Yap1 safeguards mouse embryonic stem cells from excessive apoptosis during differentiation

Authors: Lucy LeBlanc, Bum-Kyu Lee, Andy C Yu, Mijeong Kim, Aparna V Kambhampati, Shannon M Dupont, Davide Seruggia, Byoung U Ryu, Stuart H Orkin, Jonghwan Kim

Source: eLife, Vol 7 (2018)

Subject Terms: Yap1, apoptosis, embryonic stem cells, differentiation, Medicine, Science, Biology (General), QH301-705.5

File Description: electronic resource

Relation: https://elifesciences.org/articles/40167; https://doaj.org/toc/2050-084X

Access URL: https://doaj.org/article/c27f6bfa6c6c4174b6c51e74df547c46

Canonical PRC2 function is essential for mammary gland development and affects chromatin compaction in mammary organoids.

Authors: Ewa M Michalak, Michael J G Milevskiy, Rachel M Joyce, Johanna F Dekkers, Paul R Jamieson, Bhupinder Pal, Caleb A Dawson, Yifang Hu, Stuart H Orkin, Warren S Alexander, Geoffrey J Lindeman, Gordon K Smyth, Jane E Visvader

Source: PLoS Biology, Vol 16, Iss 8, p e2004986 (2018)

Subject Terms: Biology (General), QH301-705.5

File Description: electronic resource

Relation: http://europepmc.org/articles/PMC6095611?pdf=render; https://doaj.org/toc/1544-9173; https://doaj.org/toc/1545-7885

Access URL: https://doaj.org/article/2db4d265c7794554b6a813e67f3a5cdf

Erythropoietin signaling regulates heme biosynthesis

Authors: Jacky Chung, Johannes G Wittig, Alireza Ghamari, Manami Maeda, Tamara A Dailey, Hector Bergonia, Martin D Kafina, Emma E Coughlin, Catherine E Minogue, Alexander S Hebert, Liangtao Li, Jerry Kaplan, Harvey F Lodish, Daniel E Bauer, Stuart H Orkin, Alan B Cantor, Takahiro Maeda, John D Phillips, Joshua J Coon, David J Pagliarini, Harry A Dailey, Barry H Paw

Source: eLife, Vol 6 (2017)

Subject Terms: PKA, erythropoiesis, porphyria, AKAP, ferrochelatase, zebrafish, Medicine, Science, Biology (General), QH301-705.5

File Description: electronic resource

Relation: https://elifesciences.org/articles/24767; https://doaj.org/toc/2050-084X

Access URL: https://doaj.org/article/9d6ba52c921f43949ad7e7fd57b84d00

EED orchestration of heart maturation through interaction with HDACs is H3K27me3-independent

Authors: Shanshan Ai, Yong Peng, Chen Li, Fei Gu, Xianhong Yu, Yanzhu Yue, Qing Ma, Jinghai Chen, Zhiqiang Lin, Pingzhu Zhou, Huafeng Xie, Terence W Prendiville, Wen Zheng, Yuli Liu, Stuart H Orkin, Da-Zhi Wang, Jia Yu, William T Pu, Aibin He

Source: eLife, Vol 6 (2017)

Subject Terms: cardiology, gene regulation, chromatin, heart development, Medicine, Science, Biology (General), QH301-705.5

File Description: electronic resource

Relation: https://elifesciences.org/articles/24570; https://doaj.org/toc/2050-084X

Access URL: https://doaj.org/article/98da94eff0414c86a033b81f86d2c938

Angiopoietin-like proteins stimulate HSPC development through interaction with notch receptor signaling

Authors: Michelle I Lin, Emily N Price, Sonja Boatman, Elliott J Hagedorn, Eirini Trompouki, Sruthi Satishchandran, Charles W Carspecken, Audrey Uong, Anthony DiBiase, Song Yang, Matthew C Canver, Ann Dahlberg, Zhigang Lu, Cheng Cheng Zhang, Stuart H Orkin, Irwin D Bernstein, Jon C Aster, Richard M White, Leonard I Zon

Source: eLife, Vol 4 (2015)

Subject Terms: angiopoietin-like protein, notch, hematopoietic stem, LILRB2, myc, progenitor cells, Medicine, Science, Biology (General), QH301-705.5

File Description: electronic resource

Relation: https://elifesciences.org/articles/05544; https://doaj.org/toc/2050-084X

Access URL: https://doaj.org/article/d413b0fa911d41d19654119779f21716

Histone demethylase Lsd1 represses hematopoietic stem and progenitor cell signatures during blood cell maturation

Authors: Marc A Kerenyi, Zhen Shao, Yu-Jung Hsu, Guoji Guo, Sidinh Luc, Kassandra O'Brien, Yuko Fujiwara, Cong Peng, Minh Nguyen, Stuart H Orkin

Source: eLife, Vol 2 (2013)

Subject Terms: histone demethylase, Lsd1, KDM1, HSC, granulocyte, enhancer, Medicine, Science, Biology (General), QH301-705.5

File Description: electronic resource

Relation: https://elifesciences.org/articles/00633; https://doaj.org/toc/2050-084X

Access URL: https://doaj.org/article/30928b0bf5f244c2a96711150c29c2c1

A single cis element maintains repression of the key developmental regulator Gata2.

Authors: Jonathan W Snow, Jennifer J Trowbridge, Tohru Fujiwara, Nikla E Emambokus, Jeffrey A Grass, Stuart H Orkin, Emery H Bresnick

Source: PLoS Genetics, Vol 6, Iss 9, p e1001103 (2010)

Subject Terms: Genetics, QH426-470

File Description: electronic resource

Relation: http://europepmc.org/articles/PMC2936534?pdf=render; https://doaj.org/toc/1553-7390; https://doaj.org/toc/1553-7404

Access URL: https://doaj.org/article/54a45c6393ea45e999ed3c7a11a72a84

Matrin3 mediates differentiation through stabilizing chromatin loop-domain interactions and YY1 mediated enhancer-promoter interactions

Authors: Tianxin Liu, Qian Zhu, Yan Kai, Trevor Bingham, Stacy Wang, Hye Ji Cha, Stuti Mehta, Thorsten M. Schlaeger, Guo-Cheng Yuan, Stuart H. Orkin

Source: Nature Communications, Vol 15, Iss 1, Pp 1-18 (2024)

Subject Terms: Science

File Description: electronic resource

Relation: https://doaj.org/toc/2041-1723

Access URL: https://doaj.org/article/23d68e42d7da4813946ed12c450bf64b

The zebrafish moonshine gene encodes transcriptional intermediary factor 1gamma, an essential regulator of hematopoiesis.

Authors: David G Ransom, Nathan Bahary, Knut Niss, David Traver, Caroline Burns, Nikolaus S Trede, Noelle Paffett-Lugassy, Walter J Saganic, C Anthoney Lim, Candace Hersey, Yi Zhou, Bruce A Barut, Shuo Lin, Paul D Kingsley, James Palis, Stuart H Orkin, Leonard I Zon

Source: PLoS Biology, Vol 2, Iss 8, p E237 (2004)

Subject Terms: Biology (General), QH301-705.5

File Description: electronic resource

Relation: https://journals.plos.org/plosbiology/article/file?id=10.1371/journal.pbio.0020237&type=printable; https://doaj.org/toc/1544-9173; https://doaj.org/toc/1545-7885

Access URL: https://doaj.org/article/409d4c8fde6f4b679fcb4de597e44cca

Role of PDGFRA+ cells and a CD55+ PDGFRALo fraction in the gastric mesenchymal niche

Authors: Elisa Manieri, Guodong Tie, Ermanno Malagola, Davide Seruggia, Shariq Madha, Adrianna Maglieri, Kun Huang, Yuko Fujiwara, Kevin Zhang, Stuart H. Orkin, Timothy C. Wang, Ruiyang He, Neil McCarthy, Ramesh A. Shivdasani

Source: Nature Communications, Vol 14, Iss 1, Pp 1-18 (2023)

Subject Terms: Science

File Description: electronic resource

Relation: https://doaj.org/toc/2041-1723

Access URL: https://doaj.org/article/92ebc7cc83f44ff5aa700ded18055634

Identifying quantitatively differential chromosomal compartmentalization changes and their biological significance from Hi-C data using DARIC

Authors: Yan Kai, Nan Liu, Stuart H. Orkin, Guo-Cheng Yuan

Source: BMC Genomics, Vol 24, Iss 1, Pp 1-18 (2023)

Subject Terms: Compartment, Compartmentalization, Hi-C, 3D genome, Gene regulation, Nuclear positioning, Biotechnology, TP248.13-248.65, Genetics, QH426-470

File Description: electronic resource

Relation: https://doaj.org/toc/1471-2164

Access URL: https://doaj.org/article/0a4fbc55ec7449adb3256e79af851a7f

Gene correction of HAX1 reversed Kostmann disease phenotype in patient-specific induced pluripotent stem cells

Authors: Erik Pittermann, Nico Lachmann, Glenn MacLean, Stephan Emmrich, Mania Ackermann, Gudrun Göhring, Brigitte Schlegelberger, Karl Welte, Axel Schambach, Dirk Heckl, Stuart H. Orkin, Tobias Cantz, Jan-Henning Klusmann

Source: Blood Advances, Vol 1, Iss 14, Pp 903-914 (2017)

Subject Terms: Specialties of internal medicine, RC581-951

File Description: electronic resource

Relation: http://www.sciencedirect.com/science/article/pii/S2473952920302020; https://doaj.org/toc/2473-9529

Access URL: https://doaj.org/article/943cea49b95d48cd848389ce3c4e6f9b

Generation of Genomic Deletions in Mammalian Cell Lines via CRISPR/Cas9

Authors: Daniel E. Bauer, author^{1, 2, 3}, Matthew C. Canver, author¹, Stuart H. Orkin, author^{1, 2, 3, 4}

Source: Journal of Visualized Experiments. (95)

Availability: http://www.jove.com/video/52118

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Polycomb deficiency drives a FOXP2-high aggressive state targetable by epigenetic inhibitors

Authors: Fan Chen, Aria L. Byrd, Jinpeng Liu, Robert M. Flight, Tanner J. DuCote, Kassandra J. Naughton, Xiulong Song, Abigail R. Edgin, Alexsandr Lukyanchuk, Danielle T. Dixon, Christian M. Gosser, Dave-Preston Esoe, Rani D. Jayswal, Stuart H. Orkin, Hunter N. B. Moseley, Chi Wang, Christine Fillmore Brainson

Source: Nature Communications, Vol 14, Iss 1, Pp 1-18 (2023)

Subject Terms: Science

File Description: electronic resource

Relation: https://doaj.org/toc/2041-1723

Access URL: https://doaj.org/article/2cf8d2a337944addaaca421358a1cc3b

Inner nuclear protein Matrin-3 coordinates cell differentiation by stabilizing chromatin architecture

Authors: Hye Ji Cha, Özgün Uyan, Yan Kai, Tianxin Liu, Qian Zhu, Zuzana Tothova, Giovanni A. Botten, Jian Xu, Guo-Cheng Yuan, Job Dekker, Stuart H. Orkin

Source: Nature Communications, Vol 12, Iss 1, Pp 1-19 (2021)

Subject Terms: Science

File Description: electronic resource

Relation: https://doaj.org/toc/2041-1723

Access URL: https://doaj.org/article/0375ca998e104d8ca0b29f84e0c5f8f6

Mapping the evolving landscape of super-enhancers during cell differentiation

Authors: Yan Kai, Bin E. Li, Ming Zhu, Grace Y. Li, Fei Chen, Yingli Han, Hye Ji Cha, Stuart H. Orkin, Wenqing Cai, Jialiang Huang, Guo-Cheng Yuan

Source: Genome Biology, Vol 22, Iss 1, Pp 1-21 (2021)

Subject Terms: Super-enhancers, Enhancer, Differentiation, Dynamics, 3D genome, Hierarchy, Biology (General), QH301-705.5, Genetics, QH426-470

File Description: electronic resource

Relation: https://doaj.org/toc/1474-760X

Access URL: https://doaj.org/article/e924075d05a943b2a2f7c7c3477fdbf7

A unified model of human hemoglobin switching through single-cell genome editing

Authors: Yong Shen, Jeffrey M. Verboon, Yuannyu Zhang, Nan Liu, Yoon Jung Kim, Samantha Marglous, Satish K. Nandakumar, Richard A. Voit, Claudia Fiorini, Ayesha Ejaz, Anindita Basak, Stuart H. Orkin, Jian Xu, Vijay G. Sankaran

Source: Nature Communications, Vol 12, Iss 1, Pp 1-12 (2021)

Subject Terms: Science

File Description: electronic resource

Relation: https://doaj.org/toc/2041-1723

Access URL: https://doaj.org/article/6510aaea4b7a4bf494e21f0d26b79c2e

Reactivation of a developmentally silenced embryonic globin gene

Authors: Andrew J. King, Duantida Songdej, Damien J. Downes, Robert A. Beagrie, Siyu Liu, Megan Buckley, Peng Hua, Maria C. Suciu, A. Marieke Oudelaar, Lars L. P. Hanssen, Danuta Jeziorska, Nigel Roberts, Stephanie J. Carpenter, Helena Francis, Jelena Telenius, Aude-Anais Olijnik, Jacqueline A. Sharpe, Jacqueline Sloane-Stanley, Jennifer Eglinton, Mira T. Kassouf, Stuart H. Orkin, Len A. Pennacchio, James O. J. Davies, Jim R. Hughes, Douglas R. Higgs, Christian Babbs

Source: Nature Communications, Vol 12, Iss 1, Pp 1-15 (2021)

Subject Terms: Science

File Description: electronic resource

Relation: https://doaj.org/toc/2041-1723

Access URL: https://doaj.org/article/eb63b89aa9ae4973bb86a64000a9ce01