Recent Publications

• 1. Glasser E
  2. Agrawal AA
  3. Jenkins JL
  4. Kielkopf CL
  (2017 Sep 01). Cancer-Associated Mutations Mapped on High-Resolution Structures of the U2AF2 RNA Recognition Motifs. Biochemistry.
• 1. Novosjolova I
  2. Kennedy SD
  3. Rozners E
  (2017 Aug 31). 2-Methoxypyridine as Thymidine Mimic in Watson-Crick Base Pairs of DNA and PNA: Synthesis, Thermal Stability and NMR Structural Studies. Chembiochem : a European journal of chemical biology.
• 1. Hayashi T
  2. Jean M
  3. Huang H
  4. Simpson S
  5. Santoso NG
  6. Zhu J
  (2017 Aug 22). Screening of an FDA-approved compound library identifies levosimendan as a novel anti-HIV-1 agent that inhibits viral transcription. Antiviral research.
• 1. Mutisya D
  2. Hardcastle T
  3. Cheruiyot SK
  4. Pallan PS
  5. Kennedy SD
  6. Egli M
  7. Kelley ML
  8. Smith AVB
  9. Rozners E
  (2017 Aug 21). Amide linkages mimic phosphates in RNA interactions with proteins and are well tolerated in the guide strand of short interfering RNAs. Nucleic acids research.
• 1. Poole AR
  2. Vicino I
  3. Adachi H
  4. Yu YT
  5. Hebert MD
  (2017 Aug 14). Regulatory RNPs: a novel class of ribonucleoproteins that potentially contribute to ribosome heterogeneity. Biology open.
• 1. Tan Z
  2. Sharma G
  3. Mathews DH
  (2017 Jul 20). Modeling RNA Secondary Structure with Sequence Comparison and Experimental Mapping Data. Biophysical journal.
• 1. Kauffmann AD
  2. Kennedy SD
  3. Zhao J
  4. Turner DH
  (2017 Jul 12). Nuclear Magnetic Resonance Structure of an 8 × 8 Nucleotide RNA Internal Loop Flanked on Each Side by Three Watson-Crick Pairs and Comparison to Three-Dimensional Predictions. Biochemistry.
• 1. Romo TD
  2. Lewis AK
  3. Braun AR
  4. Grossfield A
  5. Sachs JN
  (2017 Jul 05). Minimal nucleation state of alpha-Synuclein is stabilized by dynamic threonine-water networks. ACS chemical neuroscience.
• 1. Nadtochiy SM
  2. Wang YT
  3. Zhang J
  4. Nehrke K
  5. Schafer X
  6. Welle K
  7. Ghaemmaghami S
  8. Munger J
  9. Brookes PS
  (2017 Jul 03). Potential mechanisms linking SIRT activity and hypoxic 2-hydroxyglutarate generation: no role for direct enzyme (de)acetylation. The Biochemical journal.
• 1. Ward M
  2. Datta A
  3. Wise M
  4. Mathews DH
  (2017 Jun 06). Advanced multi-loop algorithms for RNA secondary structure prediction reveal that the simplest model is best. Nucleic acids research.
• 1. Elbarbary RA
  2. Maquat LE
  (2017 Jun 06). Distinct mechanisms obviate the potentially toxic effects of inverted-repeat Alu elements on cellular RNA metabolism. Nature structural & molecular biology.
• 1. Bednar J
  2. Garcia-Saez I
  3. Boopathi R
  4. Cutter AR
  5. Papai G
  6. Reymer A
  7. Syed SH
  8. Lone IN
  9. Tonchev O
  10. Crucifix C
  11. Menoni H
  12. Papin C
  13. Skoufias DA
  14. Kurumizaka H
  15. Lavery R
  16. Hamiche A
  17. Hayes JJ
  18. Schultz P
  19. Angelov D
  20. Petosa C
  21. Dimitrov S
  (2017 Jun 01). Structure and Dynamics of a 197 bp Nucleosome in Complex with Linker Histone H1. Molecular cell.
• 1. Elbarbary RA
  2. Miyoshi K
  3. Myers JR
  4. Du P
  5. Ashton JM
  6. Tian B
  7. Maquat LE
  (2017 May 26). Tudor-SN-mediated endonucleolytic decay of human cell microRNAs promotes G1/S phase transition. Science (New York, N.Y.).
• 1. Polevoda B
  2. Joseph R
  3. Friedman AE
  4. Bennett RP
  5. Greiner R
  6. De Zoysa T
  7. Stewart RA
  8. Smith HC
  (2017 May 26). DNA mutagenic activity and capacity for HIV-1 restriction of the cytidine deaminase APOBEC3G depend on whether DNA or RNA binds to tyrosine 315. The Journal of biological chemistry.
• 1. Hilimire TA
  2. Chamberlain JM
  3. Anokhina V
  4. Bennett RP
  5. Swart O
  6. Myers JR
  7. Ashton JM
  8. Stewart RA
  9. Featherston AL
  10. Gates K
  11. Helms ED
  12. Smith HC
  13. Dewhurst S
  14. Miller BL
  (2017 May 05). HIV-1 Frameshift RNA-Targeted Triazoles Inhibit Propagation of Replication-Competent and Multi-Drug-Resistant HIV in Human Cells. ACS chemical biology.
• 1. Bednar J
  2. Garcia-Saez I
  3. Boopathi R
  4. Cutter AR
  5. Papai G
  6. Reymer A
  7. Syed SH
  8. Lone IN
  9. Tonchev O
  10. Crucifix C
  11. Menoni H
  12. Papin C
  13. Skoufias DA
  14. Kurumizaka H
  15. Lavery R
  16. Hamiche A
  17. Hayes JJ
  18. Schultz P
  19. Angelov D
  20. Petosa C
  21. Dimitrov S
  (2017 May 04). Structure and Dynamics of a 197 bp Nucleosome in Complex with Linker Histone H1. Molecular cell.
• 1. East-Seletsky A
  2. O'Connell MR
  3. Burstein D
  4. Knott GJ
  5. Doudna JA
  (2017 May 04). RNA Targeting by Functionally Orthogonal Type VI-A CRISPR-Cas Enzymes. Molecular cell.
• 1. Wedekind JE
  2. Dutta D
  3. Belashov IA
  4. Jenkins JL
  (2017 Apr 28). Metalloriboswitches: RNA-Based Inorganic Ion Sensors that Regulate Genes. The Journal of biological chemistry.
• 1. Gamache ER
  2. Doh JH
  3. Ritz J
  4. Laederach A
  5. Bellaousov S
  6. Mathews DH
  7. Curcio MJ
  (2017 Apr 26). Structure-Function Model for Kissing Loop Interactions That Initiate Dimerization of Ty1 RNA. Viruses.
• 1. Jean MJ
  2. Power D
  3. Kong W
  4. Huang H
  5. Santoso N
  6. Zhu J
  (2017 Apr 01). Identification of HIV-1 Tat-Associated Proteins Contributing to HIV-1 Transcription and Latency. Viruses.
• 1. Vats K
  2. Marsh G
  3. Harding K
  4. Zampetakis I
  5. Waugh RE
  6. Benoit DS
  (2017 Apr). Nanoscale physicochemical properties of chain- and step-growth polymerized PEG hydrogels affect cell-material interactions. Journal of biomedical materials research. Part A.
• 1. Cutter AR
  2. Hayes JJ
  (2017 Apr). Linker histones: novel insights into structure-specific recognition of the nucleosome. Biochemistry and cell biology = Biochimie et biologie cellulaire.
• 1. Jenkins JL
  2. Kielkopf CL
  (2017 Mar 31). Splicing Factor Mutations in Myelodysplasias: Insights from Spliceosome Structures. Trends in genetics : TIG.
• 1. Baker JE
  2. Sriram R
  3. Miller BL
  (2017 Mar 30). Recognition-mediated particle detection under microfluidic flow with waveguide-coupled 2D photonic crystals: towards integrated photonic virus detectors. Lab on a chip.
• 1. Zuber J
  2. Sun H
  3. Zhang X
  4. McFadyen I
  5. Mathews DH
  (2017 Mar 15). A sensitivity analysis of RNA folding nearest neighbor parameters identifies a subset of free energy parameters with the greatest impact on RNA secondary structure prediction. Nucleic acids research.
• 1. Liu K
  2. Xie F
  3. Gao A
  4. Zhang R
  5. Zhang L
  6. Xiao Z
  7. Hu Q
  8. Huang W
  9. Huang Q
  10. Lin B
  11. Zhu J
  12. Wang H
  13. Que J
  14. Lan X
  (2017 Mar 14). SOX2 regulates multiple malignant processes of breast cancer development through the SOX2/miR-181a-5p, miR-30e-5p/TUSC3 axis. Molecular cancer.
• 1. Brule CE
  2. Grayhack EJ
  (2017 Mar 11). Synonymous Codons: Choose Wisely for Expression. Trends in genetics : TIG.
• 1. Murphy PS
  2. Wang J
  3. Bhagwat SP
  4. Munger JC
  5. Janssen WJ
  6. Wright TW
  7. Elliott MR
  (2017 Mar). CD73 regulates anti-inflammatory signaling between apoptotic cells and endotoxin-conditioned tissue macrophages. Cell death and differentiation.
• 1. Yang F
  2. Zhang L
  3. Wakabayashi H
  4. Myers J
  5. Jiang Y
  6. Cao Y
  7. Jimenez-Ortigosa C
  8. Perlin DS
  9. Rustchenko E
  (2017 Feb 21). Tolerance to caspofungin in Candida albicans is associated with at least three distinctive mechanisms that govern expression of FKS genes and cell wall remodeling. Antimicrobial agents and chemotherapy.
• 1. Aytenfisu AH
  2. Spasic A
  3. Grossfield A
  4. Stern HA
  5. Mathews DH
  (2017 Feb 14). Revised RNA Dihedral Parameters for the Amber Force Field Improve RNA Molecular Dynamics. Journal of chemical theory and computation.
• 1. Clark KM
  2. Jenkins JL
  3. Fedoriw N
  4. Dumont ME
  (2017 Feb). Human CaaX protease ZMPSTE24 expressed in yeast: Structure and inhibition by HIV protease inhibitors. Protein science : a publication of the Protein Society.
• 1. Balliano A
  2. Hao F
  3. Njeri C
  4. Balakrishnan L
  5. Hayes JJ
  (2017 Jan 18). HMGB1 Stimulates Activity of Polymerase β on Nucleosome Substrates. Biochemistry.
• 1. Patra B
  2. Kon Y
  3. Yadav G
  4. Sevold AW
  5. Frumkin JP
  6. Vallabhajosyula RR
  7. Hintze A
  8. Østman B
  9. Schossau J
  10. Bhan A
  11. Marzolf B
  12. Tamashiro JK
  13. Kaur A
  14. Baliga NS
  15. Grayhack EJ
  16. Adami C
  17. Galas DJ
  18. Raval A
  19. Phizicky EM
  20. Ray A
  (2017 Jan 09). A genome wide dosage suppressor network reveals genomic robustness. Nucleic acids research.
• 1. Hrabeta-Robinson E
  2. Marcus E
  3. Cozen AE
  4. Phizicky EM
  5. Lowe TM
  (2017). High-Throughput Small RNA Sequencing Enhanced by AlkB-Facilitated RNA de-Methylation (ARM-Seq). Methods in molecular biology (Clifton, N.J.).
• 1. De Zoysa MD
  2. Yu YT
  (2017). Posttranscriptional RNA Pseudouridylation. The Enzymes.
• 1. Huang H
  2. Liu S
  3. Jean M
  4. Simpson S
  5. Huang H
  6. Merkley M
  7. Hayashi T
  8. Kong W
  9. Rodríguez-Sánchez I
  10. Zhang X
  11. Yosief HO
  12. Miao H
  13. Que J
  14. Kobie JJ
  15. Bradner J
  16. Santoso NG
  17. Zhang W
  18. Zhu J
  (2017). A Novel Bromodomain Inhibitor Reverses HIV-1 Latency through Specific Binding with BRD4 to Promote Tat and P-TEFb Association. Frontiers in microbiology.
• 1. Coudray N
  2. L Seyler S
  3. Lasala R
  4. Zhang Z
  5. Clark KM
  6. Dumont ME
  7. Rohou A
  8. Beckstein O
  9. Stokes DL
  (2017 Jan). Structure of the SLC4 transporter Bor1p in an inward-facing conformation. Protein science : a publication of the Protein Society.
• 1. Han L
  2. Marcus E
  3. D'Silva S
  4. Phizicky EM
  (2016 Dec 21). S. cerevisiae Trm140 has two recognition modes for 3-methylcytidine modification of the anticodon loop of tRNA substrates. RNA (New York, N.Y.).
• 1. Chatrikhi R
  2. Wang W
  3. Gupta A
  4. Loerch S
  5. Maucuer A
  6. Kielkopf CL
  (2016 Dec 20). SF1 Phosphorylation Enhances Specific Binding to U2AF(65) and Reduces Binding to 3'-Splice-Site RNA. Biophysical journal.
• 1. Komisarof J
  2. McCall M
  3. Newman L
  4. Bshara W
  5. Mohler JL
  6. Morrison C
  7. Land H
  (2016 Dec 09). A four gene signature predictive of recurrent prostate cancer. Oncotarget.
• 1. Ling C
  2. Ermolenko DN
  (2016 Dec 06). Caught on Camera: Intermediates of Ribosome Recycling. Structure (London, England : 1993).
• 1. Loerch S
  2. Kielkopf CL
  (2016 Dec). Unmasking the U2AF homology motif family: a bona fide protein-protein interaction motif in disguise. RNA (New York, N.Y.).
• 1. Suwunnakorn S
  2. Wakabayashi H
  3. Rustchenko E
  (2016 Dec). Chromosome 5 of Human Pathogen Candida albicans Carries Multiple Genes for Negative Control of Caspofungin and Anidulafungin Susceptibility. Antimicrobial agents and chemotherapy.
• 1. Ikpeze TC
  2. Smith HC
  3. Lee DJ
  4. Elfar JC
  (2016 Dec). Distal Radius Fracture Outcomes and Rehabilitation. Geriatric orthopaedic surgery & rehabilitation.
• 1. Sloma MF
  2. Mathews DH
  (2016 Dec). Exact calculation of loop formation probability identifies folding motifs in RNA secondary structures. RNA (New York, N.Y.).
• 1. Mathews DH
  2. Turner DH
  3. Watson RM
  (2016 Dec 01). RNA Secondary Structure Prediction. Current protocols in nucleic acid chemistry.
• 1. Pei S
  2. Minhajuddin M
  3. D'Alessandro A
  4. Nemkov T
  5. Stevens BM
  6. Adane B
  7. Khan N
  8. Hagen FK
  9. Yadav VK
  10. De S
  11. Ashton JM
  12. Hansen KC
  13. Gutman JA
  14. Pollyea DA
  15. Crooks PA
  16. Smith C
  17. Jordan CT
  (2016 Nov 25). Rational design of a parthenolide-based drug regimen that selectively eradicates acute myelogenous leukemia stem cells. The Journal of biological chemistry.
• 1. Smith HC
  (2016 Nov 21). RNA binding to APOBEC deaminases; Not simply a substrate for C to U editing. RNA biology.
• 1. Dutt S
  2. Binney RJ
  3. Heuer HW
  4. Luong P
  5. Attygalle S
  6. Bhatt P
  7. Marx GA
  8. Elofson J
  9. Tartaglia MC
  10. Litvan I
  11. McGinnis SM
  12. Dickerson BC
  13. Kornak J
  14. Waltzman D
  15. Voltarelli L
  16. Schuff N
  17. Rabinovici GD
  18. Kramer JH
  19. Jack CR
  20. Miller BL
  21. Rosen HJ
  22. Boxer AL
  (2016 Nov 08). Progression of brain atrophy in PSP and CBS over 6 months and 1 year. Neurology.
• 1. Bennett RP
  2. Stewart RA
  3. Hogan PA
  4. Ptak RG
  5. Mankowski MK
  6. Hartman TL
  7. Buckheit RW
  8. Snyder BA
  9. Salter JD
  10. Morales GA
  11. Smith HC
  (2016 Nov 4). An analog of camptothecin inactive against Topoisomerase I is broadly neutralizing of HIV-1 through inhibition of Vif-dependent APOBEC3G degradation. Antiviral research.
• 1. Fang H
  2. Wei S
  3. Lee TH
  4. Hayes JJ
  (2016 Nov 02). Chromatin structure-dependent conformations of the H1 CTD. Nucleic acids research.
• 1. Xu C
  2. Ishikawa H
  3. Izumikawa K
  4. Li L
  5. He H
  6. Nobe Y
  7. Yamauchi Y
  8. Shahjee HM
  9. Wu XH
  10. Yu YT
  11. Isobe T
  12. Takahashi N
  13. Min J
  (2016 Nov 01). Structural insights into Gemin5-guided selection of pre-snRNAs for snRNP assembly. Genes & development.
• 1. Pei S
  2. Minhajuddin M
  3. D'Alessandro A
  4. Nemkov T
  5. Stevens BM
  6. Adane B
  7. Khan N
  8. Hagen FK
  9. Yadav VK
  10. De S
  11. Ashton JM
  12. Hansen KC
  13. Gutman JA
  14. Pollyea DA
  15. Crooks PA
  16. Smith C
  17. Jordan CT
  (2016 Oct 14). Rational Design of a Parthenolide-based Drug Regimen That Selectively Eradicates Acute Myelogenous Leukemia Stem Cells. The Journal of biological chemistry.
• 1. East-Seletsky A
  2. O'Connell MR
  3. Knight SC
  4. Burstein D
  5. Cate JH
  6. Tjian R
  7. Doudna JA
  (2016 Oct 13). Two distinct RNase activities of CRISPR-C2c2 enable guide-RNA processing and RNA detection. Nature.
• 1. Smith B
  2. Schafer XL
  3. Ambeskovic A
  4. Spencer CM
  5. Land H
  6. Munger J
  (2016 Oct 11). Addiction to Coupling of the Warburg Effect with Glutamine Catabolism in Cancer Cells. Cell reports.
• 1. Mishra LN
  2. Pepenella S
  3. Rogge R
  4. Hansen JC
  5. Hayes JJ
  (2016 Oct 06). Acetylation Mimics Within a Single Nucleosome Alter Local DNA Accessibility In Compacted Nucleosome Arrays. Scientific reports.
• 1. Fei DL
  2. Motowski H
  3. Chatrikhi R
  4. Prasad S
  5. Yu J
  6. Gao S
  7. Kielkopf CL
  8. Bradley RK
  9. Varmus H
  (2016 Oct). Wild-Type U2AF1 Antagonizes the Splicing Program Characteristic of U2AF1-Mutant Tumors and Is Required for Cell Survival. PLoS genetics.
• 1. Walling LR
  2. Butler JS
  (2016 Sep 26). Structural determinants for antitoxin identity and insulation of cross talk between homologous toxin-antitoxin systems. Journal of bacteriology.
• 1. Sparks RP
  2. Jenkins JL
  3. Miner GE
  4. Wang Y
  5. Guida WC
  6. Sparks CE
  7. Fratti RA
  8. Sparks JD
  (2016 Sep 22). Phosphatidylinositol (3,4,5)-trisphosphate binds to sortilin and competes with neurotensin: Implications for very low density lipoprotein binding. Biochemical and biophysical research communications.
• 1. Sridharan R
  2. Connelly SM
  3. Naider F
  4. Dumont ME
  (2016 Sep 19). Variable Dependence of Signaling Output on Agonist Occupancy of Ste2p, a G Protein Coupled Receptor in Yeast. The Journal of biological chemistry.
• 1. Nadtochiy SM
  2. Schafer X
  3. Fu D
  4. Nehrke K
  5. Munger J
  6. Brookes PS
  (2016 Aug 10). Acidic pH is a Metabolic Switch for 2-Hydroxyglutarate Generation and Signaling. The Journal of biological chemistry.
• 1. Sparks RP
  2. Guida WC
  3. Sowden MP
  4. Jenkins JL
  5. Starr ML
  6. Fratti RA
  7. Sparks CE
  8. Sparks JD
  (2016 Aug 2). Sortilin facilitates VLDL-B100 secretion by insulin sensitive McArdle RH7777 cells. Biochemical and biophysical research communications.
• 1. Gamble CE
  2. Brule CE
  3. Dean KM
  4. Fields S
  5. Grayhack EJ
  (2016 Jun 29). Adjacent Codons Act in Concert to Modulate Translation Efficiency in Yeast. Cell.
• 1. Black PJ
  2. Miller AS
  3. Hayes JJ
  (2016 Jun 27). Radioresistance of GGG sequences to prompt strand break formation from direct-type radiation damage. Radiation and environmental biophysics.
• 1. Gleghorn ML
  2. Zhao J
  3. Turner DH
  4. Maquat LE
  (2016 Jun 10). Crystal structure of a poly(rA) staggered zipper at acidic pH: evidence that adenine N1 protonation mediates parallel double helix formation. Nucleic acids research.
• 1. Wu G
  2. Radwan MK
  3. Xiao M
  4. Adachi H
  5. Fan J
  6. Yu YT
  (2016 Jun 7). The TOR signaling pathway regulates starvation-induced pseudouridylation of yeast U2 snRNA. RNA (New York, N.Y.).
• 1. Popp MW
  2. Maquat LE
  (2016 Jun 2). Leveraging Rules of Nonsense-Mediated mRNA Decay for Genome Engineering and Personalized Medicine. Cell.
• 1. Svetina S
  2. Kokot G
  3. Kebe TŠ
  4. Žekš B
  5. Waugh RE
  (2016 Jun). A novel strain energy relationship for red blood cell membrane skeleton based on spectrin stiffness and its application to micropipette deformation. Biomechanics and modeling in mechanobiology.
• 1. Marsh G
  2. Waugh RE
  (2016 Jun). A simple approach for bioactive surface calibration using evanescent waves. Journal of microscopy.
• 1. Coudray N
  2. Lasala R
  3. Zhang Z
  4. Clark KM
  5. Dumont ME
  6. Stokes DL
  (2016 May 30). Deducing the Symmetry of Helical Assemblies: Applications to Membrane Proteins. Journal of structural biology.
• 1. Salter JD
  2. Bennett RP
  3. Smith HC
  (2016 May 30). The APOBEC Protein Family: United by Structure, Divergent in Function. Trends in biochemical sciences.
• 1. Salsi E
  2. Farah E
  3. Ermolenko DN
  (2016 May 22). EF-G Activation by Phosphate Analogs. Journal of molecular biology.
• 1. Miralem T
  2. Lerner-Marmarosh N
  3. Gibbs PE
  4. Jenkins JL
  5. Heimiller C
  6. Maines MD
  (2016 May 10). Interaction of human biliverdin reductase with Akt/protein kinase B and phosphatidylinositol-dependent kinase 1 regulates glycogen synthase kinase 3 activity: a novel mechanism of Akt activation. FASEB journal : official publication of the Federation of American Societies for Experimental Biology.
• 1. Xu S
  2. Schafer X
  3. Munger J
  (2016 May 1). Expression of Oncogenic Alleles Induces Multiple Blocks to Human Cytomegalovirus Infection. Journal of virology.
• 1. Monaghan M
  2. Wakabayashi H
  3. Griffiths AE
  4. Fay PJ
  (2016 May). Stabilizing interactions between D666-S1787 and T657-Y1792 at the A2-A3 interface support factor VIIIa stability in the blood clotting pathway. Journal of thrombosis and haemostasis : JTH.
• 1. Ling C
  2. Ermolenko DN
  (2016 Apr 27). Structural insights into ribosome translocation. Wiley interdisciplinary reviews. RNA.
• 1. Piekna-Przybylska D
  2. Bambara RA
  3. Balakrishnan L
  (2016 Apr 22). Acetylation regulates DNA repair mechanisms in human cells. Cell cycle (Georgetown, Tex.).
• 1. Yue H
  2. Fang H
  3. Wei S
  4. Hayes JJ
  5. Lee TH
  (2016 Apr 12). Single-Molecule Studies of the Linker Histone H1 Binding to DNA and the Nucleosome. Biochemistry.
• 1. Shaheen R
  2. Han L
  3. Faqeih E
  4. Ewida N
  5. Alobeid E
  6. Phizicky EM
  7. Alkuraya FS
  (2016 Apr 7). A homozygous truncating mutation in PUS3 expands the role of tRNA modification in normal cognition. Human genetics.
• 1. Nelles DA
  2. Fang MY
  3. O'Connell MR
  4. Xu JL
  5. Markmiller SJ
  6. Doudna JA
  7. Yeo GW
  (2016 Apr 07). Programmable RNA Tracking in Live Cells with CRISPR/Cas9. Cell.
• 1. Maquat LE
  (2016 Apr). Eukaryotic antisense ahead of its time. Nature reviews. Molecular cell biology.
• 1. DiChiacchio L
  2. Sloma MF
  3. Mathews DH
  (2016 Apr 1). AccessFold: predicting RNA-RNA interactions with consideration for competing self-structure. Bioinformatics (Oxford, England).
• 1. Hollenbaugh JA
  2. Montero C
  3. Schinazi RF
  4. Munger J
  5. Kim B
  (2016 Apr). Metabolic profiling during HIV-1 and HIV-2 infection of primary human monocyte-derived macrophages. Virology.
• 1. Carter JA
  2. Triplett E
  3. Striemer CC
  4. Miller BL
  (2016 Mar 15). A label-free, multiplex competitive assay for small molecule pollutants. Biosensors & bioelectronics.
• 1. Wu G
  2. Adachi H
  3. Ge J
  4. Stephenson D
  5. Query CC
  6. Yu YT
  (2016 Mar 15). Pseudouridines in U2 snRNA stimulate the ATPase activity of Prp5 during spliceosome assembly. The EMBO journal.
• 1. Polevoda B
  2. McDougall WM
  3. Bennett RP
  4. Salter JD
  5. Smith HC
  (2016 Mar 14). Structural and functional assessment of APOBEC3G macromolecular complexes. Methods (San Diego, Calif.).
• 1. Bertozzi C
  2. Zimmermann I
  3. Engeler S
  4. Hilf RJ
  5. Dutzler R
  (2016 Mar). Signal Transduction at the Domain Interface of Prokaryotic Pentameric Ligand-Gated Ion Channels. PLoS biology.
• 1. Elbarbary RA
  2. Maquat LE
  (2016 Mar 1). Coupling pre-mRNA splicing and 3' end formation to mRNA export: alternative ways to punch the nuclear export clock. Genes & development.
• 1. Vukomanovic D
  2. Rahman MN
  3. Maines MD
  4. Ozolinš TR
  5. Szarek WA
  6. Jia Z
  7. Nakatsu K
  (2016 Mar). Cysteine-independent activation/inhibition of heme oxygenase-2. Medical gas research.
• 1. Nganou C
  2. Kennedy SD
  3. McCamant DW
  (2016 Feb 25). Disagreement Between the Structure of the dTpT Thymine Pair Determined by NMR and Molecular Dynamics Simulations Using Amber 14 Force Fields. The journal of physical chemistry. B.
• 1. McAnany JD
  2. Reichert JP
  3. Miller BL
  (2016 Feb 24). Probing the geometric constraints of RNA binding via dynamic covalent chemistry. Bioorganic & medicinal chemistry.
• 1. Elbarbary RA
  2. Lucas BA
  3. Maquat LE
  (2016 Feb 12). Retrotransposons as regulators of gene expression. Science (New York, N.Y.).
• 1. Huang C
  2. Karijolich J
  3. Yu YT
  (2016 Feb 4). Detection and quantification of RNA 2'-O-methylation and pseudouridylation. Methods (San Diego, Calif.).
• 1. Kurosaki T
  2. Maquat LE
  (2016 Feb 1). Nonsense-mediated mRNA decay in humans at a glance. Journal of cell science.
• 1. Hilimire TA
  2. Bennett RP
  3. Stewart RA
  4. Garcia-Miranda P
  5. Blume A
  6. Becker J
  7. Sherer N
  8. Helms ED
  9. Butcher SE
  10. Smith HC
  11. Miller BL
  (2016 Jan 15). N-Methylation as a Strategy for Enhancing the Affinity and Selectivity of RNA-binding Peptides: Application to the HIV-1 Frameshift-Stimulating RNA. ACS chemical biology.
• 1. Uppal N
  2. Foxe JJ
  3. Butler JS
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