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Select item 99490491.

Gene body DNA hydroxymethylation restricts the magnitude of transcriptional changes during aging

James R. Occean, Na Yang, Yan Sun, Marshall S. Dawkins, Rachel Munk, Cedric Belair, Showkat Dar, Carlos Anerillas, Lin Wang, Changyou Shi, Christopher Dunn, Michel Bernier, Nathan L. Price, Julie S. Kim, Chang-Yi Cui, Jinshui Fan, Moitrayee Bhattacharyya, Supriyo De, Manolis Maragkakis, Rafael deCabo, Simone Sidoli, Payel Sen

Version 2. bioRxiv. Preprint. 2023 Feb 15 [revised 2024 Jul 3]. doi: 10.1101/2023.02.15.528714

Published in:: Nat Commun. 2024; 15: 6357.

PMCID:: PMC9949049

Abstract Article

Select item 106350422.

Automated single-cell omics end-to-end framework with data-driven batch inference

Yuan Wang, William Thistlethwaite, Alicja Tadych, Frederique Ruf-Zamojski, Daniel J Bernard, Antonio Cappuccio, Elena Zaslavsky, Xi Chen, Stuart C. Sealfon, Olga G. Troyanskaya

Version 2. bioRxiv. Preprint. 2023 Nov 4 [revised 2024 Jun 20]. doi: 10.1101/2023.11.01.564815

Published in:: Cell Syst. 2024 Oct 16; 15(10): 982–990.e5.

PMCID:: PMC10635042

Abstract Article PDF–2.6M

Select item 105926193.

Delivery of A Jagged1-PEG-MAL hydrogel with Pediatric Human Bone Cells Regenerates Critically-Sized Craniofacial Bone Defects

Archana Kamalakar, Brendan Tobin, Sundus Kaimari, M. Hope Robinson, Afra I. Toma, Timothy Cha, Samir Chihab, Irica Moriarity, Surabhi Gautam, Pallavi Bhattaram, Shelly Abramowicz, Hicham Drissi, Andrés J. García, Levi B. Wood, Steven L. Goudy

Version 3. bioRxiv. Preprint. 2023 Oct 10 [revised 2024 Jun 20]. doi: 10.1101/2023.10.06.561291

Published in:: eLife. 2024; 13: RP92925.

PMCID:: PMC10592619

Abstract Article PDF–3.1M

Select item 110888934.

Silencing METTL14 alleviates liver injury in non-alcoholic fatty liver disease by regulating mitochondrial homeostasis

Wei Wang, Jun Yan, Long Han, Zi-Lin Zou, Ai-Lei Xu

Biomol Biomed. 2024 Jun 1; 24(3): 505–519. Published online 2024 Jun 1. doi: 10.17305/bb.2023.9698

PMCID:: PMC11088893

Abstract Article PDF–4.6M

Select item 109798625.

RNA Polymerase II hypertranscription in cancer FFPE samples

Steven Henikoff, Jorja G. Henikoff, Ronald M. Paranal, Jacob E. Greene, Ye Zheng, Zachary R. Russell, Frank Szulzewsky, Sita Kugel, Eric C. Holland, Kami Ahmad

Version 3. bioRxiv. Preprint. NaN NaN [revised 2024 May 21]. doi: 10.1101/2024.02.28.582647

PMCID:: PMC10979862

Abstract Article PDF–6.8M

Select item 110911696.

Platelets favor the outgrowth of established metastases

Maria J. Garcia-Leon, Cristina Liboni, Vincent Mittelheisser, Louis Bochler, Gautier Follain, Clarisse Mouriaux, Ignacio Busnelli, Annabel Larnicol, Florent Colin, Marina Peralta, Naël Osmani, Valentin Gensbittel, Catherine Bourdon, Rafael Samaniego, Angélique Pichot, Nicodème Paul, Anne Molitor, Raphaël Carapito, Martine Jandrot-Perrus, Olivier Lefebvre, Pierre H. Mangin, Jacky G. Goetz

Nat Commun. 2024; 15: 3297. Published online 2024 May 13. doi: 10.1038/s41467-024-47516-w

PMCID:: PMC11091169

Abstract Article PDF–15M

Select item 110911517.

SNPs in microRNA seed region and impact of miR-375 in concurrent regulation of multiple lipid accumulation-related genes

Jiyeon Lee, Inpyo Hong, Chanwoo Lee, Daehyun Kim, Sunghak Kim, Yoonseok Lee

Sci Rep. 2024; 14: 10924. Published online 2024 May 13. doi: 10.1038/s41598-024-61673-4

PMCID:: PMC11091151

Abstract Article PDF–2.4M

Select item 110910698.

Global transcriptome profiles provide insights into muscle cell development and differentiation on microstructured marine biopolymer scaffolds for cultured meat production

Dragica Bezjak, Nicole Orellana, Guillermo Valdivia, Cristian A. Acevedo, Jorge H. Valdes

Sci Rep. 2024; 14: 10931. Published online 2024 May 13. doi: 10.1038/s41598-024-61458-9

PMCID:: PMC11091069

Abstract Article PDF–4.4M

Select item 110889959.

Combined transcriptomics and proteomics unveil the impact of vitamin C in modulating specific protein abundance in the mouse liver

Lucie Aumailley, Antoine Bodein, Pauline Adjibade, Mickaël Leclercq, Sylvie Bourassa, Arnaud Droit, Rachid Mazroui, Michel Lebel

Biol Res. 2024; 57: 26. Published online 2024 May 12. doi: 10.1186/s40659-024-00509-x

PMCID:: PMC11088995

Abstract Article PDF–6.0M

Select item 1108755310.

Fused in sarcoma (FUS) inhibits milk production efficiency in mammals

Haili Shao, Jipeng Huang, Hui Wang, Guolei Wang, Xu Yang, Mei Cheng, Changjie Sun, Li Zou, Qin Yang, Dandan Zhang, Zhen Liu, Xuelong Jiang, Lei Shi, Peng Shi, Baowei Han, Baowei Jiao

Nat Commun. 2024; 15: 3953. Published online 2024 May 10. doi: 10.1038/s41467-024-48428-5

PMCID:: PMC11087553

Abstract Article PDF–7.8M

Select item 1108746411.

Comprehensive assessment of mRNA isoform detection methods for long-read sequencing data

Yaqi Su, Zhejian Yu, Siqian Jin, Zhipeng Ai, Ruihong Yuan, Xinyi Chen, Ziwei Xue, Yixin Guo, Di Chen, Hongqing Liang, Zuozhu Liu, Wanlu Liu

Nat Commun. 2024; 15: 3972. Published online 2024 May 10. doi: 10.1038/s41467-024-48117-3

PMCID:: PMC11087464

Abstract Article PDF–1.9M

Select item 1108691712.

Disturbance in the protein landscape of cochlear perilymph in an Alzheimer’s disease mouse model

Masatoshi Fukuda, Hiroki Okanishi, Daisuke Ino, Kazuya Ono, Satoru Kawamura, Eri Wakai, Tsuyoshi Miyoshi, Takashi Sato, Yumi Ohta, Takashi Saito, Takaomi C. Saido, Hidenori Inohara, Yoshikatsu Kanai, Hiroshi Hibino

PLoS One. 2024; 19(5): e0303375. Published online 2024 May 10. doi: 10.1371/journal.pone.0303375

PMCID:: PMC11086917

Abstract Article PDF–1.6M

Select item 1040205113.

Disparate requirements for RAD54L in replication fork reversal

Mollie E. Uhrig, Neelam Sharma, Petey Maxwell, Platon Selemenakis, Alexander V. Mazin, Claudia Wiese

Version 2. bioRxiv. Preprint. 2023 Jul 26 [revised 2024 May 10]. doi: 10.1101/2023.07.26.550704

Published in:: Nucleic Acids Res. 2024 Nov 11; 52(20): 12390–12404.

PMCID:: PMC10402051

Abstract Article

Select item 1108223514.

ARTseq-FISH reveals position-dependent differences in gene expression of micropatterned mESCs

Xinyu Hu, Bob van Sluijs, Óscar García-Blay, Yury Stepanov, Koen Rietrae, Wilhelm T. S. Huck, Maike M. K. Hansen

Nat Commun. 2024; 15: 3918. Published online 2024 May 9. doi: 10.1038/s41467-024-48107-5

PMCID:: PMC11082235

Abstract Article PDF–6.9M

Select item 1107854615.

Analysis of intestinal epithelial cell responses to Cryptosporidium highlights the temporal effects of IFN-γ on parasite restriction

Ryan D. Pardy, Katelyn A. Walzer, Bethan A. Wallbank, Jessica H. Byerly, Keenan M. O’Dea, Ian S. Cohn, Breanne E. Haskins, Justin L. Roncaioli, Eleanor J. Smith, Gracyn Y. Buenconsejo, Boris Striepen, Christopher A. Hunter

PLoS Pathog. 2024 May; 20(5): e1011820. Published online 2024 May 8. doi: 10.1371/journal.ppat.1011820

PMCID:: PMC11078546

Abstract Article PDF–3.3M

Select item 1107854316.

Early acquisition of S-specific Tfh clonotypes after SARS-CoV-2 vaccination is associated with the longevity of anti-S antibodies

Xiuyuan Lu, Hiroki Hayashi, Eri Ishikawa, Yukiko Takeuchi, Julian Vincent Tabora Dychiao, Hironori Nakagami, Sho Yamasaki

eLife. 2024; 12: RP89999. Published online 2024 May 8. doi: 10.7554/eLife.89999

PMCID:: PMC11078543

Abstract Article PDF–1.8M

Select item 1107839617.

Impaired upper respiratory tract barrier function during postnatal development predisposes to invasive pneumococcal disease

Kristen L. Lokken-Toyli, Surya D. Aggarwal, Gavyn Chern Wei Bee, Wouter A. A. de Steenhuijsen Piters, Cindy Wu, Kenny Zhi Ming Chen, Cynthia Loomis, Debby Bogaert, Jeffrey N. Weiser

PLoS Pathog. 2024 May; 20(5): e1012111. Published online 2024 May 8. doi: 10.1371/journal.ppat.1012111