Publications
*Equal contribution. †Corresponding author. ††Consortium Project.
Embedded Files
2026
Tabula Sapiens 2.0: A comprehensive transcriptomic atlas of human cell types
The Tabula Sapiens Consortium††
Cell 189, (2026) https://doi.org/10.1016/j.cell.2026.08.010
Transcriptomic advances in studies of muscle stem cell aging: From bulk to single-cell and beyond
S.Kim†, S. Pack, T.A. Rando†
Cell Research (2026) https://doi.org/10.1038/s41422-026-01240-w
Cellular survivorship bias as a mechanistic driver of muscle stem cell aging
J. Kang*, D.I. Benjamin, Q. Guo, C. Evangelista, S. Kim, M. Arjona, P. Both, M. Chung, A.K. Krishnan, G. Dhaliwal, R. Lam, T.A. Rando†
Science (2026) https://doi.org/10.1126/science.ads9175
Targeting C1q signaling in fibro-adipogenic progenitors prevents regenerative fibrosis of aged muscle
A. Kanugovi, P. Aguiari, R. Choi, S. Kim, D. Wu, A. De Morree, S. Bui, R. Lam, S. Biressi, L. Liu, T.A. Rando†
PNAS (2026) https://doi.org/10.1073/pnas.2423340122
2025
Benchmarking cell type and gene set annotation by large language models with AnnDictionary
The Tabula Sapiens Consortium††
Nature Communications 16(1) (2025) https://doi.org/10.1038/s41467-025-64511-x
In vivo self-renewal and expansion of quiescent stem cells from a non-human primate
J. Kang, A. Kanugovi, M. Stella, Z. Frimand, J. Farup, A. Urtasun, S. Liu, A. Clausen, H. Ishak, S. Bui, S. Kim, C. Ezran, O. Botvinnik, E. Porpiglia, M.A. Krasnow, A. de. Morree†, T.A. Rando†
Nature Communications 16 (1) (2025) https://doi.org/10.1038/s41467-025-58897-x
Bioinstructive scaffolds enhance stem cell engraftment for functional tissue regeneration
D. Wu, I. Eugenis, C. Hu, S. Kim, A. Kanugovi, S. Yue, J. Wheeler, I. Fathali, J. Shrager, N.F. Huang, T.A. Rando†
Nature Materials 6 (1) (2025) https://doi.org/10.1038/s41563-025-02212-y
Protocol for quantifying muscle fiber size, number, and central nucleation of mouse skeletal muscle cross-sections using Myotally software
P. Both*, S. Kim*, J. Kang, M. Arjona, D.I. Benjamin, C.W. Nutter, A. Goshayeshi, T.A. Rando†
STAR Protocols (2025) https://doi.org/10.1016/j.xpro.2024.103555
2024
Tabula Sapiens reveals transcription factor expression, senescence effects, and sex-specific features in cell types from 28 human organs and tissues
The Tabula Sapiens Consortium††
bioRxiv (2024)
Skeletal muscle-on-a-chip in microgravity as a platform for regeneration modeling and drug screening
S. Kim*, B. Ayan*, M. Shayan*, T.A. Rando†, N.F. Huang†
Stem Cell Reports (2024) https://doi.org/10.1016/j.stemcr.2024.06.010
Scanorama: Integrating large and diverse single-cell transcriptomic datasets
B. Hie*†, S. Kim*, T.A. Rando, B. Bryson†, B. Berger†
Nature Protocols (2024) https://doi.org/10.1038/s41596-024-00991-3
Stearoyl-CoA desaturase 1 inhibition induces ER stress-mediated apoptosis in ovarian cancer cells
J. Lee, S. Jang, J. Im, Y. Han, S. Kim, H. Jo, W. Wang, S.I. Kim, A. Seol, B. Kim, Y.S. Song†
Journal of Ovarian Research 17, (2024)
Mitochondrial fission enhances IL-6-induced metastatic potential in ovarian cancer via ERK1/2 activation
J. Lee, Y. Han, S. Kim, H. Jo, W. Wang, U. Cho, B. Kim, S.I. Kim, Y.S. Song†
Cancer Science 00, (2024)
Depletion of SAM leading to loss of heterochromatin drives muscle stem cell aging
J. Kang, D.I. Benjamin, S. Kim, J. Salvi, G. Dhaliwal, R. Lam, A. Goshayeshi, J. Brett, L. Liu, T.A. Rando†
Nature Metabolism 6, (2024)
2023
Single cell transcriptomics reveals the hidden microbiomes of human tissues
The Tabula Sapiens Consortium††
bioRxiv (2023)
Identification of an adipose tissue-resident pro-preadipocyte population
M. Chen, S. Kim, L. Li, S. Chattopadhyay, T.A. Rando, B.J. Feldman†
Cell Reports 42, (2023)
Exercise reprograms the inflammatory landscape of multiple cell compartments during mammalian aging
L. Liu, S. Kim*, M.T. Buckley*, J.M. Reyes*, J. Kang, L. Tian, M. Wang, A. Lieu, M. Mao, C. Rodriguez-Mateo, H.D. Ishak, M. Jeong, J.C. Wu, M.A. Goodell†, A. Brunet†, T.A. Rando†
Cell Stem Cell 30, (2023)
Multiomics reveals glutathione metabolism as a driver of bimodality during stem cell aging
D.I. Benjamin*, J.O. Brett*, P. Both, J.S. Benjamin, H.L. Ishak, J. Kang, S. Kim, M. Chung, M. Arjona, C.W. Nutter, J.H. Tan, A.K. Krishnan, H. Dulay, S.M. Louie, A. de Morree, D.K. Nomura, T.A. Rando†
Cell Metabolism 35, (2023)
2022
Fasting induces a highly resilient deep quiescent state in muscle stem cells via ketone body signaling
D.I. Benjamin*, P. Both*, J.S. Benjamin, C.W. Nutter, J.H. Tan, J. Kang, L.A. Machado, J.D.D. Klein, A. de Morree, S. Kim, L. Liu, H. Dulay, L. Feraboli, S.M. Louie, D.K. Nomura, T.A. Rando†
Cell Metabolism 34, (2022)
The Tabula Sapiens: A multiple-organ, single-cell transcriptomic atlas of humans
The Tabula Sapiens Consortium††
Science 376, (2022)
ATR activity controls stem cell quiescence via the cyclin F-SCF complex
J.S. Salvi, J. Kang, S. Kim, A.J. Colville, A. de Morree, T.B. Billeskov, M.C. Larsen, A. Kanugovi, C.T.J. van Velthoven, K.A. Cimprich, T.A. Rando†
PNAS 119, (2022)
Cell types of origin of the cell-free transcriptome
S.K. Vorperian, M.N. Moufarrej, The Tabula Sapiens Consortium††, S.R. Quake†
Nature Biotechnology 40, (2022)
Earlier Publications (2015-2022)
2022
Fasting induces a highly resilient deep quiescent state in muscle stem cells via ketone body signaling
D.I. Benjamin*, P. Both*, J.S. Benjamin, C.W. Nutter, J.H. Tan, J. Kang, L.A. Machado, J.D.D. Klein, A. de Morree, S. Kim, L. Liu, H. Dulay, L. Feraboli, S.M. Louie, D.K. Nomura, T.A. Rando†
Cell Metabolism 34, (2022)
The Tabula Sapiens: A multiple-organ, single-cell transcriptomic atlas of humans
The Tabula Sapiens Consortium††
Science 376, (2022)
ATR activity controls stem cell quiescence via the cyclin F-SCF complex
J.S. Salvi, J. Kang, S. Kim, A.J. Colville, A. de Morree, T.B. Billeskov, M.C. Larsen, A. Kanugovi, C.T.J. van Velthoven, K.A. Cimprich, T.A. Rando†
PNAS 119, (2022)
Cell types of origin of the cell-free transcriptome
S.K. Vorperian, M.N. Moufarrej, The Tabula Sapiens Consortium††, S.R. Quake†
Nature Biotechnology 40, (2022)
2021
RNA splicing programs define tissue compartments and cell types at single-cell resolution
J.E. Olivieri*, R. Dehghannasiri*, P.L. Wang, S. Jang, A. de Morree, S.Y. Tan, J. Ming, A.R. Wu, The Tabula Sapiens Consortium††, S.R. Quake, M.A. Krasnow, J. Salzman†
Elife 10, (2021)
Phytochemicals in cancer immune checkpoint inhibitor therapy
J. Lee, Y. Han, W. Wang, H. Jo, H. Kim, S. Kim, KM. Yang, SJ. Kim, D.N. Dhanasekaran, Y.S. Song†
Biomolecules 11, (2021)
Computational modeling of malignant ascites reveals CCL5-SDC4 interaction in the immune microenvironment of ovarian cancer
S. Kim*, Y. Han*, S.I. Kim, J. Lee, H. Jo, W. Wang, U. Cho, W. Park, T.A. Rando, D.N. Dhanasekaran, Y.S. Song†
Molecular Carcinogenesis 60, (2021)
2020
ROS-induced SIRT2 upregulation contributes to cisplatin sensitivity in ovarian cancer
W. Wang, J. Im, S. Kim, S. Jang, Y. Han, KM. Yang, SJ. Kim, D.N. Dhanasekaran, Y.S. Song†
Antioxidants 9, (2020)
Single-cell and spatial transcriptomics approaches of cardiovascular development and disease
R. Roth, S. Kim, J. Kim, S. Rhee†
BMB Reports 53, (2020)
2018
Activation of LXR α/β by cholesterol in malignant ascites promotes chemoresistance in ovarian cancer
S. Kim, M. Lee, D.N. Dhanasekaran, Y.S. Song†
BMC Cancer 18, (2018)
Tumor evolution and chemoresistance in ovarian cancer
S. Kim, Y. Han, S.I. Kim, HS Kim, S.J. Kim, Y.S. Song†
NPJ Precision Oncology 20, (2018)
Evaluating tumor evolution via genomic profiling of individual tumor spheroids in a malignant ascites
S. Kim*, S. Kim*, J. Kim, B. Kim, S.I. Kim, M.A. Kim, S. Kwon, Y.S. Song†
Scientific Reports 8, (2018)
Tumour microenvironment on mitochondrial dynamics and chemoresistance in cancer
Y. Han, U. Cho, S. Kim, I.S. Park, J.H. Cho, D.N. Dhanasekaran, Y.S. Song†
Free Radical Research 52, (2018)
2017
Pro-inflammatory M1 macrophage enhances metastatic potential of ovarian cancer cells through NF-kB activation
U. Cho, B. Kim, S. Kim, Y. Han, Y.S. Song†
Molecular Carcinogenesis 57, (2017)
2016
Malignant ascites enhances migratory and invasive properties of ovarian cancer cells with membrane bound IL-6R in vitro
S. Kim, HR. Gwak, H.S. Kim, B. Kim, D.N. Dhanasekaran, Y.S. Song†
Oncotarget 7, (2016)
Ascites modulates cancer cell behavior, contributing to tumor heterogeneity in ovarian cancer
S. Kim, B. Kim, Y.S. Song†
Cancer Science 107, (2016)
Adipose stromal cells from visceral and subcutaneous fat facilitate migration of ovarian cancer cells via IL-6/JAK2/STAT3 pathway
B.Kim, H.S. Kim, S. Kim, G. Haegeman, B.K. Tsang, D.N. Dhanasekaran, Y.S. Song†
Cancer Research Treatment 49, (2016)
Resveratrol triggers ER stress-mediated apoptosis by disrupting N-linked glycosylation of proteins in ovarian cancer cells
HR Gwak, S. Kim, D.N. Dhanasekaran, Y.S. Song†
Cancer Letters 371, (2016)
2015
Tumor evolution and intratumor heterogeneity of an epithelial ovarian cancer investigated using next-generation sequencing
JY. Lee*, JK. Yoon*, B. Kim, S. Kim, M.A. Kim, H. Lim, D. Bang†, Y.S. Song†
BMC Cancer 15, (2015)
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