Mark Gerstein on Muck Rack

Mark Gerstein

Yale
As seen in: Nature, Los Angeles Times, The Wall Street Journal, The Hill, ACS Publications, Genome Biology, Genome Medicine, The Jerusalem Post, Science Magazine, The Star (Malaysia) and
#Bioinformatics professor, interested in #DataScience, with photography, triathlons & books as hobbies
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Articles

Large-scale, spatially resolved panoramic CRISPR screening in native tissue environments using Perturb-DBiT

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By Alev Baysoy, Xiaolong Tian, Paul A. Renauer, Feifei Zhang, Zhiliang Bai, Mingyu Yang, Dingyao Zhang, Miao Liu, Haikuo Li, Bo Tao, Archibald Enninful, Yao Lu, Fu Gao, Guangchuan Wang, Wanqiu Zhang, Thao Tran, Nathan Heath Patterson, Jie Sheng, Shuozhen Bao, Chuanpeng Dong, Shan Xin, Binfan Chen, Mei Zhong, Cliff Guy, Yan Wang, Jon P. Connelly, Shondra M. Pruett-Miller, Daifeng Wang, Mina L. Xu, Mark Gerstein, Hongbo Chi, Sidi Chen, Rong Fan, Sherri Rankin
| Nature Verified
Abstract Spatially resolved CRISPR screening in vivo has been limited to small perturbation panels and subsets of protein-coding RNAs. We present Perturb-DBiT, a method for co-sequencing of spatial total RNA whole transcriptomes and single guide RNAs (sgRNAs) on the same tissue section in situ.
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Disinfection of hospital sink drains enriches pseudomonadota and efflux pump-mediated antibiotic resistance in reestablished biofilms

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By Kate Bowie, Irvan Luhung, Taylor Burke Verified, Scott Roberts, Richard A. Martinello, Mark Gerstein, Jordan Peccia, Hannah Healy
| Nature Verified
Abstract Antimicrobial resistant pathogens and associated infections represent major public health threats affecting healthcare facilities, with sink drain biofilms serving as reservoirs for many of these bacteria. Despite attempts at sink drain biofilm disinfection and removal, drain biofilms inevitably regrow, and disinfection may shape the returning microbial communities and their resistance profiles.
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Spatially decoding genotype-associated epigenetic landscapes in human lymphoma FFPE tissues via epi-Patho-DBiT

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By Haikuo Li, Bo Tao, Archibald Enninful, Dingyao Zhang, Yi Dai, Fiona Oh, Negin Farzad, Keyi LI, Zhiliang Bai, Xiaoyu Qin, Mingyu Yang, Emily Hwang, Jun Lu, Mark Gerstein, Jingtian Zhou, Mina L. Xu, Rong Fan
| Nature Verified
Abstract While formalin-fixed paraffin-embedded (FFPE) samples are invaluable for human non-Hodgkin B-cell lymphoma translational research, effective methods for spatial profiling of chromatin accessibility and histone modifications in these tissues remain limited.
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