Recent Publications

• 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. Fang H
  2. Wei S
  3. Lee TH
  4. Hayes JJ
  (2016 Jun 30). Chromatin structure-dependent conformations of the H1 CTD. Nucleic acids research.
• 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. 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. 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. Salsi E
  2. Farah E
  3. Ermolenko DN
  (2016 May 22). EF-G Activation by Phosphate Analogs. Journal of molecular biology.
• 1. Kennedy RB
  2. Simon WL
  3. Gibson MJ
  4. Goergen KM
  5. Grill DE
  6. Oberg AL
  7. Poland GA
  (2016 May 17). The composition of immune cells serves as a predictor of adaptive immunity in a cohort of 50- to 74-year-old adults. Immunology.
• 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. 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. 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
  4. Acluche F
  5. Molholm S
  (2016 Jan 13). The neural dynamics of somatosensory processing and adaptation across childhood: A high-density electrical mapping study. Journal of neurophysiology.
• 1. Agrawal AA
  2. Salsi E
  3. Chatrikhi R
  4. Henderson S
  5. Jenkins JL
  6. Green MR
  7. Ermolenko DN
  8. Kielkopf CL
  (2016). An extended U2AF(65)-RNA-binding domain recognizes the 3' splice site signal. Nature communications.
• 1. Brule CE
  2. Dean KM
  3. Grayhack EJ
  (2016). RNA-ID, a Powerful Tool for Identifying and Characterizing Regulatory Sequences. Methods in enzymology.
• 1. Huang C
  2. Wu G
  3. Yu YT
  (2016). Purification and Functional Reconstitution of Box H/ACA Ribonucleoprotein Particles. Methods in molecular biology (Clifton, N.J.).
• 1. Gibbs PE
  2. Miralem T
  3. Lerner-Marmarosh N
  4. Maines MD
  (2016). Nanoparticle Delivered Human Biliverdin Reductase-Based Peptide Increases Glucose Uptake by Activating IRK/Akt/GSK3 Axis: The Peptide Is Effective in the Cell and Wild-Type and Diabetic Ob/Ob Mice. Journal of diabetes research.
• 1. Ling C
  2. Ermolenko DN
  (2015 Dec 29). Initiation factor 2 stabilizes the ribosome in a semirotated conformation. Proceedings of the National Academy of Sciences of the United States of America.
• 1. Zhu G
  2. Koszelak-Rosenblum M
  3. Connelly SM
  4. Dumont ME
  5. Malkowski MG
  (2015 Dec 11). The Crystal Structure of an Integral Membrane Fatty Acid α-Hydroxylase. The Journal of biological chemistry.
• 1. Quivey RG
  2. Grayhack EJ
  3. Faustoferri RC
  4. Hubbard CJ
  5. Baldeck JD
  6. Wolf AS
  7. MacGilvray ME
  8. Rosalen PL
  9. Scott-Anne K
  10. Santiago B
  11. Gopal S
  12. Payne J
  13. Marquis RE
  (2015 Dec). Functional profiling in Streptococcus mutans: construction and examination of a genomic collection of gene deletion mutants. Molecular oral microbiology.
• 1. Balliano AJ
  2. Hayes JJ
  (2015 Dec). Base excision repair in chromatin: Insights from reconstituted systems. DNA repair.
• 1. Goodwin CM
  2. Xu S
  3. Munger J
  (2015 Dec). Stealing the Keys to the Kitchen: Viral Manipulation of the Host Cell Metabolic Network. Trends in microbiology.
• 1. Guy MP
  2. Shaw M
  3. Weiner CL
  4. Hobson L
  5. Stark Z
  6. Rose K
  7. Kalscheuer VM
  8. Gecz J
  9. Phizicky EM
  (2015 Dec). Defects in tRNA Anticodon Loop 2'-O-Methylation Are Implicated in Nonsyndromic X-Linked Intellectual Disability due to Mutations in FTSJ1. Human mutation.
• 1. Chen JL
  2. Bellaousov S
  3. Tubbs JD
  4. Kennedy SD
  5. Lopez MJ
  6. Mathews DH
  7. Turner DH
  (2015 Nov 17). Nuclear Magnetic Resonance-Assisted Prediction of Secondary Structure for RNA: Incorporation of Direction-Dependent Chemical Shift Constraints. Biochemistry.
• 1. Dutta D
  2. Wedekind JE
  (2015 Nov 6). Gene Regulation Gets in Tune: How Riboswitch Tertiary-Structure Networks Adapt to Meet the Needs of Their Transcription Units. Journal of molecular biology.
• 1. Huang H
  2. Santoso N
  3. Power D
  4. Simpson S
  5. Dieringer M
  6. Miao H
  7. Gurova K
  8. Giam CZ
  9. Elledge SJ
  10. Zhu J
  (2015 Nov 6). FACT Proteins, SUPT16H and SSRP1, Are Transcriptional Suppressors of HIV-1 and HTLV-1 That Facilitate Viral Latency. The Journal of biological chemistry.
• 1. Nadtochiy SM
  2. Urciuoli W
  3. Zhang J
  4. Schafer X
  5. Munger J
  6. Brookes PS
  (2015 Nov). Metabolomic profiling of the heart during acute ischemic preconditioning reveals a role for SIRT1 in rapid cardioprotective metabolic adaptation. Journal of molecular and cellular cardiology.
• 1. Aytenfisu AH
  2. Liberman JA
  3. Wedekind JE
  4. Mathews DH
  (2015 Nov). Molecular mechanism for preQ1-II riboswitch function revealed by molecular dynamics. RNA (New York, N.Y.).
• 1. Polevoda B
  2. McDougall WM
  3. Tun BN
  4. Cheung M
  5. Salter JD
  6. Friedman AE
  7. Smith HC
  (2015 Oct 30). RNA binding to APOBEC3G induces the disassembly of functional deaminase complexes by displacing single-stranded DNA substrates. Nucleic acids research.
• 1. Campbell A
  2. Bushman J
  3. Munger J
  4. Noble M
  5. Pröschel C
  6. Mayer-Pröschel M
  (2015 Oct 15). Mutation of ataxia-telangiectasia mutated is associated with dysfunctional glutathione homeostasis in cerebellar astroglia. Glia.
• 1. Cutter AR
  2. Hayes JJ
  (2015 Oct 7). A brief review of nucleosome structure. FEBS letters.
• 1. Seward CH
  2. Manzella A
  3. Alam A
  4. Butler JS
  5. Dziejman M
  (2015 Oct). Using S. cerevisiae as a Model System to Investigate V. cholerae VopX-Host Cell Protein Interactions and Phenotypes. Toxins.
• 1. Yada K
  2. Nogami K
  3. Takeyama M
  4. Ogiwara K
  5. Wakabayashi H
  6. Shima M
  (2015 Oct). Mild hemophilia A patient with novel Pro1809Leu mutation develops an anti-C2 antibody inhibiting allogeneic but not autologous factor VIII activity. Journal of thrombosis and haemostasis : JTH.
• 1. Karijolich J
  2. Yi C
  3. Yu YT
  (2015 Oct). Transcriptome-wide dynamics of RNA pseudouridylation. Nature reviews. Molecular cell biology.
• 1. Loerch S
  2. Kielkopf CL
  (2015 Sep 25). Dividing and Conquering the Family of RNA Recognition Motifs: A Representative Case Based on hnRNP L. Journal of molecular biology.
• 1. Wu Y
  2. Shi B
  3. Ding X
  4. Liu T
  5. Hu X
  6. Yip KY
  7. Yang ZR
  8. Mathews DH
  9. Lu ZJ
  (2015 Sep 3). Improved prediction of RNA secondary structure by integrating the free energy model with restraints derived from experimental probing data. Nucleic acids research.
• 1. Cozen AE
  2. Quartley E
  3. Holmes AD
  4. Hrabeta-Robinson E
  5. Phizicky EM
  6. Lowe TM
  (2015 Sep). ARM-seq: AlkB-facilitated RNA methylation sequencing reveals a complex landscape of modified tRNA fragments. Nature methods.
• 1. Lin D
  2. Grossfield A
  (2015 Aug 18). Thermodynamics of Micelle Formation and Membrane Fusion Modulate Antimicrobial Lipopeptide Activity. Biophysical journal.
• 1. Leioatts N
  2. Romo TD
  3. Danial SA
  4. Grossfield A
  (2015 Aug 4). Retinal Conformation Changes Rhodopsin's Dynamic Ensemble. Biophysical journal.
• 1. Buescher JM
  2. Antoniewicz MR
  3. Boros LG
  4. Burgess SC
  5. Brunengraber H
  6. Clish CB
  7. DeBerardinis RJ
  8. Feron O
  9. Frezza C
  10. Ghesquiere B
  11. Gottlieb E
  12. Hiller K
  13. Jones RG
  14. Kamphorst JJ
  15. Kibbey RG
  16. Kimmelman AC
  17. Locasale JW
  18. Lunt SY
  19. Maddocks OD
  20. Malloy C
  21. Metallo CM
  22. Meuillet EJ
  23. Munger J
  24. Nöh K
  25. Rabinowitz JD
  26. Ralser M
  27. Sauer U
  28. Stephanopoulos G
  29. St-Pierre J
  30. Tennant DA
  31. Wittmann C
  32. Vander Heiden MG
  33. Vazquez A
  34. Vousden K
  35. Young JD
  36. Zamboni N
  37. Fendt SM
  (2015 Aug). A roadmap for interpreting (13)C metabolite labeling patterns from cells. Current opinion in biotechnology.
• 1. Liberman JA
  2. Suddala KC
  3. Aytenfisu A
  4. Chan D
  5. Belashov IA
  6. Salim M
  7. Mathews DH
  8. Spitale RC
  9. Walter NG
  10. Wedekind JE
  (2015 Jul 7). Structural analysis of a class III preQ1 riboswitch reveals an aptamer distant from a ribosome-binding site regulated by fast dynamics. Proceedings of the National Academy of Sciences of the United States of America.
• 1. Miller BL
  (2015 Jul). mRNA regulation: A patch for a splice. Nature chemical biology.
• 1. Power D
  2. Santoso N
  3. Dieringer M
  4. Yu J
  5. Huang H
  6. Simpson S
  7. Seth I
  8. Miao H
  9. Zhu J
  (2015 Jul). IFI44 suppresses HIV-1 LTR promoter activity and facilitates its latency. Virology.
• 1. Condon DE
  2. Kennedy SD
  3. Mort BC
  4. Kierzek R
  5. Yildirim I
  6. Turner DH
  (2015 Jun 9). Stacking in RNA: NMR of Four Tetramers Benchmark Molecular Dynamics. Journal of chemical theory and computation.
• 1. Ling C
  2. Ermolenko DN
  (2015 Jun 2). Ribosome subunit joining frozen in time. Structure (London, England : 1993).
• 1. Chen JL
  2. Kennedy SD
  3. Turner DH
  (2015 Jun 2). Structural features of a 3' splice site in influenza a. Biochemistry.
• 1. Xu S
  2. Spencer CM
  3. Munger J
  (2015 Jun). Transformation with oncogenic Ras and the simian virus 40 T antigens induces caspase-dependent sensitivity to fatty acid biosynthetic inhibition. Journal of virology.
• 1. Wolf AS
  2. Grayhack EJ
  (2015 May). Asc1, homolog of human RACK1, prevents frameshifting in yeast by ribosomes stalled at CGA codon repeats. RNA (New York, N.Y.).
• 1. Xu F
  2. Huang Y
  3. Li L
  4. Gannon P
  5. Linster E
  6. Huber M
  7. Kapos P
  8. Bienvenut W
  9. Polevoda B
  10. Meinnel T
  11. Hell R
  12. Giglione C
  13. Zhang Y
  14. Wirtz M
  15. Chen S
  16. Li X
  (2015 May). Two N-terminal acetyltransferases antagonistically regulate the stability of a nod-like receptor in Arabidopsis. The Plant cell.
• 1. Jin G
  2. Pavelka MS
  3. Butler JS
  (2015 Apr). Structure-function analysis of VapB4 antitoxin identifies critical features of a minimal VapC4 toxin-binding module. Journal of bacteriology.
• 1. Elbarbary RA
  2. Maquat LE
  (2015 Apr 1). CARMing down the SINEs of anarchy: two paths to freedom from paraspeckle detention. Genes & development.
• 1. Okeyo-Owuor T
  2. White BS
  3. Chatrikhi R
  4. Mohan DR
  5. Kim S
  6. Griffith M
  7. Ding L
  8. Ketkar-Kulkarni S
  9. Hundal J
  10. Laird KM
  11. Kielkopf CL
  12. Ley TJ
  13. Walter MJ
  14. Graubert TA
  (2015 Apr). U2AF1 mutations alter sequence specificity of pre-mRNA binding and splicing. Leukemia.
• 1. Maquat LE
  (2015 Apr). The amazing web of post-transcriptional gene control: the sum of small changes can make for significant consequences. RNA (New York, N.Y.).
• 1. Phizicky EM
  2. Hopper AK
  (2015 Apr). tRNA processing, modification, and subcellular dynamics: past, present, and future. RNA (New York, N.Y.).
• 1. Karijolich J
  2. Yu YT
  (2015 Apr). The new era of RNA modification. RNA (New York, N.Y.).
• 1. Aroda VR
  2. Christophi CA
  3. Edelstein SL
  4. Zhang P
  5. Herman WH
  6. Barrett-Connor E
  7. Delahanty LM
  8. Montez MG
  9. Ackermann RT
  10. Zhuo X
  11. Knowler WC
  12. Ratner RE
  (2015 Apr). The effect of lifestyle intervention and metformin on preventing or delaying diabetes among women with and without gestational diabetes: the Diabetes Prevention Program outcomes study 10-year follow-up. The Journal of clinical endocrinology and metabolism.
• 1. Popp MW
  2. Maquat LE
  (2015 Mar 20). RNA. A TRICK'n way to see the pioneer round of translation. Science (New York, N.Y.).
• 1. Zuber J
  2. Danial SA
  3. Connelly SM
  4. Naider F
  5. Dumont ME
  (2015 Mar 10). Identification of destabilizing and stabilizing mutations of Ste2p, a G protein-coupled receptor in Saccharomyces cerevisiae. Biochemistry.
• 1. Baker JE
  2. Sriram R
  3. Miller BL
  (2015 Feb 21). Two-dimensional photonic crystals for sensitive microscale chemical and biochemical sensing. Lab on a chip.
• 1. Han L
  2. Kon Y
  3. Phizicky EM
  (2015 Feb). Functional importance of Ψ38 and Ψ39 in distinct tRNAs, amplified for tRNAGln(UUG) by unexpected temperature sensitivity of the s2U modification in yeast. RNA (New York, N.Y.).
• 1. Bulger M
  2. Palis J
  (2015 Feb). Environmentally-defined enhancer populations regulate diversity of tissue-resident macrophages. Trends in immunology.
• 1. Kapogiannis D
  2. Boxer A
  3. Schwartz JB
  4. Abner EL
  5. Biragyn A
  6. Masharani U
  7. Frassetto L
  8. Petersen RC
  9. Miller BL
  10. Goetzl EJ
  (2015 Feb). Dysfunctionally phosphorylated type 1 insulin receptor substrate in neural-derived blood exosomes of preclinical Alzheimer's disease. FASEB journal : official publication of the Federation of American Societies for Experimental Biology.
• 1. Salsi E
  2. Farah E
  3. Netter Z
  4. Dann J
  5. Ermolenko DN
  (2015 Jan 30). Movement of elongation factor G between compact and extended conformations. Journal of molecular biology.
• 1. Leong L
  2. Sim D
  3. Patel C
  4. Tran K
  5. Liu P
  6. Ho E
  7. Thompson T
  8. Kretschmer PJ
  9. Wakabayashi H
  10. Fay PJ
  11. Murphy JE
  (2015 Jan 8). Noncovalent stabilization of the factor VIII A2 domain enhances efficacy in hemophilia A mouse vascular injury models. Blood.
• 1. Fu Y
  2. Xu ZZ
  3. Lu ZJ
  4. Zhao S
  5. Mathews DH
  (2015). Discovery of Novel ncRNA Sequences in Multiple Genome Alignments on the Basis of Conserved and Stable Secondary Structures. PloS one.
• 1. Payea MJ
  2. Guy MP
  3. Phizicky EM
  (2015). Methodology for the High-Throughput Identification and Characterization of tRNA Variants That Are Substrates for a tRNA Decay Pathway. Methods in enzymology.
• 1. Gibbs PE
  2. Miralem T
  3. Maines MD
  (2015). Biliverdin reductase: a target for cancer therapy? Frontiers in pharmacology.
• 1. Aytenfisu AH
  2. Spasic A
  3. Grossfield A
  4. Stern H
  5. Mathews DH
  (2015). 99 Improving the amber RNA force field. Journal of biomolecular structure & dynamics.
• 1. Mathew E
  2. Dumont ME
  (2015). A Novel Screening Approach for Optimal and Functional Fusion of T4 Lysozyme in GPCRs. Methods in enzymology.
• 1. Gong C
  2. Maquat LE
  (2015). Affinity purification of long noncoding RNA-protein complexes from formaldehyde cross-linked mammalian cells. Methods in molecular biology (Clifton, N.J.).
• 1. Jackson KL
  2. Dayton RD
  3. Orchard EA
  4. Ju S
  5. Ringe D
  6. Petsko GA
  7. Maquat LE
  8. Klein RL
  (2015 Jan). Preservation of forelimb function by UPF1 gene therapy in a rat model of TDP-43-induced motor paralysis. Gene therapy.
• 1. Popp MW
  2. Maquat LE
  (2015). Attenuation of nonsense-mediated mRNA decay facilitates the response to chemotherapeutics. Nature communications.
• 1. Sloma MF
  2. Mathews DH
  (2015). Improving RNA secondary structure prediction with structure mapping data. Methods in enzymology.
• 1. Bucukovski J
  2. Latorre-Margalef N
  3. Stallknecht DE
  4. Miller BL
  (2015). A Multiplex Label-Free Approach to Avian Influenza Surveillance and Serology. PloS one.
• 1. Guy MP
  2. Phizicky EM
  (2015 Jan). Conservation of an intricate circuit for crucial modifications of the tRNAPhe anticodon loop in eukaryotes. RNA (New York, N.Y.).
• 1. Shaheen R
  2. Abdel-Salam GM
  3. Guy MP
  4. Alomar R
  5. Abdel-Hamid MS
  6. Afifi HH
  7. Ismail SI
  8. Emam BA
  9. Phizicky EM
  10. Alkuraya FS
  (2015). Mutation in WDR4 impairs tRNA m(7)G46 methylation and causes a distinct form of microcephalic primordial dwarfism. Genome biology.
• 1. Enwerem II
  2. Wu G
  3. Yu YT
  4. Hebert MD
  (2015). Cajal body proteins differentially affect the processing of box C/D scaRNPs. PloS one.
• 1. Wu G
  2. Huang C
  3. Yu YT
  (2015). Pseudouridine in mRNA: Incorporation, Detection, and Recoding. Methods in enzymology.
• 1. Fu Y
  2. Sharma G
  3. Mathews DH
  (2014 Dec 16). Dynalign II: common secondary structure prediction for RNA homologs with domain insertions. Nucleic acids research.
• 1. DeVito SR
  2. Ortiz-Riaño E
  3. Martínez-Sobrido L
  4. Munger J
  (2014 Dec 16). Cytomegalovirus-mediated activation of pyrimidine biosynthesis drives UDP-sugar synthesis to support viral protein glycosylation. Proceedings of the National Academy of Sciences of the United States of America.
• 1. Romo TD
  2. Leioatts N
  3. Grossfield A
  (2014 Dec 15). Lightweight object oriented structure analysis: tools for building tools to analyze molecular dynamics simulations. Journal of computational chemistry.
• 1. Agrawal AA
  2. McLaughlin KJ
  3. Jenkins JL
  4. Kielkopf CL
  (2014 Dec 9). Structure-guided U2AF65 variant improves recognition and splicing of a defective pre-mRNA. Proceedings of the National Academy of Sciences of the United States of America.
• 1. Mathers C
  2. Schafer X
  3. Martínez-Sobrido L
  4. Munger J
  (2014 Dec). The human cytomegalovirus UL26 protein antagonizes NF-κB activation. Journal of virology.
• 1. Adachi H
  2. Yu YT
  (2014 Nov 26). Insight into the mechanisms and functions of spliceosomal snRNA pseudouridylation. World journal of biological chemistry.
• 1. Zhu J
  2. Davoli T
  3. Perriera JM
  4. Chin CR
  5. Gaiha GD
  6. John SP
  7. Sigiollot FD
  8. Gao G
  9. Xu Q
  10. Qu H
  11. Pertel T
  12. Sims JS
  13. Smith JA
  14. Baker RE
  15. Maranda L
  16. Ng A
  17. Elledge SJ
  18. Brass AL
  (2014 Oct 23). Comprehensive identification of host modulators of HIV-1 replication using multiple orthologous RNAi reagents. Cell reports.
• 1. Lin D
  2. Grossfield A
  (2014 Oct 21). Thermodynamics of antimicrobial lipopeptide binding to membranes: origins of affinity and selectivity. Biophysical journal.
• 1. Salsi E
  2. Farah E
  3. Dann J
  4. Ermolenko DN
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