UFGI Publication Round-up: Week of 6/24/24

snRNA-seq of human cutaneous neurofibromas before and after selumetinib treatment implicates role of altered Schwann cell states, inter-cellular signaling, and extracellular matrix in treatment response.

Church C, Fay CX, Kriukov E, Liu H, Cannon A, Baldwin LA, Crossman DK, Korf B, Wallace MR, Gross AM, Widemann BC, Kesterson RA, Baranov P, Wallis D.

Acta Neuropathol Commun. 2024 Jun 21;12(1):102. doi: 10.1186/s40478-024-01821-z.

PMID: 38907342 Free PMC article.

Morphological and dietary changes encoded in the genome of Beroe ovata, a ctenophore-eating ctenophore.

Vargas AM, DeBiasse MB, Dykes LL, Edgar A, Hayes TD, Groso DJ, Babonis LS, Martindale MQ, Ryan JF.

NAR Genom Bioinform. 2024 Jun 18;6(2):lqae072. doi: 10.1093/nargab/lqae072. eCollection 2024 Jun.

PMID: 38895105 Free PMC article.

Cell-type specific inference from bulk RNA-sequencing data by integrating single cell reference profiles via EPIC-unmix.

Tang C, Sun Q, Zeng X, Yang X, Liu F, Zhao J, Shen Y, Liu B, Wen J, Li Y.

bioRxiv [Preprint]. 2024 May 24:2024.05.23.595514. doi: 10.1101/2024.05.23.595514.

PMID: 38826297 Free PMC article. Preprint.

Innate Immune Sensing of AAV Vectors.

Cao D, Byrne BJ, de Yong Y, Terhorst C, Duan D, Herzog R, Kumar SRP.

Hum Gene Ther. 2024 Jun 18. doi: 10.1089/hum.2024.040. Online ahead of print.

PMID: 38887999

Morphological profiling for drug discovery in the era of deep learning.

Tang Q, Ratnayake R, Seabra G, Jiang Z, Fang R, Cui L, Ding Y, Kahveci T, Bian J, Li C, Luesch H, Li Y.

Brief Bioinform. 2024 May 23;25(4):bbae284. doi: 10.1093/bib/bbae284.

PMID: 38886164

Consensus guidance for monitoring individuals with islet autoantibody-positive pre-stage 3 type 1 diabetes.

Phillip M, Achenbach P, Addala A, Albanese-O’Neill A, Battelino T, Bell KJ, Besser REJ, Bonifacio E, Colhoun HM, Couper JJ, Craig ME, Danne T, de Beaufort C, Dovc K, Driscoll KA, Dutta S, Ebekozien O, Larsson HE, Feiten DJ, Frohnert BI, Gabbay RA, Gallagher MP, Greenbaum CJ, Griffin KJ, Hagopian W, Haller MJ, Hendrieckx C, Hendriks E, Holt RIG, Hughes L, Ismail HM, Jacobsen LM, Johnson SB, Kolb LE, Kordonouri O, Lange K, Lash RW, Lernmark Å, Libman I, Lundgren M, Maahs DM, Marcovecchio ML, Mathieu C, Miller KM, O’Donnell HK, Oron T, Patil SP, Pop-Busui R, Rewers MJ, Rich SS, Schatz DA, Schulman-Rosenbaum R, Simmons KM, Sims EK, Skyler JS, Smith LB, Speake C, Steck AK, Thomas NPB, Tonyushkina KN, Veijola R, Wentworth JM, Wherrett DK, Wood JR, Ziegler AG, DiMeglio LA.

Diabetologia. 2024 Jun 24. doi: 10.1007/s00125-024-06205-5. Online ahead of print.

PMID: 38910151

Structural and Interactional Analysis of the Flavonoid Pathway Proteins: Chalcone Synthase, Chalcone Isomerase and Chalcone Isomerase-like Protein.

Lewis JA, Jacobo EP, Palmer N, Vermerris W, Sattler SE, Brozik JA, Sarath G, Kang C.

Int J Mol Sci. 2024 May 22;25(11):5651. doi: 10.3390/ijms25115651.

PMID: 38891840

Sirenian (manatees and dugongs) reproductive endocrinology.

Brammer-Robbins E, Cowart JR, Calderon M, Burgess EA, Larkin IV, Martyniuk CJ.

Gen Comp Endocrinol. 2024 Jun 20:114575. doi: 10.1016/j.ygcen.2024.114575. Online ahead of print.

PMID: 38908455

Environmental presence and toxicological outcomes of the herbicide pendimethalin in teleost fish.

Ivantsova E, Martyniuk CJ.

Ecotoxicology. 2024 Jun 19. doi: 10.1007/s10646-024-02767-7. Online ahead of print.

PMID: 38896413

AAV vectors for long-term gene therapy of hemophilia B: Are we there yet?

Srivastava A.

Mol Ther. 2024 Jun 21:S1525-0016(24)00391-5. doi: 10.1016/j.ymthe.2024.06.009. Online ahead of print.

PMID: 38906152 No abstract available.

Assessing the Performance of In silico Tools and Molecular Dynamics Simulations for Predicting Pharmacogenetic Variant Impact.

AlSaeed MJ, Ramdhan P, Malave JG, Eljilany I, Langaee T, McDonough CW, Seabra G, Li C, Cavallari LH.

Clin Pharmacol Ther. 2024 Jun 18. doi: 10.1002/cpt.3348. Online ahead of print.

PMID: 38894625

KR158 Spheres Harboring Slow-Cycling Cells Recapitulate High-Grade Glioma Features in an Immunocompetent System.

Chakraborty A, Yang C, Kresak JL, Silver AJ, Feier D, Tian G, Andrews M, Sobanjo OO, Hodge ED, Engelbart MK, Huang J, Harrison JK, Sarkisian MR, Mitchell DA, Deleyrolle LP.

Cells. 2024 May 29;13(11):938. doi: 10.3390/cells13110938.

PMID: 38891070

Charting the course for improved outcomes in chronic critical illness: therapeutic strategies for persistent inflammation, immunosuppression, and catabolism syndrome (PICS).

Polcz VE, Barrios EL, Larson SD, Efron PA, Rincon JC.

Br J Anaesth. 2024 Jun 19:S0007-0912(24)00273-3. doi: 10.1016/j.bja.2024.05.005. Online ahead of print.

PMID: 38902117

Use of the linear regression method to evaluate population accuracy of predictions from non-linear models.

Yu H, Fernando RL, Dekkers JCM.

Front Genet. 2024 May 31;15:1380643. doi: 10.3389/fgene.2024.1380643. eCollection 2024.

PMID: 38894723 Free PMC article.

Investigating relationships between the host genome, rumen microbiome, and dairy cow feed efficiency using mediation analysis with structural equation modeling.

Boggio GM, Monteiro HF, Lima FS, Figueiredo CC, Bisinotto RS, Santos JEP, Mion B, Schenkel FS, Ribeiro ES, Weigel KA, Rosa GJM, Peñagaricano F.

J Dairy Sci. 2024 Jun 20:S0022-0302(24)00938-X. doi: 10.3168/jds.2024-24675. Online ahead of print.

PMID: 38908714

DNA replication in early mammalian embryos is patterned, predisposing lamina-associated regions to fragility.

Xu S, Wang N, Zuccaro MV, Gerhardt J, Iyyappan R, Scatolin GN, Jiang Z, Baslan T, Koren A, Egli D.

Nat Commun. 2024 Jun 19;15(1):5247. doi: 10.1038/s41467-024-49565-7.

PMID: 38898078

Updates on Disease Mechanisms and Therapeutics for Amyotrophic Lateral Sclerosis.

Nguyen L.

Cells. 2024 May 21;13(11):888. doi: 10.3390/cells13110888.

PMID: 38891021