What we’re reading.

See what the Herophilus team is reading this week across the fields of neuroscience, organoids, transcriptomics, machine learning and more.

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28 April 2022 Cell Stem Cell

Mariko L. Bennett, Hongjun Song, Guo-li Ming

Microglia modulate neurodevelopment in human neuroimmune organoids

28 April 2022 Cell Stem Cell

Galina Popova, Sarah S. Soliman, Chang N. Kim, Matthew G. Keefe, Kelsey M. Hennick, Samhita Jain, Tao Li, Dario Tejera, David Shin, Bryant B. Chhun, Christopher S. McGinnis, Matthew Speir, Zev J. Gartner, Shalin B. Mehta, Maximilian Haeussler, Keith B. Hengen, Richard R. Ransohoff, Xianhua Piao, Tomasz J. Nowakowski

Human microglia states are conserved across experimental models and regulate neural stem cell responses in chimeric organoids

27 April 2022 Neuron

Arjun Bharioke, Martin Munz, Alexandra Brignall, Georg Kosche, Max Ferdinand Eizinger, Nicole Ledergerber, Daniel Hillier, Brigitte Gross-Scherf, Karl-Klaus Conzelmann, Emilie Macé, Botond Roska

General anesthesia globally synchronizes activity selectively in layer 5 cortical pyramidal neurons

25 April 2022 bioRxiv

Cristina Cheroni, Sebastiano Trattaro, Nicolò Caporale, Alejandro López-Tobón, Erika Tenderini, Flavia Troglio, Michele Gabriele, Raul Bardini Bressan, Steven M Pollard, William T Gibson, Giuseppe Testa

Benchmarking brain organoid recapitulation of fetal corticogenesis

18 April 2022 Nature

Chao Wang, Li Fan, Rabia R. Khawaja, Bangyan Liu, Lihong Zhan, Lay Kodama, Marcus Chin, Yaqiao Li, David Le, Yungui Zhou, Carlo Condello, Lea T. Grinberg, William W. Seeley, Bruce L. Miller, Sue-Ann Mok, Jason E. Gestwicki, Ana Maria Cuervo, Wenjie Luo & Li Gan

Microglial NF-κB drives tau spreading and toxicity in a mouse model of tauopathy

13 April 2022 Nature

Ewen Callaway

What’s next for AlphaFold and the AI protein-folding revolution

4 April 2022 Science

SERGEY AGANEZOV, STEPHANIE M. YAN, DANIELA C. SOTO, MELANIE KIRSCHE, SAMANTHA ZARATE, PAVEL AVDEYEV, DYLAN J. TAYLOR, KISHWAR SHAFIN, ALAINA SHUMATE... MICHAEL C. SCHATZ

A complete reference genome improves analysis of human genetic variation

30 March 2022 BioRxIv

Luke Y. Prince, Shahab Bakhtiari, Colleen J. Gillon, Blake A. Richards

Parallel inference of hierarchical latent dynamics in two-photon calcium imaging of neuronal populations

17 March 2022 Nature

Scott Marek, Brenden Tervo-Clemmens, …Nico U. F. Dosenbach

Reproducible brain-wide association studies require thousands of individuals

7 March 2022 Trends in Genetics

Niklas-Benedikt Grimm, Jeannie T Lee

Selective Xi reactivation and alternative methods to restore MECP2 function in Rett syndrome

3 March 2022 eLife

Amit Jairaman, Amanda McQuade, Alberto Granzotto, You Jung Kang, Jean Paul Chadarevian, Sunil Gandhi, Ian Parker, Ian Smith, Hansang Cho, Stefano L Sensi, Shivashankar Othy, Mathew Blurton-Jones, Michael D Cahalan

TREM2 regulates purinergic receptor-mediated calcium signaling and motility in human iPSC-derived microglia

1 March 2022 Current Opinion in Pharmacology

Ayisha Mahmood, Veronique E Miron

Microglia as therapeutic targets for central nervous system remyelination

25 February 2022 Science Translational Medicine

Paul J. Hop, Ramona A.J. Zwamborn, Eilis Hannon, Gemma L. Shireby, Marta F. Nabais, Emma M. Walker, Wouter van Rheenen, Joke J.F.A. van Vugt,Annelot M. Dekker... Jan H. Veldink

Genome-wide study of DNA methylation shows alterations in metabolic, inflammatory, and cholesterol pathways in ALS

22 February 2022 Nature

YoungJu Jo, Hyungjoo Cho, Wei Sun Park, Geon Kim, DongHun Ryu, Young Seo Kim, Moosung Lee, Sangwoo Park, Mahn Jae Lee, Hosung Joo, HangHun Jo, Seongsoo Lee, Sumin Lee, Hyun-seok Min, Won Do Heo & YongKeun Park

Label-free multiplexed microtomography of endogenous subcellular dynamics using generalizable deep learning

12 February 2022 Science

Yanxiang Deng, Marek Bartosovicpetra Kukanja, Di Zhang, Yang Liu, Graham Su, Archibald Enninful, Hiliang Bai, Gonçalo Castelo-Branco and Ron Fan

Spatial-CUT&Tag: Spatially resolved chromatin modification profiling at the cellular level

11 February 2022 Nature

Michael Notaras, Aiman Lodhi, Friederike Dündar, Paul Collier, Nicole M. Sayles, Hagen Tilgner, David Greening & Dilek Colak

Schizophrenia is defined by cell-specific neuropathology and multiple neurodevelopmental mechanisms in patient-derived cerebral organoids

10 February 2022 Nature

Bilal Cakir, Yoshiaki Tanaka, Ferdi Ridvan Kiral, Yangfei Xiang, Onur Dagliyan, Juan Wang, Maria Lee, Allison M. Greaney, Woo Sub Yang, Catherine duBoulay, Mehmet Hamdi Kural, Benjamin Patterson, Mei Zhong, Jonghun Kim, Yalai Bai, Wang Min, Laura E. Niklason, Prabir Patra & In-Hyun Park

Expression of the transcription factor PU.1 induces the generation of microglia-like cells in human cortical organoids

6 February 2022 Nature

Erik C. B. Johnson, E. Kathleen Carter, Eric B. Dammer, Duc M. Duong, Ekaterina S. Gerasimov, Yue Liu, Jiaqi Liu, Ranjita Betarbet, Lingyan Ping, Luming Yin, Geidy E. Serrano, Thomas G. Beach, Junmin Peng, Philip L. De Jager, Vahram Haroutunian, Bin Zhang, Chris Gaiteri, David A. Bennett, Marla Gearing, Thomas S. Wingo, Aliza P. Wingo, James J. Lah, Allan I. Levey & Nicholas T. Seyfried