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Single-cell mtDNA dynamics in tumors is driven by coregulation of nuclear and mitochondrial genomes Nat. Genet. (IF 30.8) Pub Date : 2024-05-13 Minsoo Kim, Alexander N. Gorelick, Ignacio Vàzquez-García, Marc J. Williams, Sohrab Salehi, Hongyu Shi, Adam C. Weiner, Nick Ceglia, Tyler Funnell, Tricia Park, Sonia Boscenco, Ciara H. O’Flanagan, Hui Jiang, Diljot Grewal, Cerise Tang, Nicole Rusk, Payam A. Gammage, Andrew McPherson, Sam Aparicio, Sohrab P. Shah, Ed Reznik
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Integrating population genetics, stem cell biology and cellular genomics to study complex human diseases Nat. Genet. (IF 30.8) Pub Date : 2024-05-13 Nona Farbehi, Drew R. Neavin, Anna S. E. Cuomo, Lorenz Studer, Daniel G. MacArthur, Joseph E. Powell
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Harnessing clonal gametes in hybrid crops to engineer polyploid genomes Nat. Genet. (IF 30.8) Pub Date : 2024-05-13 Yazhong Wang, Roven Rommel Fuentes, Willem M. J. van Rengs, Sieglinde Effgen, Mohd Waznul Adly Mohd Zaidan, Rainer Franzen, Tamara Susanto, Joiselle Blanche Fernandes, Raphael Mercier, Charles J. Underwood
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Genetic mapping across autoimmune diseases reveals shared associations and mechanisms Nat. Genet. (IF 30.8) Pub Date : 2024-05-13 Matthew R. Lincoln, Noah Connally, Pierre-Paul Axisa, Christiane Gasperi, Mitja Mitrovic, David van Heel, Cisca Wijmenga, Sebo Withoff, Iris H. Jonkers, Leonid Padyukov, Stephen S. Rich, Robert R. Graham, Patrick M. Gaffney, Carl D. Langefeld, Timothy J. Vyse, David A. Hafler, Sung Chun, Shamil R. Sunyaev, Chris Cotsapas
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Polyglutamine-mediated ribotoxicity disrupts proteostasis and stress responses in Huntington’s disease Nat. Cell Biol. (IF 21.3) Pub Date : 2024-05-13 Ranen Aviner, Ting-Ting Lee, Vincent B. Masto, Kathy H. Li, Raul Andino, Judith Frydman
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Linking CRISPR–Cas9 double-strand break profiles to gene editing precision with BreakTag Nat. Biotechnol. (IF 46.9) Pub Date : 2024-05-13 Gabriel M. C. Longo, Sergi Sayols, Andriana G. Kotini, Sabine Heinen, Martin M. Möckel, Petra Beli, Vassilis Roukos
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Why my heart beats for Nigeria’s endangered bats Nature (IF 64.8) Pub Date : 2024-05-13
Iroro Tanshi works to better understand a number of threatened species.
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Decent work for all: why multinationals need a helping hand Nature (IF 64.8) Pub Date : 2024-05-13
Moses Ngoze explains why the growth of micro, small and medium enterprises in Africa are key to achieving global economic growth.
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World’s brightest X-rays: China first in Asia to build next-generation synchrotron Nature (IF 64.8) Pub Date : 2024-05-13
The US$665-million High Energy Photon Source (HEPS) outside Beijing puts China among only a handful of countries that have fourth-generation synchrotron light sources.
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Is the Internet bad for you? Huge study reveals surprise effect on well-being Nature (IF 64.8) Pub Date : 2024-05-12
A survey of more than 2.4 million people finds that being online can have a positive effect on welfare.
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Daily briefing: ‘The ugly side of science’ — how to report negative results Nature (IF 64.8) Pub Date : 2024-05-09
Data repositories, workshops and alternative journals allow scientists to destigmatize and discuss negative results. Plus, a major step toward ultra-precise ‘nuclear’ clocks and the first rocky exoplanet with a confirmed atmosphere.
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Perivascular neurons instruct 3D vascular lattice formation via neurovascular contact Cell (IF 64.5) Pub Date : 2024-05-10 Kenichi Toma, Mengya Zhao, Shaobo Zhang, Fei Wang, Hannah K. Graham, Jun Zou, Shweta Modgil, Wenhao H. Shang, Nicole Y. Tsai, Zhishun Cai, Liping Liu, Guiying Hong, Arnold R. Kriegstein, Yang Hu, Jakob Körbelin, Ruobing Zhang, Yaping Joyce Liao, Tyson N. Kim, Xin Ye, Xin Duan
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Spinal projecting neurons in rostral ventromedial medulla co-regulate motor and sympathetic tone Cell (IF 64.5) Pub Date : 2024-05-10 Zicong Zhang, Junfeng Su, Jing Tang, Leeyup Chung, Jessica C. Page, Carla C. Winter, Yuchu Liu, Evgenii Kegeles, Sara Conti, Yu Zhang, Jason Biundo, Joshua I. Chalif, Charles Y. Hua, Zhiyun Yang, Xue Yao, Yang Yang, Shuqiang Chen, Jan M. Schwab, Kuan Hong Wang, Chinfei Chen, Zhigang He
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These parrots go on killing sprees over real-estate shortages Nature (IF 64.8) Pub Date : 2024-05-10
Scientists recorded green-rumped parrotlets pecking others’ chicks to death, probably to claim the nest space.
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Diana Wall obituary: ecologist who foresaw the importance of soil biodiversity Nature (IF 64.8) Pub Date : 2024-05-10
Environmental scientist who revealed the crucial role of underground animals in sustainability.
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Transcription factor dynamics, oscillation, and functions in human enteroendocrine cell differentiation Cell Stem Cell (IF 23.9) Pub Date : 2024-05-10 Pratik N.P. Singh, Wei Gu, Shariq Madha, Allen W. Lynch, Paloma Cejas, Ruiyang He, Swarnabh Bhattacharya, Miguel Muñoz Gomez, Matthew G. Oser, Myles Brown, Henry W. Long, Clifford A. Meyer, Qiao Zhou, Ramesh A. Shivdasani
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Metabolic regulator ERRγ governs gastric stem cell differentiation into acid-secreting parietal cells Cell Stem Cell (IF 23.9) Pub Date : 2024-05-10 Mahliyah Adkins-Threats, Sumimasa Arimura, Yang-Zhe Huang, Margarita Divenko, Sarah To, Heather Mao, Yongji Zeng, Jenie Y. Hwang, Joseph R. Burclaff, Shilpa Jain, Jason C. Mills
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Understanding liver repair through space and time Nat. Genet. (IF 30.8) Pub Date : 2024-05-10 Lenka Belicova, Noemi Van Hul, Emma R. Andersson
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A jawless-fish genome untangles the history of vertebrate genome multiplications Nature (IF 64.8) Pub Date : 2024-05-10
Hagfish genetics shed light on how early vertebrates evolved.
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CRISPR therapy restores some vision to people with blindness Nature (IF 64.8) Pub Date : 2024-05-09
People with an inherited condition that causes vision loss in childhood had vision improvements after treatment to replace a mutated gene.
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The US Congress is taking on AI —this computer scientist is helping Nature (IF 64.8) Pub Date : 2024-05-09
Kiri Wagstaff, who temporarily shelved her academic career to provide advice on federal AI legislation, talks about life inside the halls of power.
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Cubic millimetre of brain mapped in spectacular detail Nature (IF 64.8) Pub Date : 2024-05-09
Google scientists have modelled a fragment of the human brain at nanoscale resolution, revealing cells with previously undiscovered features.
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US TikTok ban: how the looming restriction is affecting scientists on the app Nature (IF 64.8) Pub Date : 2024-05-09
Nature talks to researchers about what is at stake if users in the country lose access.
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How the cauliflower got its curlicues Nature (IF 64.8) Pub Date : 2024-05-08
More than 2,000 years of domestication have given the popular vegetable its short stem and clumpy ‘curds’.
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Directly imaging spin polarons in a kinetically frustrated Hubbard system Nature (IF 64.8) Pub Date : 2024-05-08 Max L. Prichard, Benjamin M. Spar, Ivan Morera, Eugene Demler, Zoe Z. Yan, Waseem S. Bakr
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Mechanics limits ecological diversity and promotes heterogeneity in confined bacterial communities Proc. Natl. Acad. Sci. U.S.A. (IF 11.1) Pub Date : 2024-05-10 Tianyi Ma, Jeremy Rothschild, Faisal Halabeya, Anton Zilman, Joshua N. Milstein
Multispecies bacterial populations often inhabit confined and densely packed environments where spatial competition determines the ecological diversity of the community. However, the role of mechanical interactions in shaping the ecology is still poorly understood. Here, we study a model system consisting of two populations of nonmotile Escherichia coli bacteria competing within open, monolayer microchannels
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General reversal of N-decomposition relationship during long-term decomposition in boreal and temperate forests Proc. Natl. Acad. Sci. U.S.A. (IF 11.1) Pub Date : 2024-05-10 Tao Sun, Lili Dong, Yunyu Zhang, Stephan Hättenschwiler, William H. Schlesinger, Jiaojun Zhu, Björn Berg, E. Carol Adair, Yunting Fang, Sarah E. Hobbie
Decomposition of dead organic matter is fundamental to carbon (C) and nutrient cycling in terrestrial ecosystems, influencing C fluxes from the biosphere to the atmosphere. Theory predicts and evidence strongly supports that the availability of nitrogen (N) limits litter decomposition. Positive relationships between substrate N concentrations and decomposition have been embedded into ecosystem models
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The future of rapid and automated single-cell data analysis using reference mapping Cell (IF 64.5) Pub Date : 2024-05-09 Mohammad Lotfollahi, , Fabian J. Theis, Rahul Satija
As the number of single-cell datasets continues to grow rapidly, workflows that map new data to well-curated reference atlases offer enormous promise for the biological community. In this perspective, we discuss key computational challenges and opportunities for single-cell reference-mapping algorithms. We discuss how mapping algorithms will enable the integration of diverse datasets across disease
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Analysis of 3D pathology samples using weakly supervised AI Cell (IF 64.5) Pub Date : 2024-05-09 Andrew H. Song, Mane Williams, Drew F.K. Williamson, Sarah S.L. Chow, Guillaume Jaume, Gan Gao, Andrew Zhang, Bowen Chen, Alexander S. Baras, Robert Serafin, Richard Colling, Michelle R. Downes, Xavier Farré, Peter Humphrey, Clare Verrill, Lawrence D. True, Anil V. Parwani, Jonathan T.C. Liu, Faisal Mahmood
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The phosphorylation landscape of infection-related development by the rice blast fungus Cell (IF 64.5) Pub Date : 2024-05-09 Neftaly Cruz-Mireles, Miriam Osés-Ruiz, Paul Derbyshire, Clara Jégousse, Lauren S. Ryder, Mark Jave A. Bautista, Alice Eseola, Jan Sklenar, Bozeng Tang, Xia Yan, Weibin Ma, Kim C. Findlay, Vincent Were, Dan MacLean, Nicholas J. Talbot, Frank L.H. Menke
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Neurotransmitter classification from electron microscopy images at synaptic sites in Drosophila melanogaster Cell (IF 64.5) Pub Date : 2024-05-09 Nils Eckstein, Alexander Shakeel Bates, Andrew Champion, Michelle Du, Yijie Yin, Philipp Schlegel, Alicia Kun-Yang Lu, Thomson Rymer, Samantha Finley-May, Tyler Paterson, Ruchi Parekh, Sven Dorkenwald, Arie Matsliah, Szi-Chieh Yu, Claire McKellar, Amy Sterling, Katharina Eichler, Marta Costa, Sebastian Seung, Mala Murthy, Jan Funke
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Direct transposition of native DNA for sensitive multimodal single-molecule sequencing Nat. Genet. (IF 30.8) Pub Date : 2024-05-09 Arjun S. Nanda, Ke Wu, Iryna Irkliyenko, Brian Woo, Megan S. Ostrowski, Andrew S. Clugston, Leanne C. Sayles, Lingru Xu, Ansuman T. Satpathy, Hao G. Nguyen, E. Alejandro Sweet-Cordero, Hani Goodarzi, Sivakanthan Kasinathan, Vijay Ramani
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Systematic epigenome editing captures the context-dependent instructive function of chromatin modifications Nat. Genet. (IF 30.8) Pub Date : 2024-05-09 Cristina Policarpi, Marzia Munafò, Stylianos Tsagkris, Valentina Carlini, Jamie A. Hackett
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Decoding cell replicational age from single-cell ATAC-seq data Nat. Biotechnol. (IF 46.9) Pub Date : 2024-05-09
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Tracking single-cell evolution using clock-like chromatin accessibility loci Nat. Biotechnol. (IF 46.9) Pub Date : 2024-05-09 Yu Xiao, Wan Jin, Lingao Ju, Jie Fu, Gang Wang, Mengxue Yu, Fangjin Chen, Kaiyu Qian, Xinghuan Wang, Yi Zhang
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An effective MASH drug is good, but biotech can make it better Nat. Biotechnol. (IF 46.9) Pub Date : 2024-05-08
Understanding this complex disease requires better model systems and large-scale data.
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Rhizobia–diatom symbiosis fixes missing nitrogen in the ocean Nature (IF 64.8) Pub Date : 2024-05-09 Bernhard Tschitschko, Mertcan Esti, Miriam Philippi, Abiel T. Kidane, Sten Littmann, Katharina Kitzinger, Daan R. Speth, Shengjie Li, Alexandra Kraberg, Daniela Tienken, Hannah K. Marchant, Boran Kartal, Jana Milucka, Wiebke Mohr, Marcel M. M. Kuypers
Nitrogen (N2) fixation in oligotrophic surface waters is the main source of new nitrogen (N) to the ocean1 and plays a key role in fueling the biological carbon pump2. Oceanic N2 fixation is almost exclusively attributed to cyanobacteria, even though genes encoding nitrogenase, the enzyme fixing N2 into ammonia, are widespread among marine bacteria and archaea3-5. Little is known about these non-cyanobacterial
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How ignorance and gender inequality thwart treatment of a widespread illness Nature (IF 64.8) Pub Date : 2024-05-09
Tens of millions of people have female genital schistosomiasis, a neglected tropical disease that few physicians have even heard of. Efforts are under way to move it out of obscurity and empower women and girls to access sexual and reproductive health care.
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Structural mechanism of angiogenin activation by the ribosome Nature (IF 64.8) Pub Date : 2024-05-08 Anna B. Loveland, Cha San Koh, Robin Ganesan, Allan Jacobson, Andrei A. Korostelev
Angiogenin, an RNase A-family protein, promotes angiogenesis and has been implicated in cancer, neurodegenerative diseases, and epigenetic inheritance 1-10. Upon activation during cellular stress, angiogenin cleaves tRNAs at the anticodon loop, resulting in translation repression 11-15. The catalytic activity of isolated angiogenin, however, is very low, and the mechanisms of the enzyme activation
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A secondary atmosphere on the rocky Exoplanet 55 Cancri e Nature (IF 64.8) Pub Date : 2024-05-08 Renyu Hu, Aaron Bello-Arufe, Michael Zhang, Kimberly Paragas, Mantas Zilinskas, Christiaan van Buchem, Michael Bess, Jayshil Patel, Yuichi Ito, Mario Damiano, Markus Scheucher, Apurva V. Oza, Heather A. Knutson, Yamila Miguel, Diana Dragomir, Alexis Brandeker, Brice-Olivier Demory
Characterizing rocky exoplanets is a central endeavor of astronomy, and yet the search for atmospheres on rocky exoplanets has hitherto resulted in either tight upper limits on the atmospheric mass1–3 or inconclusive results4–6. The 1.95-REarth and 8.8-MEarth planet 55 Cnc e, with a predominantly rocky composition and an equilibrium temperature of ~2000 K, may have a volatile envelope (containing molecules
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Accurate structure prediction of biomolecular interactions with AlphaFold 3 Nature (IF 64.8) Pub Date : 2024-05-08 Josh Abramson, Jonas Adler, Jack Dunger, Richard Evans, Tim Green, Alexander Pritzel, Olaf Ronneberger, Lindsay Willmore, Andrew J. Ballard, Joshua Bambrick, Sebastian W. Bodenstein, David A. Evans, Chia-Chun Hung, Michael O’Neill, David Reiman, Kathryn Tunyasuvunakool, Zachary Wu, Akvilė Žemgulytė, Eirini Arvaniti, Charles Beattie, Ottavia Bertolli, Alex Bridgland, Alexey Cherepanov, Miles Congreve
The introduction of AlphaFold 21 has spurred a revolution in modelling the structure of proteins and their interactions, enabling a huge range of applications in protein modelling and design2–6. In this paper, we describe our AlphaFold 3 model with a substantially updated diffusion-based architecture, which is capable of joint structure prediction of complexes including proteins, nucleic acids, small
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Elastic films of single-crystal two-dimensional covalent organic frameworks Nature (IF 64.8) Pub Date : 2024-05-08 Yonghang Yang, Baokun Liang, Jakob Kreie, Mike Hambsch, Zihao Liang, Cheng Wang, Senhe Huang, Xin Dong, Li Gong, Chaolun Liang, Dongyang Lou, Zhipeng Zhou, Jiaxing Lu, Yang Yang, Xiaodong Zhuang, Haoyuan Qi, Ute Kaiser, Stefan C. B. Mannsfeld, Wei Liu, Armin Gölzhäuser, Zhikun Zheng
The properties of polycrystalline materials are often dominated by defects, and two-dimensional (2D) crystals can even be divided and disrupted by a line defect1-3. In contrast, 2D crystals are often required to be processed into films, which are inevitably polycrystalline and contain numerous grain boundaries, and therefore are brittle and fragile, hindering application in flexible electronics, optoelectronics
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Alphafold 3.0: the AI protein predictor gets an upgrade Nature (IF 64.8) Pub Date : 2024-05-08
Hear the biggest stories from the world of science | 8 May 2024
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Mapping genotypes to chromatin accessibility profiles in single cells Nature (IF 64.8) Pub Date : 2024-05-08 Franco Izzo, Robert M. Myers, Saravanan Ganesan, Levan Mekerishvili, Sanjay Kottapalli, Tamara Prieto, Elliot O. Eton, Theo Botella, Andrew J. Dunbar, Robert L. Bowman, Jesus Sotelo, Catherine Potenski, Eleni P. Mimitou, Maximilian Stahl, Sebastian El Ghaity-Beckley, JoAnn Arandela, Ramya Raviram, Daniel C. Choi, Ronald Hoffman, Ronan Chaligné, Omar Abdel-Wahab, Peter Smibert, Irene M. Ghobrial, Joseph
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Observation of Nagaoka polarons in a Fermi–Hubbard quantum simulator Nature (IF 64.8) Pub Date : 2024-05-08 Martin Lebrat, Muqing Xu, Lev Haldar Kendrick, Anant Kale, Youqi Gang, Pranav Seetharaman, Ivan Morera, Ehsan Khatami, Eugene Demler, Markus Greiner
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Full-colour 3D holographic augmented-reality displays with metasurface waveguides Nature (IF 64.8) Pub Date : 2024-05-08 Manu Gopakumar, Gun-Yeal Lee, Suyeon Choi, Brian Chao, Yifan Peng, Jonghyun Kim, Gordon Wetzstein
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The refinery of the future Nature (IF 64.8) Pub Date : 2024-05-08 Eelco T. C. Vogt, Bert M. Weckhuysen
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All-optical subcycle microscopy on atomic length scales Nature (IF 64.8) Pub Date : 2024-05-08 T. Siday, J. Hayes, F. Schiegl, F. Sandner, P. Menden, V. Bergbauer, M. Zizlsperger, S. Nerreter, S. Lingl, J. Repp, J. Wilhelm, M. A. Huber, Y. A. Gerasimenko, R. Huber
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The intrinsic substrate specificity of the human tyrosine kinome Nature (IF 64.8) Pub Date : 2024-05-08 Tomer M. Yaron-Barir, Brian A. Joughin, Emily M. Huntsman, Alexander Kerelsky, Daniel M. Cizin, Benjamin M. Cohen, Amit Regev, Junho Song, Neil Vasan, Ting-Yu Lin, Jose M. Orozco, Christina Schoenherr, Cari Sagum, Mark T. Bedford, R. Max Wynn, Shih-Chia Tso, David T. Chuang, Lei Li, Shawn S.-C. Li, Pau Creixell, Konstantin Krismer, Mina Takegami, Harin Lee, Bin Zhang, Jingyi Lu, Ian Cossentino, Sean
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Chemical short-range disorder in lithium oxide cathodes Nature (IF 64.8) Pub Date : 2024-05-08 Qidi Wang, Zhenpeng Yao, Jianlin Wang, Hao Guo, Chao Li, Dong Zhou, Xuedong Bai, Hong Li, Baohua Li, Marnix Wagemaker, Chenglong Zhao
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Boron catalysis in a designer enzyme Nature (IF 64.8) Pub Date : 2024-05-08 Lars Longwitz, Reuben B. Leveson-Gower, Henriëtte J. Rozeboom, Andy-Mark W. H. Thunnissen, Gerard Roelfes
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Genome organization around nuclear speckles drives mRNA splicing efficiency Nature (IF 64.8) Pub Date : 2024-05-08 Prashant Bhat, Amy Chow, Benjamin Emert, Olivia Ettlin, Sofia A. Quinodoz, Mackenzie Strehle, Yodai Takei, Alex Burr, Isabel N. Goronzy, Allen W. Chen, Wesley Huang, Jose Lorenzo M. Ferrer, Elizabeth Soehalim, Say-Tar Goh, Tara Chari, Delaney K. Sullivan, Mario R. Blanco, Mitchell Guttman
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Ligand cross-feeding resolves bacterial vitamin B12 auxotrophies Nature (IF 64.8) Pub Date : 2024-05-08 Gerrit Wienhausen, Cristina Moraru, Stefan Bruns, Den Quoc Tran, Sabiha Sultana, Heinz Wilkes, Leon Dlugosch, Farooq Azam, Meinhard Simon
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Structural pharmacology and therapeutic potential of 5-methoxytryptamines Nature (IF 64.8) Pub Date : 2024-05-08 Audrey L. Warren, David Lankri, Michael J. Cunningham, Inis C. Serrano, Lyonna F. Parise, Andrew C. Kruegel, Priscilla Duggan, Gregory Zilberg, Michael J. Capper, Vaclav Havel, Scott J. Russo, Dalibor Sames, Daniel Wacker
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An atomic boson sampler Nature (IF 64.8) Pub Date : 2024-05-08 Aaron W. Young, Shawn Geller, William J. Eckner, Nathan Schine, Scott Glancy, Emanuel Knill, Adam M. Kaufman
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Self-oscillating polymeric refrigerator with high energy efficiency Nature (IF 64.8) Pub Date : 2024-05-08 Donglin Han, Yingjing Zhang, Cenling Huang, Shanyu Zheng, Dongyuan Wu, Qiang Li, Feihong Du, Hongxiao Duan, Weilin Chen, Junye Shi, Jiangping Chen, Gang Liu, Xin Chen, Xiaoshi Qian
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Targetable leukaemia dependency on noncanonical PI3Kγ signalling Nature (IF 64.8) Pub Date : 2024-05-08 Qingyu Luo, Evangeline G. Raulston, Miguel A. Prado, Xiaowei Wu, Kira Gritsman, Karley S. Whalen, Kezhi Yan, Christopher A. G. Booth, Ran Xu, Peter van Galen, John G. Doench, Shai Shimony, Henry W. Long, Donna S. Neuberg, Joao A. Paulo, Andrew A. Lane
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Dozens of Brazilian universities hit by strikes over academic wages Nature (IF 64.8) Pub Date : 2024-05-08
Some professors and staff members have been on strike for as long as four weeks as they seek better conditions at their institutions.
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Quantum tunnelling of electrons brings ultrafast optical microscopy to the atomic scale Nature (IF 64.8) Pub Date : 2024-05-08
A signal from tunnelling electrons enables the development of an optical microscope that works on extremely short spatio-temporal scales.
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Physicists move closer to an ultra-precise ‘nuclear’ clock Nature (IF 64.8) Pub Date : 2024-05-08
Timekeepers based on energy shifts in atomic nuclei could transform fundamental-physics research.