January 2025
Design of a yeast SUMO tag to eliminate internal translation initiation.
Law JD, Gao Y, Wysocki VH, Gopalan V.
Protein Sci. 2025 Jan;34(1):e5256.
PMID: 39692120
Riluzole Enhancing Anti-PD-1 Efficacy by Activating cGAS/STING Signaling in Colorectal Cancer.
Liang B, Khan M, Storts H, Zhang EH, Zheng X, Xing X, Claybon H, Wilson J, Li C, Jin N, Fishel R, Miles WO, Wang J
J.Mol Cancer Ther. 2025 Jan 2;24(1):131-140.
PMID: 39382075
Regulation of sod1 mRNA and protein abundance by zinc in fission yeast is dependent on the CCR4-NOT complex.
Weeks AT, Bird AJ.
J Biol Chem. 2025 Jan 4:108156.
PMID: 39761853
The Psu protein of phage satellite P4 inhibits transcription termination factor ρ by forced hyper-oligomerization.
Gjorgjevikj D, Kumar N, Wang B, Hilal T, Said N, Loll B, Artsimovitch I, Sen R, Wahl MC
Nat Commun.
PMID: 39788982
Structural basis of nearest-neighbor cooperativity in the ring-shaped gene regulatory protein TRAP from protein engineering and cryo-EM.
Li W, Yang H, Stachowski K, Norris AS, Lichtenthal K, Kelly S, Gollnick P, Wysocki VH, Foster MP
Proc Natl Acad Sci USA.
PMID: 39793047
Role of the sarcin-ricin loop of 23S rRNA in biogenesis of the 50S ribosomal subunit.
Fakhretaha Aval S, Seffouh A, Moon KM, Foster L, Ortega J, Fredrick K.
RNA.
PMID: 39875174.
Complexes of vertebrate TMC1/2 and CIB2/3 proteins form hair-cell mechanotransduction cation channels.
Giese APJ, Weng WH, Kindt KS, Chang HHV, Montgomery JS, Ratzan EM, Beirl AJ, Aponte Rivera R, Lotthammer JM, Walujkar S, Foster MP, Zobeiri OA, Holt JR, Riazuddin S, Cullen KE, Sotomayor M, Ahmed ZM.
Elife.
PMID: 39773557.
Use of a small molecule microarray screen to identify inhibitors of the catalytic RNA subunit of Methanobrevibacter smithii RNase P.
Sidharthan V, Sibley CD, Dunne-Dombrink K, Yang M, Zahurancik WJ, Balaratnam S, Wilburn DB, Schneekloth JS Jr, Gopalan V.
Nucleic Acids Res.
PMID: 39676671.
Histamine N-methyltransferase (HNMT) as a potential auxiliary biomarker for predicting adaptability to anti-HER2 drug treatment in breast cancer patients.
Cheng TC, Hung MC, Wang LH, Tu SH, Wu CH, Yen Y, Chen CL, Whang-Peng J, Lee WJ, Liao YC, Lee YC, Pan MH, Lin HK, Tzeng HE, Guo P, Chu CY, Chen LC, Ho YS
Biomark Res.
PMID: 39789599
Inhibition of Endothelial Cell Tube Formation by Anti-Vascular Endothelial Growth Factor/Anti-Angiopoietin-2 RNA Nanoparticles.
Zhong C, Shi Z, Liu CY, Binzel DW, Jin K, Li X, Guo P, Li SK.
Pharmaceutics.
PMID: 39861703
February 2025
ncRNA Editing: Functional Characterization and Computational Resources.
Marceca GP, Romano G, Acunzo M, Nigita G.
Methods Mol Biol.
PMID: 39702721
Free introns of tRNAs as complementarity-dependent regulators of gene expression.
Nostramo RT, Sinopoli PL, Bao A, Metcalf S, Peltier LM, Hopper AK.
Mol Cell.
PMID: 39938518
Nucleotide-induced hyper-oligomerization inactivates transcription termination factor ρ
Wang B, Said N, Hilal T, Finazzo M, Wahl MC, Artsimovitch I.
Nat Commun.
PMID: 39952913
Identification of inhibitors of the Salmonella FraB deglycase, a drug target.
Law JD, Gao Y, Kovvali S, Thirugnanasambantham P, Wysocki VH, Ahmer BMM, Gopalan V.
FEBS Open Bio.
PMID: 39945759.
Protein bL38 facilitates incorporation of uL6 during assembly of the 50S subunit in Flavobacterium johnsoniae.
Alom MS, Arpin D, Zhu H, Hay BN, Foster LJ, Ortega J, Fredrick K.
Nucleic Acids Res.
PMID: 39997215
Conformational dynamics in specialized C2H2zinc finger domains enable zinc-responsive gene repression in S. pombe.
Wadhwa V, Jamshidi C, Stachowski K, Bird AJ, Foster MP.
Protein Sci.
PMID: 39865413
Cardiac transcriptional enhancer is repurposed during regeneration to activate an anti-proliferative program.
Rao A, Russell A, Segura-Bermudez J, Franz C, Dockery R, Blatnik A, Panten J, Zevallos M, McNulty C, Pietrzak M, Goldman JA.
Development.
PMID: 39803985
Sustained release of RNA nanoparticles from reservoir implant for ocular delivery.
Shi Z, Zhong C, Binzel DW, Jin K, Guo P, Li SK.
J Pharm Sci.
PMID: 39725224
Structural basis for aminoacylation of cellular modified tRNALys3 by human lysyl-tRNA synthetase.
Devarkar SC, Budding CR, Pathirage C, Kavoor A, Herbert C, Limbach PA, Musier-Forsyth K, Xiong Y.
Nucleic Acids Res.
PMID: 40036503
An AT-hook transcription factor promotes transcription of histone, spliced-leader, and piRNA clusters.
Wang YH, Hertz HL, Pastore B, Tang W.
Nucleic Acids Res.
PMID: 39945323
Infectious Subgenomic Amplicon Strategies for Japanese Encephalitis and West Nile Viruses.
Singh PP, Le NPK, Karniychuk U.
J Med Virol. 2025 Feb
PMID: 39895481
Proteomic Profiling of Medullary Thyroid Cancer Identifies CAPN1 as a Key Regulator of NF1 and RET Fueled Growth.
Khan E, Hylton H, Rajan N, Bouley SJ, Siddiqui JK, Rajasekaran S, Koshre GR, Storts H, Valenciaga A, Khan M, Liyanarachchi S, Fernandez F, Zheng X, Phay J, Dedhia PH, Wang J, Walker JA, Ringel MD, Miles WO.
Thyroid.
PMID: 39868924.
March 2025
Protein and DNA Conformational Changes Contribute to Specificity of Cre Recombinase.
Montgomery JS, Judson ME, Foster MP.
Biochemistry.
PMID: 39957070
Role of the sarcin-ricin loop of 23S rRNA in biogenesis of the 50S ribosomal subunit.
Aval SF, Seffouh A, Moon KM, Foster LJ, Ortega J, Fredrick K.
RNA. 2025 Mar 18;31(4):585-599. doi: 10.1261/rna.080335.124.
PMID: 39875174
YTHDF1 and YTHDC1 m6A reader proteins regulate HTLV-1 tax and hbz activity.
King EM, Midkiff A, McClain K, Kim S, Panfil AR.
J Virol. 2025 Mar 18
PMID: 39902961
Recent advances in viroid research.
Zhang Y, Bisaro DM, Wu J.
Virology. 2025 Mar
PMID: 39889478
Metal ion requirement for catalysis by 3'-5' RNA polymerases.
Iwaniec BWJ, Allegretti MM, Jackman JE.
bioRxiv [Preprint]. 2025
PMID: 40166239
Five things to consider before proposing that a circular RNA is a viroid
Wu J, Bisaro DM. March 2025.
PLOS Pathogens.
E1012958
Significant roles in RNA-binding for the amino-terminal regions of Drosophila Pumilio and Nanos.
Wharton TH, Marhabaie M, Wharton RP.
PLoS Genet. 2025 Mar 31
PMID: 40163518
April 2025
Plasma proteomic profiles correlate with organ dysfunction in COVID-19 ARDS.
Eltobgy M, Klamer B, Farkas D, Londino JD, Englert JA, Horowitz JC, Mallampalli RK, Brock G, Bednash JS.
Physiol Rep. 2025 Apr;13
PMID: 40170544
Unexpected enzymatic function of an ancient nucleic acid-binding fold.
Watkins RR, Bockelman S, Vradi A, Grabarkewitz K, Pyun A, Stark J, Wysocki VH, Alfonzo JD, Musier-Forsyth K.
Nucleic Acids Res. 2025 Apr 22
PMID: 40274265
Endovascular Treatment of Stroke Due to Medium-Vessel Occlusion.
Goyal M, Ospel JM, Ganesh A, Dowlatshahi D, Volders D, Möhlenbruch MA, Jumaa MA, Nimjee SM, Booth TC, Buck BH, Kennedy J, Shankar JJ, Dorn F, Zhang L, Hametner C, Nardai S, Zafar A, Diprose W, Vatanpour S, Stebner A, Bosshart S, Singh N, Sebastian I, Uchida K, Ryckborst KJ, Fahed R, Hu SX, Vollherbst DF, Zaidi SF, Lee VH, Lynch J, Rempel JL, Teal R, Trivedi A, Bode FJ, Ogungbemi A, Pham M, Orosz P, Abdalkader M, Taschner C, Tarpley J, Poli S, Singh RJ, De Leacy R, Lopez G, Sahlas D, Chen M, Burns P, Schaafsma JD, Marigold R, Reich A, Amole A, Field TS, Swartz RH, Settecase F, Lenzsér G, Ortega-Gutierrez S, Asdaghi N, Lobotesis K, Siddiqui AH, Berrouschot J, Mokin M, Ebersole K, Schneider H, Yoo AJ, Mandzia J, Klostranec J, Jadun C, Patankar T, Sauvageau E, Lenthall R, Peeling L, Huynh T, Budzik R, Lee SK, Makalanda L, Levitt MR, Perry RJ, Hlaing T, Jahromi BS, Singh P, Demchuk AM, Hill MD; ESCAPE-MeVO Investigators.
N Engl J Med. 2025 Apr 10
PMID: 39908448
Role of glycosylation mutations at the N-terminal domain of SARS-CoV-2 XEC variant in immune evasion, cell-cell fusion, and spike stability.
Li P, Faraone JN, Hsu CC, Chamblee M, Liu Y, Zheng Y-M, Xu Y, Carlin C, Horowitz JC, Mallampalli RK, Saif LJ, Oltz EM, Jones D, Li J, Gumina RJ, Bednash JS, Xu K, Liu S-L.
J Virol.
PMID: 40135879
Myc family proteins: Molecular drivers of tumorigenesis and resistance in neuroendocrine tumors.
Hylton-McComas HM, Cordes A, Floros KV, Faber AC, Drapkin BJ, Miles WO.
Biochim Biophys Acta Rev Cancer.
PMID: 40280500.
May 2025
Pnrc2 promotes rapid mRNA decay and coordinately supports early development with P-body factors Ddx6 and Ddx61.
Gallagher TL, Blatnik MC, Austin CC, Thompson KG, Pvirre DM, Morgan A, Kearse MG, Amacher SL.
bioRxiv [Preprint]. 2025 May 14, 2025.
PMID: 40463158
Validation of Duchenne muscular dystrophy candidate modifiers using a CRISPR-Cas9-based approach in zebrafish.
Lerma G, Ryhlick KR, Carraher OM, Beljan JC, Amacher SL.
bioRxiv [Preprint]. 2025 May 20:2025
PMID: 40475573
International society of liquid biopsy (ISLB) perspective on minimal requirements for ctDNA testing in solid tumors.
Fusco N, Venetis K, Pepe F, Shetty O, Farinas SC, Heeke S, Burnier JV, Patton SJ, Heitzer E, Nigita G, Hofman P, Serrano MJ, Cristofanilli M, Jantus-Lewintre E, Gandara DR, Rolfo C, Malapelle U.
J Liq Biopsy. 2025 May 24
PMID: 40521567
Predictors of perioperative stroke in patients with Ischemic-type moyamoya disease treated with surgical revascularization: A retrospective multicenter study.
Musmar B, Roy JM, Abdalrazeq H, Atallah E, Naamani KE, Chen CJ, Jabre R, Saad H, Grossberg JA, Dmytriw AA, Patel AB, Khorasanizadeh M, Ogilvy CS, Thomas AJ, Monteiro A, Siddiqui A, Cortez GM, Hanel RA, Porto G, Spiotta AM, Piscopo AJ, Hasan DM, Ghorbani M, Weinberg J, Nimjee SM, Bekelis K, Salem MM, Burkhardt JK, Zetchi A, Matouk C, Howard BM, Lai R, Du R, Abbas R, Sioutas GS, Amllay A, Munoz A, Herial NA, Tjoumakaris SI, Gooch MR, Rosenwasser RH, Jabbour P.
J Stroke Cerebrovasc Dis. 2025 May.
PMID: 40057254
Adaptation of CD4 in gorillas and chimpanzees conveyed resistance to simian immunodeficiency viruses.
Warren CJ, Barbachano-Guerrero A, Bauer VL, Stabell A, Dirasantha O, Yang Q, Sawyer SL.
Elife. 2025 May 14
PMID: 40366257
Neutralization and spike stability of JN.1-derived LB.1, KP.2.3, KP.3, and KP.3.1.1 subvariants.
Li P, Faraone JN, Hsu CC, Chamblee M, Liu Y, Zheng Y-M, Xu Y, Carlin C, Horowitz JC, Mallampalli RK, Saif LJ, Oltz EM, Jones D, Li J, Gumina RJ, Bednash JS, Xu K, Liu S-L.
mBio.
PMID: 40136024
A post-assembly conformational change makes the SARS-CoV-2 polymerase elongation-competent.
Klein M, Das A, Bera SC, Anderson TK, Kocincova D, Lee HW, Wang B, Papini FS, Marecki JC, Arnold JJ, Cameron CE, Raney KD, Artsimovitch I, Götte M, Kirchdoerfer RN, Depken M, Dulin D.
Nucleic Acids Res. 2025 May 22
PMID: 40464687
June 2025
Mitochondrial tRNA processing: a neutral evolutionary ratchet innovation.
Lai LB, Jackman JE, Daniels CJ, Gopalan V.
Trends Biochem Sci. 2025 Jun 27:
PMID: 40581570
Ribosome deficiency induces Salmonella filamentation within host cells.
Lyu Z, Wilson C, Weiss K, Lewis S, Fredrick K, Margolin W, Ling J.
mBio. 2025 Jun 30
PMID: 40586582.
Protocol for analyzing tRNA-derived ncRNAs from small RNA-seq data using tRFUniverse functional analyses.
La Ferlita A, Nigita G, Ferro A, Alaimo S, Pulvirenti A. STAR
Protoc. 2025 Jun 20
PMID: 40503934
An RNA ligase partner for the prokaryotic protein-only RNase P: insights into the functional diversity of RNase P from genome mining.
Seshadri R, Gopalan V.
mBio. 2025 Jun 11
PMID: 40298408
Loss of Methyltransferase and Hypomethylated m6A Sarcomere Transcripts Leading to Early-Onset Dilated Cardiomyopathy.
Hand SM, Zhao Y, Li D, Burke S, Lim HW, Yester J, Garg V, Accornero F, Li X, Li D, Jang J.
Circulation. 2025 Jun
PMID: 40489544
Virocell resource manipulation under nutrient limitation.
Lindback MM, Howard-Varona C, Fudyma J, Tfaily M, Sullivan MB, Duhaime MB. mSystems. 2025 Jun 24
PMID: 40552834
Riluzole in Combination with mFOLFOX6 and Bevacizumab in Treating Patients with Metastatic Colorectal Cancer: A Phase I Clinical Trial.
Li C, Noonan AM, Hays J, Roychowdhury S, Malalur P, Elkhatib R, Manne A, Mittra A, Rahman S, Yan L, Hill K, Abbott N, Phelps M, Na JY, Liang B, Storts H, Khan M, Zhang EH, Miles W, Yildiz V, Wei L, Wang JJ, Jin N.
Clin Cancer Res.
PMID: 40116361
July 2025
srp54 promotes motor neuron development and is required for motility in zebrafish. Losievski N, Kamath P, Fox A, Aloi NM, Baird MC, Everest A, Gallagher TL, Amacher SL, Kolb SJ.
Neuroscience. 2025 Jul 23;579:24-34
PMID: 40328346.
Acute degradation of nucleolin reveals its novel functions in cell cycle progression and cell division in triple negative breast cancer.
Mills J, Tessari A, Anastas V, Sunilkumar D, Samadi Rad N, Lamba S, Cosentini I, Reers A, Zhu Z, Miles WO, Coppola V, Cocucci E, Magliery TJ, Shive H, Davies AE, Rizzotto L, Croce CM, Palmieri D.
J Exp Clin Cancer Res.
PMID: 40653460
Computational and experimental assessment of key interdomain residues controlling the fold-switch of RfaH.
Tabilo-Agurto C, Reyes J, Artsimovitch I, Ramírez-Sarmiento CA.
Protein Sci.
PMID: 40522227
Optogenetic Clustering of Human IRE1 Reveals Differential Regulation of Transcription and mRNA Splice Isoform Abundance by the UPR.
Smith JW, Wilburn DB, Belyy V.
bioRIxiv
PMID: 40777275
Unraveling the Role of Topoisomerase 3β (TOP3B) in mRNA Translation and Human Disease.
Warrick JE, Kearse MG.
Wiley Interdiscip Rev RNA.
PMID: 40754336
Bisulfite Sequencing to Map 5-Methylcytosine Sites in Human Respiratory Syncytial Virus RNA.
Zhang LS, Zhang Y, Sharma A, He C, Li J.
Methods Mol Biol.
PMID: 40879912
Targeted degradation of extracellular mitochondrial aspartyl-tRNA synthetase modulates immune responses.
Johnson BS, Farkas D, El-Mergawy R, Adair JA, Elhance A, Eltobgy M, Coan FM, Chafin L, Joseph JA, Cornwell A, Johns FJ, Rosas L, Rojas M, Farkas L, Bednash JS, Londino JD, Ray P, Ray A, Kagan V, Lee JS, Chen BB, Mallampalli RK.
Nat Commun.
PMID: 39039092
Myc family proteins: Molecular drivers of tumorigenesis and resistance in neuroendocrine tumors.
Hylton-McComas HM, Cordes A, Floros KV, Faber AC, Drapkin BJ, Miles WO.
Biochim Biophys Acta Rev Cancer.
PMID: 40280500
Human RPL7 and DDX21 interact with HTLV-1 Gag and enhance tRNAPro primer annealing to genomic RNA.
Syu YC, Long Z, Musier-Forsyth K.
bioRxivx
PMID: 40791341
Stroke thrombectomy with a novel reperfusion system including a 0.088'' aspiration catheter: the Imperative Trial.
Mack W, De Leacy RA, Grossberg JA, Majidi S, Tomalty RD, Mokin M, Vargas J, Cucchiara BL, Snyder KV, Mascitelli J, Parada V, Shakir HJ, Rosenbaum-Halevi D, Aghaebrahim A, Hoit D, Yim B, Tenser MS, Al-Bayati AR, Milburn JM, Nimjee SM, Haranhalli N, Nahhas M, Shaff D, Layton KF, Beaty N, Starke RM, Hawk H, Haussen DC, Pabaney A, Kellner CP, Nogueira RG.
J Neurointerv Surg.
PMID: 40695608
Validation and Community Sharing of Ocean Spectral Libraries Generated by Machine Learning for Data Independent Acquisition Ocean Metaproteomic Analyses.
Mars Brisbin M, McIlvin MR, Wilburn DB, Saunders JK, Cohen NR, Bhatia M, Kujawinski E, Searle BC, Saito MA.
Proteomics.
PMID: 40495714
August 2025
Structure-Activity Relationship of Pseudouridimycin Focusing on the Improvement of Chemical Stability.
Okawa R, Artsimovitch I, Katsuyama A, Sato T, Aldrich CC, Ichikawa S.
J Med Chem.
PMID: 40697156
Free energy spectroscopy reveals the mechanistic landscape of chromatin compaction.
Bonin K, Wang Y, Riveros I, Chen RW, Zhang B, Bundschuh R, Castro CE, Poirier MG.
bioRxiv [Preprint].
PMID: 40949953
PYM1 limits non-canonical Exon Junction Complex occupancy in a gene architecture dependent manner to tune mRNA expression.
Sanjeev M, Woodward LA, Schiff ML, Patton RD, Myers S, Paul D, Bundschuh R, Singh G.
Nat Commun.
PMID: 40885765
Sm-site containing mRNAs can accept Sm-rings and are downregulated in Spinal Muscular Atrophy.
Blatnik AJ 3rd, Sanjeev M, Slivka J, Pastore B, Embree CM, Tang W, Singh G, Burghes AHM.
Nucleic Acids Res.
PMID: 40823813
Ribosome deficiency induces Salmonella filamentation within host cells.
Lyu Z, Wilson C, Weiss K, Lewis S, Fredrick K, Margolin W, Ling J.
mBio.
PMID: 40586582
Resistance signatures manifested in early drug response across cancer types and species.
Ruoff C, Mitchell A, Mondal P, Gopalan V, Singh A, Gottesman M, Hannenhalli S.
Cancer Drug Resist.
PMID: 41019980
RNA Nanoparticles Harboring Radioisotopes or Other Imaging Molecules for Spontaneous Tumor Targeting for Early Cancer Diagnosis.
Binzel DW, Xu C, Binzel K, Ghosh A, Pippin A, Li X, Sechi M, Knopp MV, Kumar K, Guo P.
RNA Nanomed.
PMID: 41104418
Biomolecular condensates in plant immunity.
Huang S, Dong X.
Cell Host Microbe.
PMID: 40812178
Metal Ion Requirement for Catalysis by 3'-5' RNA Polymerases.
Iwaniec BWJ, Allegretti MM, Jackman JE.
Biochemistry.
PMID: 40774528
Decoding tRNA Modifications: Integrating Molecular, Biological, and Pathological Insights.
Jackman JE, Kothe U.
J Mol Biol.
PMID: 40441415
Metal Ion Requirement for Catalysis by 3'-5' RNA Polymerases.
Iwaniec BWJ, Allegretti MM, Jackman JE.
Biochemistry. 2025
PMID: 40774528
A Rapid Yeast-Based System for Modifying Respiratory Syncytial Virus.
K C M, Thongpan I, Bhattarai N, Chen P, Chamblee M, Hsu CC, Peeples ME, Li J.
Methods Mol Biol.
PMID: 40879901
O-GlcNAc transferase plays dual antiviral roles by integrating innate immunity and lipid metabolism.
Dong H, Liang C, Zhang J, Wu W, Kumar N, Liu Z, Sun Y, Liao Z, Cheng X, Yu Y, Zhang Y, Holtzman MJ, Li J, Gowdy KM, Thomas PG, Badjic JD, Ma A, Ma Q, Yount JS, Liu SL, Wen H.
Nat Commun.
PMID: 40830102
Intranasal measles virus- and mumps virus-based SARS-CoV-2 vaccine candidates prevent SARS-CoV-2 infection and transmission.
Hsu CC, Chamblee M, Ye C, Shamseldin MM, Yoo SJ, Li P, Zhang Y, Liu Y, Hall JM, Xu J, Miao H, Thongpan I, K C M, Liang X, Yount JS, Peeples ME, Boyaka PN, Dubey P, Martinez-Sobrido L, Liu SL, Li J.
Proc Natl Acad Sci U S A.
PMID: 40768351
Genetic drivers of tumor microenvironment and immunotherapy resistance in non-small cell lung cancer: the role of KEAP1, SMARCA4, and PTEN mutations.
Paredes R, Borea R, Drago F, Russo A, Nigita G, Rolfo C.
J Immunother Cancer.
PMID: 40764107
Outcomes of bypass surgery in asymptomatic moyamoya angiopathy: A multicenter study with propensity-score weighting.
Musmar B, Abdalrazeq H, Roy JM, Adeeb N, Atallah E, El Naamani K, Chen CJ, Jabre R, Saad H, Grossberg JA, Dmytriw AA, Patel AB, Khorasanizadeh M, Ogilvy CS, Thomas AJ, Monteiro A, Siddiqui A, Cortez GM, Hanel RA, Porto G, Spiotta AM, Piscopo AJ, Hasan DM, Ghorbani M, Weinberg J, Nimjee SM, Bekelis K, Salem MM, Burkhardt JK, Zetchi A, Matouk C, Howard BM, Lai R, Du R, Abbas R, Amllay A, Munoz A, Herial NA, Tjoumakaris SI, Gooch MR, Notarianni C, Guthikonda B, Rosenwasser RH, Jabbour P.
Eur Stroke J.
PMID: 40884244
The cervicovaginal microbiome of pregnant people living with HIV on antiretroviral therapy in the Democratic Republic of Congo: A Pilot Study and Global Meta-analysis.
Ndlovu KS, Pavan RR, Corry J, Gregory AC, Mahamed S, Zotova N, Tabala M, Babakazo P, Funderburg NT, Yotebieng M, Klatt NR, Kwiek JJ, Sullivan MB.
bioRxiv [Preprint].
PMID: 40894753
Mapping of in vivo cleavage sites uncovers a major role for yeast RNase III in regulating protein-coding genes.
Notice-Sarpaning LA, Catala M, Stuart C, Elela SA, van Hoof A.
bioRxiv [Preprint]. 2
PMID: 40832349
Analysis of head and neck cancer scRNA-seq data identified PRDM6 promotes tumor progression by modulating immune gene expression.
Wu Z, Lepcha TT, Zhou D, He Z, Fiches GN, Park Y, He J, Chen J, Shanaka KASN, Oghumu S, Zhao W, Ma A, Ma Q, Zhu J, Santoso NG.
Front Immunol.
PMID: 40936897
The SOX4-Semaphorin3C axis promotes esophageal adenocarcinoma progression.
Fnu T, Shi P, Zhang W, Fang Y, Mitani Y, Zhang Y, Gabre J, Ei-Rifai W, Zaika A, Chen Q, Zhu J, Wang TC, Jiang M, Que J.
Cancer Lett.
PMID: 40876500
September 2025
Blockade of interleukin-6 (IL-6) signaling in dedifferentiated liposarcoma (DDLPS) decreases mouse double minute 2 (MDM2) oncogenicity via alternative splicing.
Zewdu A, Braggio D, Lopez G, Batte K, Khurshid S, Costas C de Faria F, Bid HK, Koller D, Casadei L, Ladner KJ, Wang D, Grignol V, Iwenofu OH, Chandler D, Guttridge DC, Pollock RE.
PLoS One.
PMID: 40961077
Crystal structures of Salmonella enterica FraB deglycase reveal a conformational heterodimer with remarkable structural plasticity at the active site.
Zakharova K, Law JD, Gao Y, Kovvali S, Wysocki VH, Gopalan V, Bell CE.
Protein Sci.
PMID: 40823914
Developing Potent Therapeutics for Liver Cancer Chemoresistance via an RNA Nanotech and Series-Circuit-Christmas-Bulb Mechanism Targeting ABC Transporters.
Yudhistira T, Yunker B, Dhir L, Ho YS, Liu S, Guo P.
Mol Pharm.
PMID: 40921731
Protocol for inducible expression of small non-coding RNAs using a tet-on system in Saccharomyces cerevisiae.
Nostramo R, Hopper AK.
STAR Protoc.
PMID: 40839434
m6A and cardiac posttranscriptional regulation: a novel player in heart development and disease.}
Li D, Li D, Jang J.
Exp Mol Med.
PMID: 40887502
CLAE: A High-Fidelity Nanopore Sequencing Strategy for Read-Level Viral Variant Detection and Environmental RNA Virus Discovery.
Yu H, Golconda S, Lee GE, Xue D, Domínguez-Huerta G, Wainaina JM, Bolduc B, Murthy S, Kim S, Faith S, Liu SL, Lee J, Oglesbee M, Sullivan MB, Kim S.
Adv Sci (Weinh). 2
PMID: 40936099
Development of SARS-CoV-2 as a viral vector: A novel intranasal bivalent vaccine for SARS-CoV-2 and RSV.
Xu J, Chamblee M, Jiang F, Kc M, Hsu CC, Thongpan I, Chen P, Zhang Y, Chiu CT, Shamseldin MM, Amer HM, Liang X, Amer AO, Boyaka PN, Cormet-Boyaka E, Peeples ME, Li J.
Sci Adv.
PMID: 41004586
Decision-Making for Endovascular Thrombectomy in Patients With Large Vessel Occlusions and Mild Neurological Deficit: A Consensus Statement.
Bosshart SL, Kappelhof M, Stebner A, Fujiwara S, Cimflova P, Schüngel MS, Milot G, Mosimann PJ, Schaafsma JD, Ribo M, Paul AR, Ulfert C, Almekhlafi M, Fragata I, Nardai S, Lopes DK, Menon B, Bhogal P, Pensato U, Hawkes C, Yoshimura S, Inoa V, Ganesh A, Singh N, Volders D, Moreu M, Uchida K, Nimjee S, Saver JL, Hill MD, Ospel JM.
J Stroke.
PMID: 41084289
Literature review and DELPHI consensus on follow-up and retreatment of intracranial aneurysms with intrasaccular devices.
Stebner A, Cimflova P, Bosshart SL, Schüngel MS, Fujiwara S, Milot G, Volders D, Uchida K, Hawkes C, Moreu M, Fragata I, Paul A, Pensato U, Ulfert C, Frei D, Bhogal P, Schaafsma J, Nardai S, Zaidi S, Almekhlafi M, Nimjee S, Mosimann P, Kennedy J, Rempel J, Inoa V, Yoshimura S, Ribo M, Lopes D, Wong J, Ospel J.
nterv Neuroradiol.
PMID: 40990642
Clinical outcomes and independently adjudicated results of M2 aspiration thrombectomy: a subgroup analysis from the Imperative Trial.
Mascitelli JR, De Leacy RA, Mack W, Nogueira R, Majidi S, Tomalty RD, Mokin M, Vargas J, Cucchiara BL, Snyder KV, Parada V, Shakir HJ, Rosenbaum-Halevi D, Aghaebrahim A, Hoit D, Yim B, Tenser MS, Al-Bayati AR, Milburn JM, Nimjee SM, Haranhalli N, Nahhas M, Shaff D, Layton KF, Beaty N, Starke RM, Hawk H, Haussen DC, Pabaney A, Kellner CP, Grossberg JA.
J Neurointerv Surg.
PMID: 40908129
TOC1 phosphorylation disproportionally enhances chromatin binding at rhythmic gene promoters.
Yan J, Zhang Y, Chen G, Gui C, Tu Z, Cao D, Yao JW, Li X, Somers DE.
Sci Adv.
PMID: 41004575
Differential regulation of mesoscale chromosome conformations in osteoblasts and osteosarcoma.
Bisht M, Chung YC, He SL, Willey S, Sunkel BD, Wang M, Stanton BZ, Tu LC.
Genome Biol.
PMID: 41013666
NAT10 Suppresses RNA Sensing Induced IFN-β Transactivation to Promote Viral Infection via Interfering with IRF3 Activities.
Park Y, He J, Suha E, Zhenyu W, Fiches GN, Zhou D, Watters EG, He ZM, Shanaka KA, Lepcha TT, Liu Y, Santoso NG, Zhu J.
bioRxiv [Preprint].
PMID: 40949982
October 2025
SARS-CoV-2 innate immune recognition and implications for respiratory health.
Anang V, Kumar P, Pracha J, Nho RS, Mora AL, Rojas M, Gowdy K, Yount JS, Bednash JS, Horowitz JC, Soni S, Mebratu YA.
Cytokine Growth Factor Rev.
PMID: 41176818
The structural effects of indel polymorphisms outside the binding site on RNA-protein interactions are shaped by selection.
Owusu-Ansah C, Shatoff E, Bundschuh R.
PLoS Comput Biol.
PMID: 41118439
Simultaneous ligand binding to intact and partially formed ATP binding sites in the hexameric termination factor Rho.
Billings TD, Baker K, Lacey P, Benedek M, Muzquiz R, Wysocki VH, Foster MP.
J Biol Chem.
PMID: 41067640
Long hindfoot nail fixation using standard tibial nails for elderly ankle and distal tibia fractures.
Ismayl MG, Afzal MS, Najjar MMA, Ammar MMS, Khunda MA, Sprott MD, Rafee MA, Bakhshayesh MP, Foster MP.
Injury.
PMID: 40795796
Mitochondrial tRNA processing: a neutral evolutionary ratchet innovation.
Lai LB, Jackman JE, Daniels CJ, Gopalan V.
Trends Biochem Sci.
PMID: 40581570
West Nile virus vaccine candidates attenuated by dinucleotide enrichment are immunogenic and protective against lethal infection.
Le NPK, Singh PP, Trus I, Karniychuk U.
PLoS Pathog.
PMID: 41042818
An autism spectrum disorder mutation in Topoisomerase 3β causes accumulation of covalent mRNA intermediates by disrupting metal binding within the zinc finger domain.
Warrick JE, Attili D, van Eeuwen T, Pastore B, Hoffmann-Weitsman SE, Forsyth NC, Tang W, Barmada SJ, Kearse MG.
Nucleic Acids Res.
PMID: 41189056
Single-base m6A epitranscriptomics reveals novel HIV-1 host interaction targets in primary CD4+ T cells.
Huang S, Zhao Y, Phillips S, Warrick JE, Kearse MG, He C, Wu L.
J Virol. 2025
PMID: 41085277
Pancreatic Resection Operations in Pediatric Patients: A NSQIP-Pediatric Analysis of Outcomes and Factors Associated With Adverse Events.
Colak MA, Srinivas S, Zhang Y, Asti L, Freeman AJ, Rasmussen SK, Van Arendonk KJ, Nathan JD.
J Pediatr Surg.
PMID: 40683342
The ribonuclease DISL-2 mediates piRNA degradation in C. elegans.
Pastore B, Hertz HL, Tang W.
Cell Rep.
PMID: 41075248
A eukaryote without tRNA introns.
van Hoof A, Furuta T, Arur S.
RNA.
PMID: 40846645
November 2025
Secreted mitochondrial aspartyl-tRNA synthetase (DARS2) regulates TNFα signaling.
Johnson BS, Cornwell A, Farkas D, Yurtsever I, Joseph JA, Pradhan A, Farkas L, Londino JD, Bednash JS, Mallampalli RK.
Physiol Rep.
PMID: 41214844
Addition of Ianalumab (VAY736) to Ibrutinib in Patients with Chronic Lymphocytic Leukemia on Ibrutinib Therapy: Results from a Phase Ib Study.
Rogers KA, Yan P, Flinn IW, Stephens DM, Kipps TJ, Larson SM, Martz L, Chen X, Wang H, Hopping E, Bundschuh R, Turkoglu A, Lozanski G, McGarry C, Acosta A, Sechaud R, Baldoni D, Chaudhury A, Whalen J, Hassounah NB, Orwitz N, Otero J, Woo J, Byrd JC.
Clin Cancer Res.
PMID: 41194375
Regulation of atrial and ventricular cardiomyocyte identity.
Guo S, Liu Y, Ryan A, Serrano ALL, Deschenes I, Jang J, Li D.
J Mol Cell Cardiol. 2025 Nov
PMID: 40876505
Ubiquitin E3 ligase MARCH10 targets influenza hemagglutinin for ubiquitination.
Tsai M, Koch D, Forchione A, Farkas L, El-Mergawy R, Londino JD, Mallampalli RK.
Cell Signal.
PMID: 40749991
Koina: Democratizing machine learning for proteomics research.
Lautenbacher L, Yang KL, Kockmann T, Panse C, Gabriel W, Bold D, Kahl E, Chambers M, MacLean BX, Li K, Yu F, Searle BC, Wilburn DB, Shahneh MRZ, Hong Y, Tang H, Wang M, Gabriels R, Bouwmeester R, Devreese R, Angelis J, Sabidó E, Schmidt TK, Nesvizhskii AI, Wilhelm M.
Nat Commun.
PMID: 41219230
December 2025
Direct and indirect effects of spliceosome disruption compromise gene regulation by nonsense-mediated mRNA decay.
Embree CM, Paul D, Stephanou A, Singh G.
RNA Biol.
PMID: 40856040