Add pmid's

Author: Aaron Meyer

_bibliography/pubs.bib

@@ -1330,6 +1330,7 @@ @Article{	  CoH2024
   doi		= {10.1038/s41540-024-00447-0},
   day		= 10,
   number	= 118,
+  pmid		= {39389979},
   abstract	= {Cytokines mediate cell-to-cell communication across the immune system and therefore are
 		  critical to immunosurveillance in cancer and other diseases. Several cytokines show
 		  dysregulated abundance or signaling responses in breast cancer, associated with the disease
@@ -1361,6 +1362,7 @@ @Article{	  Tan2024
   day		= 21,
   volume	= 15,
   number	= 8,
+  pmid		= {39173584},
   abstract	= {Recent biological studies have been revolutionized in scale and granularity by multiplex and high-throughput assays. Profiling cell responses across several experimental parameters, such as perturbations, time, and genetic contexts, leads to richer and more generalizable findings. However, these multidimensional datasets necessitate a reevaluation of the conventional methods for their representation and analysis. Traditionally, experimental parameters are merged to flatten the data into a two-dimensional matrix, sacrificing crucial experiment context reflected by the structure. As Marshall McLuhan famously stated, “the medium is the message.” In this work, we propose that the experiment structure is the medium in which subsequent analysis is performed, and the optimal choice of data representation must reflect the experiment structure. We review how tensor-structured analyses and decompositions can preserve this information. We contend that tensor methods are poised to become integral to the biomedical data sciences toolkit.},
   journal	= {Cell Systems}
 }
@@ -1387,6 +1389,7 @@ @Article{	  Abraham2024
   pages		= {e1012663},
   volume	= 20,
   number	= 12,
+  pmid		= {39715286},
   preprint	= {https://biorxiv.org/cgi/content/short/2024.07.05.602296v1},
   url		= {https://journals.plos.org/ploscompbiol/article?id=10.1371/journal.pcbi.1012663},
   doi		= {10.1371/journal.pcbi.1012663},
@@ -1425,6 +1428,7 @@ @Article{	  Kojima2024
   keywords	= {immunology, transplantation},
   month		= {December},
   day		= 28,
+  pmid		= {39736469},
   url		= {https://www.sciencedirect.com/science/article/abs/pii/S1600613524007937},
   doi		= {10.1016/j.ajt.2024.11.035},
   abstract	= {As important immune regulatory cells, whether innate lymphoid cells (ILCs) are involved in liver transplantation (LT) remains unclear. In a murine orthotopic LT model, we dissected roles of ILCs in liver ischemia-reperfusion injury (IRI). Wild type (WT) grafts suffered significantly higher IRI in Rag2-γc double knockout (DKO) than Rag2 KO recipients, in association with downregulation of group 1 ILCs genes, including IFN-γ. Antibody-mediated ILC depletion or IFN-γ neutralization in Rag2 KO recipients increased, while IFN-γ treatment in DKO recipients reduced, liver graft injuries. At the donor side, grafts from DKO mice or anti-NK1.1-treated WT mice suffered significantly higher IRI, while grafts treated with IFN-γ during cold preservation decreased IRI. Thus, both recipient and donor group 1 ILCs protect liver grafts from IRI. Low-dose IFN-γ upregulated c-FLIP expression in vitro and in vivo, and protected hepatocytes from inflammatory cell death. In human liver graft biopsies, single-cell RNA-sequencing analysis revealed group 1 ILCs produce IFN-γ. The c-FLIP levels were positively correlated with IFN-γ in pre-transplant biopsies. Grafts with higher c-FLIP were associated with lower caspase-8 activation, IRI gradings, and frequency of early allograft dysfunction post-LT. Our study reveals a novel IFN-γ-mediated cytoprotective role of group 1 ILCs in LT.},