By Basic Sciences department

Biochemistry

• STOPGAP, an open-source package for template matching, subtomogram alignment, and classification (preprint). bioRxiv.
  William Wan*.
  
  “We describe the subtomogram averaging algorithms we find useful,” William Wan.
  
  
  
• Atezolizumab in Combination With Carboplatin and Survival Outcomes in Patients With Metastatic Triple-Negative Breast Cancer: The TBCRC 043 Phase 2 Randomized Clinical Trial. JAMA Oncology.
  Brian Lehmann*, Vandana Abramson*, Hanbing An, Paula Gonzalez-Ericsson, Melinda Sanders, Kimberly Newsom, Richard Abramson, Quanhu Sheng, Chih-Yuan Hsu, Yu Shyr, Antonio Wolff, Jennifer Pietenpol.
  
  
• Lysolipids are prominent in subretinal drusenoid deposits, a high-risk phenotype in age-related macular degeneration. Frontiers in Ophthalmology.
  David Anderson*, Ankita Kotnala*, Heath Patterson, Kevin Schey*.
  
  Highlighted on the Basic Sciences website.
  
  
• In situ lipidomics of Staphylococcus aureus osteomyelitis using imaging mass spectrometry (preprint). bioRxiv.
  Christopher Good*, Casey Butrico, Madeline Colley, Katherine Gibson-Corley, James Cassat, Jeffrey Spraggins, Richard Caprioli.
  
  

Cell and Developmental Biology

• Temporal recording of mammalian development and precancer (preprint). bioRxiv.
  Mirazul Islam, Yilin Yang, Alan J. Simmons, Vishal Shah, Yanwen Xu, Naila Tasneem, Zhengyi Chen, Linh Trinh, Paola Molina, Marisol Ramirez-Solano, Mark Magnuson, Jeffrey Rathmell, Ian Macara, Qi Liu, Martha Shrubsole, Robert Coffey Jr., Ken Lau*.
  
  “Preprint by [Mirazul Islam] from the Lau Lab on using mutations (somatic or CRISPR generated) for temporal tracking, revealing new insights into gut developmental and polyclonal ancestry of colorectal precancers,” Ken Lau lab.
  
  

Molecular Physiology and Biophysics

• Dissecting organelle interdependence. Nature Cell Biology.
  Antentor Hinton Jr.*, Andrea Marshall
  
  
• Climbing the mountain of adversity and removing barriers along the path. iScience.
  Antentor Hinton Jr.*

Pharmacology

• D1 and D2 medium spiny neurons in the nucleus accumbens core have distinct and valence-independent roles in learning. Neuron.
  Jennifer Zachry*, Munir Gunes Kutlu* (Rowan University), Hye Jean Yoon, Michael Leonard, Maxime Chevée, Dev Patel, Anthony Gaidici, Veronika Kondev, Kimberly Thibeault, Rishik Bethi, Jennifer Tat, Patrick Melugin, Atagun Isiktas, Max Joffe, Jeffrey Conn, Brad Grueter, Erin Calipari*.
  
  
• Diagnostic and Therapeutic Radiopharmaceuticals: A “Hot” Topic. Journal of Medicinal Chemistry.
  Craig Lindsley, Salvatore Bongarzone* (Novartis).
  
  
• Harnessing the potential of CD40 agonism in cancer therapy.
  Cytokine & Growth Factor Reviews.
  Yang Zhou*, Ann Richmond, Chi Yan.

Other biomedical basic sciences papers

• Multi-site validation of a functional assay to adjudicate SCN5A Brugada Syndrome-associated variants (preprint). medRxiv.
  Joanne Ma (Victor Chang Cardiac Research Institute), Matthew O’Neill, Ayesha Muhammad, Joseph Solus, Giovanni Davogustto, Katherine Anderson, Benjamin Shoemaker, Dan Roden, Andrew Glazer.
  
  “The assay did a near-perfect job of distinguishing benign from pathogenic variant controls. Applying ClinGen guidelines, we can implement the assay at the strong level in the ACMG classification scheme,” Andrew Glazer.
  
  
• Serine Deamination Is a New Acid Tolerance Mechanism Observed in Uropathogenic Escherichia coli. mBio.
  Michelle Wiebe*, John Brannon, Bradley Steiner*, Adebisi Bamidele, Alexandra Schrimpe-Rutledge, Simona Codreanu, Stacy Sherrod, John McLean, Maria Hadjifrangiskou*.
  
  Highlighted in Discoveries in Medicine.
  
  
• Nucleus accumbens core single cell ensembles bidirectionally respond to experienced versus observed aversive events. Nature Scientific Reports.
  Oyku Dinckol (Rowan University)*, Jennifer Zachry.
  
  
• Fatal iatrogenic cerebral β-amyloid-related arteritis in a woman treated with lecanemab for Alzheimer’s disease. Nature Communications.
  Elena Solopova*, Wilber Romero-Fernandez*, Hannah Harmsen, Lissa Ventura-Antunes, Emmeline Wang, Alena Shostak, José Maldonado, Manus Donahue, Matthew Schrag*.
  
  
• Myeloid deletion of talin-1 reduces mucosal macrophages and protects mice from colonic inflammation. Nature Scientific Reports.
  Yvonne Latour*, Kara McNamara*, Margaret Allaman, Daniel Barry, Thaddeus Smith, Mohammad Asim, Kamery Williams, Caroline Hawkins, Justin Jacobse, Jeremy Goettel, Alberto Delgado, Blanca Piazuelo, Kay Washington, Alain Gobert, Keith Wilson*.
  
  
• A call to action following the US Supreme Court affirmative action ruling. The Lancet.
  Rocio I Pereira* (Denver Health and Hospital Authority), Antentor Hinton Jr.
  
  
• Image-based spatial transcriptomics identifies molecular niche dysregulation associated with distal lung remodeling in pulmonary fibrosis (preprint) bioRxiv.
  Annika Vannan* (Translational Genomics Research Institute), Nicholas Negretti, Joseph Hirsh, Samuel Hirsh, David Nichols, Carla Calvi, Chase Taylor, Vasiliy Polosukhin, Ana Serezani, Scott McCall, Jason Gokey, Lorraine Ware, Matthew Bacchetta, Ciara Shaver, Timothy Blackwell, Jennifer Sucre, Jonathan Kropski.
  

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