Asakura et al. · 2026 · Science Advances
  61. Hematopoietic Stem Cell Metabolism during Stress and Aging
    Devyani Sharma, Marie–Dominique Filippi · 2026 · Advances in Geriatric Medicine and Research
  62. Developmental Gfi1 Dynamics Define Hematopoietic Emergence and Adult Hematopoietic Stem Cell Potency
    Tomohiro Yabushita, Yosuke Tanaka, Takako Ideue, Kanako Wakahashi, Mariko Tsuruda, Saori Morino‐Koga, Tomomasa Yokomizo, Taichi Noda, Akira Nishiyama, Daisuke Kurotaki et al. · 2026 · bioRxiv (Cold Spring Harbor Laboratory)
  63. Hematopoietic Stem Cell States, Function, and Molecular Identity: From Quantitative Assays to Modern Multiomics
    Tom Q.T. Bui, Franziska Mey, Ly Vu, Aly Karsan · 2026 · Experimental Hematology
  64. Glycosylation orchestrates megakaryocytic fate of hematopoietic stem cells via Wnt-MUC13 signaling
    Alejandro Roisman, Leonardo Rivadeneyra, Lindsey R. Conroy, Natalia Weich, Agata Steenackers, Melissa M. Lee‐Sundlov, Simon H. Glabere, Shikan Zheng, Katelyn E. Rosenbalm, Mark Zogg et al. · 2026 · Nature Communications
  65. Cell fate decision and lineage specification mechanisms in hematopoiesis
    In‐Won Lee, Yesenia Earth, Yoon-A Kang · 2026 · Current topics in developmental biology/Current Topics in Developmental Biology
  66. Bone marrow-inspired DLL1-presenting microparticles enhance asymmetric division and maintenance of mouse hematopoietic stem and progenitor cells
    Li Wenjing, Feng Yiting, Dongbo Han, Yanxiao Ao, Michael W. Chen, Li Ning, Jin Yuhong, Haiwei Liang, Liu Wen, Zhu Xiaoyu et al. · 2026 · Stem Cell Reports
  67. An immunophenotype-coupled transcriptomic atlas of mouse hematopoietic progenitors
    Mahamudul Hasan Bhuyan, Sumanta Barman, Shafaqat Ali, Felix Steinbeck, Tobias Lautwein, Norbert Goebels, Stefanie Scheu · 2026 · bioRxiv (Cold Spring Harbor Laboratory)
  68. Advances in the biological functions and clinical applications of protein C
    Yi-Shu XU, Arial Yi ZENG · 2026 · Shengming kexue