Stanford
Loh Laboratory

Publications

Research articles

Lineage-tracing hematopoietic stem cell origins in vivo to efficiently make human HLF+ HOXA+ hematopoietic progenitors from pluripotent stem cells

Fowler JL*, Zheng SL*, Nguyen A**, Chen A**, Xiong X, Chai T, Chen JY, Karigane D, Banuelos AM, Niizuma K, Kayamori K, Nishimura T, Cromer MK, Gonzalez-Perez D, Mason C, Liu DD, Yilmaz L, Miquerol L, Porteus MH, Luca VC, Majeti R, Nakauchi H, Red-Horse K, Weissman IL, Ang LT†, Loh KM† (2024). Developmental Cell, advance online publication.

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Spatially Segregated Macrophage Populations Predict Distinct Outcomes In Colon Cancer

Matusiak M, Hickey JW, van IJzendoorn DGP, Lu G, Kidzinski L, Zhu S, Colburg DRC, Luca B, Phillips DJ, Brubaker SW, Charville GW, Shen J, Loh KM, Okwan-Duodu DK, Nolan GP, Newman AM, West RB, van de Rijn M. Cancer Discovery, advance online publication.

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Liver size is predetermined in the neonate by adding lobules at the periphery

Azizoglu DB, Perez K, Zheng SL, Rahman S, Rim EY, Anbarchian T, Fish M, Loh KM, Red-Horse K, Nusse R (2023). bioRxiv.

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Monolayer platform to generate and purify primordial germ-like cells in vitro provides insights into human germline specification

Vijayakumar S*, Sala R*, Kang G*, Chen A, Pablo MA, Adebayo AI, Cipriano A, Fowler JL, Gomes DL, Ang LT, Loh KM†, Sebastiano V† (2023). Nature Communications 14: 5690.

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An atlas of lamina-associated chromatin across twelve human cell types reveals an intermediate chromatin subtype

Shah PP*, Keough KC*, Gjoni K*, Santini GT, Abdill RJ, Wickramasinghe NM, Dundes CE, Karnay A, Chen A, Salomon REA, Walsh PJ, Nguyen SC, Whalen S, Joyce EF, Loh KM, Dubois N, Pollard KS†, Jain R† (2023). Genome Biology 24: 16.

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A stem cell roadmap of ribosome heterogeneity reveals a function for RPL10A in mesoderm production

Genuth NR, Shi Z, Kunimoto K, Hung V, Xu AF, Kerr CH, Tiu GC, Oses-Prieto JA, Salomon-Shulman REA, Axelrod JD, Burlingame AL, Loh KM, Barna M (2022). Nature Communications 13: 5491.

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Affinity-matured DLL4 ligands as broad-spectrum modulators of Notch signaling

Gonzalez-Perez D, Das S, Antfolk D, Ahsan HS, Medina E, Dundes CE, Jokhai RT, Egan ED, Blacklow SC, Loh KM, Rodriguez PC, Luca VC (2022). Nature Chemical Biology, advance online publication.

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Chimpanzee and pig-tailed macaque iPSCs: Improved culture and generation of primate cross-species embryos

Roodgar M, Suchy FP, Nguyen LH, Bajpai VK, Sinha R, Vilches-Moure JG, Van Bortle K, Bhadury J, Metwally A, Jiang L, Jian R, Chiang R, Oikonomopoulos A, Wu JC, Weissman IL, Mankowski JL, Holmes S, Loh KM, Nakauchi H*, VandeVoort CA*, Snyder MP* (2022). Cell Reports 40: 111264.

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Generating human artery and vein cells from pluripotent stem cells highlights the arterial tropism of Nipah and Hendra viruses

Ang LT*, Nguyen A*, Liu KJ*, Chen A**, Xiong XC**, Curtis M, Martin RM, Raftry BC, Ng CY, Vogel U, Lander A, Lesch BJ, Fowler JL, Holman AR, Chai T,  Vijayakumar S, Suchy FP, Nishimura T, Bhadury J, Porteus MH, Nakauchi H, Cheung C, George SC, Red-Horse K, Prescott JB† & Loh KM† (2022). Cell 185: 2523-2541.

See also: artery and vein single-cell RNA-seq web portal and artery and vein single-cell RNA-seq matrix files

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Increased ACTL6A occupancy within mSWI/SNF chromatin remodelers drives human squamous cell carcinoma

Chang CY*, Shipony Z*, Lin SG, Kuo A, Xiong X, Loh KM, Greenleaf WJ, Crabtree GR (2021). Increased ACTL6A occupancy within mSWI/SNF chromatin remodelers drives human squamous cell carcinoma. Molecular Cell 81: 4964-4978.

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Dach1 Extends Artery Networks and Protects Against Cardiac Injury

Raftrey B, Williams M, Rios Coronado PE, Fan X, Chang AH, Zhao M, Roth R, Trimm E, Racelis R, D'Amato G, Phansalkar R, Nguyen A, Chai T, Gonzalez KM, Zhang Y, Ang LT, Loh KM, Bernstein D, Red-Horse K (2021). Circulation Research 129:702-716.

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Monolayer platform to generate and purify human primordial germ cells in vitro provides new insights into germline specification

Kang G*, Vijayakumar S*, Sala R, Chen A, Adebayo AI, Cipriano A, Fowler JF, Ang LT, Loh KM†, Sebastiano V† (2021). Research Square, preprint. 

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Genome edited orthogonal safeguards to improve the safety of human pluripotent stem cell-based therapies

Martin RM*, Fowler JL*, Cromer MK, Lesch BJ, Ponce E, Uchida N, Wiebking V, Nishimura T, Porteus MH†, Loh KM† (2020). Nature Communications 11: 2713.

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Spatially controlled stem cell differentiation via morphogen gradients: a comparison of static and dynamic microfluidic platforms

Cui KW*, Engel L*, Dundes CE, Nguyen TC, Loh KM†, Dunn AR† (2020). Journal of Vacuum Science & Technology A 38: 033205.

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Copy Number Variation at 16p11.2 Imparts Transcriptional Alterations in Neural Development in an hiPSC-derived Model of Corticogenesis

Roth JG*, Muench KL*, Asokan A, Mallett VM, Gai H, Verma Y, Weber S, Charlton C, Fowler JL, Loh KM, Dolmetsch RE, Palmer TD (2020). eLife 9: e58178.

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Antibody Conditioning Enables MHC-Mismatched Hematopoietic Stem Cell Transplants and Organ Graft Tolerance

George BM, Kao KS, Kwon HS, Velasco BJ, Poyser J, Chen A, Le AC, Chhabra A, Burnett CE, Cajuste D, Hoover M, Loh KM, Shizuru JA, Weissman IL (2019). Cell Stem Cell 25, 185-192.

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Long-term ex vivo haematopoietic-stem-cell expansion allows nonconditioned transplantation

Wilkinson AC, Ishida R, Kikuchi M, Sudo K, Morita M, Crisostomo RV, Yamamoto R, Loh KM, Nakamura Y, Watanabe M, Nakauchi H, Yamazaki S (2019). Nature 571:117-121.

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A roadmap for human liver differentiation from pluripotent stem cells

Ang LT, Tan AKY, Autio MI, Goh SH, Choo S, Lee KL, Tan J, Pan B, Lee JJ, Lum JJ, Lim Y, Yeo K, Wong J, Oh L, Chia P, Chen A, Chen QF, Weissman IL, Loh KM†, Lim B† (2018). Cell Reports 22, 2190-2205.

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Isolation and 3D expansion of multipotent Sox9+ mouse lung progenitors

Nichane M, Javed A, Sivakamasundari V, Ganesan M, Ang LT, Kraus P, Lufkin T, Loh KM†, Lim B† (2017). Nature Methods 14, 1205-1212.

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Live imaging reveals that the first division of differentiating human embryonic stem cells often yields asymmetric fates

Brown K*, Loh KM*, Nusse R (2017). Cell Reports 21: 301-307.

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Thirst-associated preoptic neurons encode an aversive motivational drive

Allen WE*, DeNardo LA*, Chen MZ*, Liu CD, Loh KM, Fenno LE, Ramakhrishnan C, Deisseroth K†, Luo L† (2017). Science 357: 1149-1155.

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Mapping the pairwise choices leading from pluripotency to human bone, heart, and other mesoderm cell types

Loh KM*, Chen A*, Koh PW, Deng T, Sinha R, Tsai JM, Barkal AA, Shen KY, Jain R, Morganti RM, Ng SC, Fernhoff NB, George BM, Wernig G, Salomon RAE, Chen Z, Vogel H, Epstein JA, Kundaje A, Talbot WS, Beachy PA, Ang LT†, Weissman IL† (2016). Cell 166: 451-67.

See also: mesoderm RNA-seq online portal 

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Inhibition of apoptosis overcomes stage-related compatibility barriers to chimera formation in mouse embryos

Masaki H, Kato-Itoh M, Umino A, Sato H, Ito K, Yanagida A, Hirabayashi M, Sasaki E, Yamaguchi T, Loh KM, Weissman IL, Nakauchi H (2016). Cell Stem Cell 19: 587-592.

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An atlas of transcriptional, chromatin accessibility, and surface marker changes in human mesoderm development

Koh PW*, Sinha R*, Barkal AA, Morganti RM, Chen A, Weissman IL†, Ang LT†, Kundaje A†, Loh KM† (2016). Scientific Data 3: 160109.

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Reprogramming mouse fibroblasts into engraftable myeloerythroid and lymphoid progenitors: induction and underlying mechanisms

Hui C, Ang HYK, Farran CAEL, Li P, Fang H, Liu T, Kong SL, Chin ML, Lim EKH, Li H, Huber H, Loh KM, Loh YH, Lim B (2016). Nature Communications 7: 13396.

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Efficient endoderm induction from human pluripotent stem cells by logically directing signals controlling lineage bifurcations

Loh KM*, Ang LT*, Zhang J**, Kumar V**, Ang J, Auyeong JQ, Lee KL, Choo SH, Lim CYY, Nichane M, Tan J, Noghabi MS, Azzola L, Ng ES, Durruthy-Durruthy J, Sebastiano V, Poellinger L, Elefanty AG, Stanley EG, Chen Q, Prabhakar S, Weissman IL, Lim B (2014). Cell Stem Cell 14: 237-52.

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Rapid and efficient conversion of integration-free human induced pluripotent stem cells to GMP-grade culture conditions.

Durruthy-Durruthy J, Briggs SF, Awe J, Ramathal CY, Karumbayaram S, Lee PC, Heidmann JD, Clark A, Karakikes I, Loh KM, Wu JC, Hoffman AR, Byrne J, Reijo Pera RA, Sebastiano V (2014). PLoS ONE 9: e94231.

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Review and protocol articles

Building human artery and vein endothelial cells from pluripotent stem cells, and enduring mysteries surrounding arteriovenous development

Loh KM & Ang LT (2024). Seminars in Cell and Developmental Biology 155(Pt C):62-75.

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Creating artificial signaling gradients to spatially pattern engineered tissues

Zheng SL & Loh KM (2022). Current Opinion in Biotechnology 78: 102810.

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Bridging naïve and primed pluripotency

Dundes CD & Loh KM (2020). Nature Cell Biology 22: 513-515.

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A critical look: Challenges in differentiating human pluripotent stem cells into desired cell types and organoids

Fowler JL, Ang LT, Loh KM (2019). WIREs Developmental Biology 9: e368.

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Efficient differentiation of human pluripotent stem cells into liver cells

Loh KM, Palaria A, Ang LT (2019). Journal of Visualized Experiments 148: e58975.

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Obliterating obstacles to an odyssey

Nichane M, Loh KM (2018). Cell Stem Cell 23: 313-15.

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Evaluating the regenerative potential and functionality of human liver cells in mice

Tan AKY, Loh KM, Ang LT (2017). Differentiation 98: 25-34.

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Generating spatial form and cellular diversity: Wnt signaling and the evolution of multicellular animals

Loh KM*, van Amerongen R*, Nusse R (2016). Developmental Cell 38: 643-655.

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Ex uno plures: molecular designs for embryonic pluripotency

Loh KM, Lim B, Ang LT (2015). Physiological Reviews 95: 245-295.

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Equilibrium established

Loh KM and Lim B (2015). Nature 521: 299-300.

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Differentiation of trophoblast cells from human embryonic stem cells: to be or not to be?

Roberts RM, Loh KM, Amita M, Bernardo AS, Adachi K, Alexenko AP, Schust DJ, Schulz LC, Telugu BP, Ezashi T, Pedersen RA (2014). Reproduction 147: D1-D12.

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An integral program for tissue renewal and regeneration: Wnt signaling and stem cell control

Clevers H, Loh KM, Nusse R (2014). Science 346: 1248012.

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Close encounters with full potential

Loh KM and Lim B (2013). Nature 502: 41-42.

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Rejuvenating Tithonus

Loh KM and Lim B (2013). EMBO Reports 14: 583-4.

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Investigating the bona fide differentiation capacity of human pluripotent stem cells

Heng DJC, Loh KM, Ng HH (2012). Cell Research 22: 6-8.

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Actors in the cell reprogramming drama

Loh KM and Lim B (2012). Nature 488: 599-600.

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A precarious balance: pluripotency factors as lineage specifiers

Loh KM and Lim B (2011). Cell Stem Cell 8: 363-9.

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Recreating pluripotency?

Loh KM and Lim B (2010). Cell Stem Cell 7: 137-9.

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