2013 Rustbelt RNA Meeting RRM posters

Poster abstracts

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Number	Presenter	Title	PI
1	Najwa Al-Husaini	Title not published online	Jeff Coller
2	Katherine Anderson	Title not published online	Juan Alfonzo
3	Armend Axhemi	Inherent sequence preferences by the nuclease Rrp6p	Eckhard Jankowsky
4	Rohan Balakrishnan	Title not published online	Kurt Fredrick
5	Sumirtha Balaratnam	Effect of divalent metal ions on the stability of RNA G-quadruplex	Soumitra Basu
6	Hamza Balci	G-Quadruplex Formation Enables POT1/TPP1 to Protect Telomeres Against RPA Binding	Hamza Balci
7	Xun Bao	Synthesis, characterization, and reactivity of cisplatin analogues	Christine Chow
8	Saba Barezi	Biophysical studies of QRRM1 of hnRNP H1	Blanton Tolbert
9	Vishnu Priya Battini	Accurate splicing of HDAC6 transcripts requires Son	Paula Bubulya
10	Erkan Bayir	Title not published online	Paula Grabowski
11	Erika Bell	Title not published online	Ivelitza Garcia
12	Anya Belyaevskaya	Title not published online	Tina Henkin
13	Phil Bevilacqua	Molecular Crowding Promotes Folding Cooperativity of RNA in Physiological Ionic Conditions	Philip Bevilacqua
14	Amruta Bhate	Alternative mRNA splicing has a functional role in Mammalian liver development	Auinash Kalsotra
15	Yotam Blech-Hermoni	Effects of CELF1 knockdown on myofibril structure and function in cultured primary embryonic cardiomyocytes	Andrea Ladd
16	Xiaoyu Cao	The Post-transcriptionally Modified Nucleosides of Streptomyces griseus tRNAs	Pat Limbach
17	Casey Cempre	SHAPE analysis of a potential RNA thermosensor in Salmonella enterica	Rachel Mitton-Fry
18	Cai Chen	Transcriptome-wide RNA editing can be used in cancer subtype discrimination	Ralf Bundschuh
19	Ji Chen	Crystal structure of an artificial full-length hammerhead ribozyme	Barbara Golden
20	Tien-Hao Chen	Mass spectrometry-aided identification of the contact sites between a precursor tRNA and a proteinaceous RNase P from Arabidopsis thaliana	Venkat Gopalan
21	Kashish Chetal	Genomic and mechanistic insights of convergent transcription in bacterial genomes	Sarath Chandra Janga
22	Saibyasachi Choudhury	Interaction of the oncogenic miR-21 microRNA and the p53 tumor suppressor pathway	Yong Li
23	Roopa Comandur	HIV-1 subtype-specific differences in tRNALys targeting to viral RNA primer binding site	Karin Musier-Forsyth
24	Brandon Crowe	Building a three-dimensional model of archaeal ribonuclease P, a multi-subunit ribonucleoprotein which catalyzes tRNA 5’ maturation	Mark Foster
25	Andrew Curtright	Elucidation of RNA functional motifs in a lncRNA by in vivo SELEX	Saba Valadkhan
26	Eric Danhart	Biophysical characterization of a trans-editing complex that mediates high-fidelity charging of tRNAPro	Mark Foster
27	Shubham Dayal	Title not published online	Malathi Krishnamurthy
28	Laura de Lorenzo Barrios	Phosphate starvation response 1 uses a dual cis-regulatory logic and acts as a link between drought responses and phosphate homeostasis in plants	Arthur Hunt
29	Gayani Dedduwa-Mudalige	Kinetic and adduct characterization of cisplatin-RNA interactions	Christine Chow
30	Elizabeth DeLaney	The pattern recognition receptor RIG-I proofreads RNA duplex ends through its ATPase activity	Eckhard Jankowsky
31	Sourav Kumar Dey	A general method for site-specific labeling and conjugation of enzymes - exemplified by the lariat debranching enzyme Dbr1p	Subha R. Das
32	Luke Diorio-Toth	Recruiting of ribosomal proteins by ribosomal assembly factors	John Woolford
33	Catey Dominguez	Manipulation of splicing by ASOs to develop an Intermediate SMA mouse model	Dawn Chandler
34	Danielle Dremann	Development of Heptameric Peptides to Target H69 of the Bacterial Ribosome	Christine Chow
35	Alice Duchon	Localization of the LysRS/tRNALys/Gag Packaging Complex During HIV-1 Assembly	Karin Musier-Forsyth
36	Jey Sabith Ebron	Regulation of Androgen Receptor expression through its 3’ untranslated region	Girish Shukla
37	Shirin Fatma	A Small protein that interacts with EF-Tu, GluRS2 and small molecules	Tamara Hendrickson
38	Melanie Fox	Transcriptome-wide analysis of RNA processing defects in S. cerevisiae	Amber Mosley
39	Janie Frandsen	Biochemical investigation of a potential RNA thermometer in Enterobacter cloacae	Rachel Mitton-Fry
40	Jason Galentine	Regulation of Alternative Splicing by p53	Peter Stoilov
41	Thomas Gallagher	Delineating Rbfox-regulated splicing networks critical for vertebrate muscle development	Sharon Amacher
42	Zhaofeng Gao	Two DEAD-box RNA helicases, eIF4A and Ded1p, function simultaneously in the eIF4F complex	Eckhard Jankowsky
43	Kirk Gaston	Life without tRNA Ile-lysidine synthetase: Translation of the isoleucine codon AUA in Bacillus subtilis lacking the canonical tRNA Ile	Pat Limbach
44	Sushmita Ghosh	A molecular, phylogenetic and functional study of the dADAR mRNA truncated isoform in Drosophila embryonic development reveals an editing-independent function during intron splicing regulation	Jack Vaughn
45	Aaron Goldstrohm	Identification of Regulatory Mechanisms and RNA Targets of Human PUF Proteins	Aaron Goldstrohm
46	Sarah Grabinski	Ptbp2 is essential for germ cell development in male mice and exhibits tissue-specific patterns of RNA binding	Donny Licatalosi
47	Anna Griffis	Minding the GAP in Arabidopsis Gametogenesis	Meier Iris
48	Ulf-Peter Guenther	Function of the DEAD-box RNA helicase Ded1p in translation initiation	Eckhard Jankowsky
49	Lalith Gunawardane	Analysis of the “interactome” of a long non-coding RNA: lncRNA-Protein Interactions Capture by AntiSense Oligonucleotides (lncRNA-PICASO)	Saba Valadkhan
50	Elliott Hasenkopf	Title not published online	Ivelitza Garcia
51	Scott Hinger	Identification of TbSEN34 and TbSEN2: the known tRNA splicing endonuclease sub-units in T. brucei	Juan Alfonzo
52	Melissa Hinman	The alternative splicing of neurofibromatosis type I modulates its Ras regulatory activity	Hua Lou
53	Anthony Hinrich	An antisense oligonucleotide that targets splicing to treat Usher syndrome in mice	Michelle Hastings
54	Aishwarya Jacob	Stress-induced isoforms of MDM2 and MDM4 correlate with high-grade disease and an altered splicing network in pediatric rhabdomyosarcoma.	Dawn Chandler
55	Niyati Jain	Structural characterization of the HIV-1 Splice site A7 using NMR	Blanton Tolbert
56	Sarath Chandra Janga	Dissecting the Expression Landscape of RNA-Binding Proteins Implicated In Human Cancers	Sarath Chandra Janga
57	Daniel Jasinski	Determination of free energy, entropy, enthalpy and other thermodynamic parameters of the phi29 bacteriophage pRNA-3WJ and their subsequent applications in nanotechnology and nanomedicine	Peixuan Guo
58	Jun Jiang	Pseudouridine modifications modulate the folding of helix 69 and its response to environmental changes	Christine Chow
59	Auinash Kalsotra	Loss of Mef2 expression reactivates the embryonic cardiac microRNA program in myotonic dystrophy type 1	Auinash Kalsotra
60	Hiroto Kambara	Title not published online	Saba Valadkhan
61	Andrew Kehr	ADAR2: Towards a Structural and Kinetic Understanding of RNA Editing	Gordon Rule
62	Dan Kellerman	Testing a proposed base-pairing interaction between the enzyme and substrate in the hepatitis delta virus (HDV) ribozyme using multiple alternative substrate kinetics	Mike Harris
63	Seth Kelly	Identification of Neuronal Transcripts Regulated by a Nuclear Polyadenosine RNA Binding Protein	Seth Kelly
64	Mohd M. Khan	Endothelin1 mRNA Is Posttranscriptionally Regulated By Glyceraldehyde-3-phosphate Dehydrogenase: Role In Cardiovascular Diseases	Dr. Elsa D. Garcin
65	Emil Khisamutdinov	Programmable folding of fusion RNA complex driven by the 3WJ motif of phi29 motor pRNA	Peixuan Guo
66	Daniel L Kiss	Cytoplasmic mRNA Capping and the Implications of Cap Homeostasis	Daniel Schoenberg
67	Andrew Knappenberger	Enzymatic investigation of ribonucleotide reductase as a chemotherapy target	Mike Harris
68	Salini Konikkat	Investigating the Role of the Nop7-Subcomplex in Assembly of the 60S subunit of Yeast	John Woolford
69	Karen Kormuth	Guanine quadruplexes within ribosomal DNA as potential regulators of ribosomal RNA production	John Woolford
70	Kiel Kreuzer	Title not published online	Tina Henkin
71	Beril Kumcuoglu	The roles of eukaryote-specific extensions of ribosomal proteins in yeast 60S subunit assembly	John Woolford
72	Stella Lai	Towards a molecular model of the Pyrococcus furiosus RNase P holoenzyme	Mark Foster
73	Richard Lease	Riboswitch–small RNA hybrid for dual transcript control by a ligand	Richard Lease
74	Thomas Leeper	Molecular recognition of the SRA epigenetic regulatory lncRNA examined by NMR.	Thomas Leeper
75	Jeff Levengood	Towards Developing a Structure Based Mechanism of Splicing Repression by hnRNP A1 at ssA7 on HIV-1	Blanton Tolbert
76	Hsuan-Chun Lin	Next-generation tools for RNA enzymology: Determination of rate and equilibrium constants for large populations of RNA substrate variants using high throughput sequencing.	Mike Harris
77	Yi-Hsuan Lin	Cooperativity between single-stranded binding proteins on RNA secondary structure	Ralf Bundschuh
78	Yizhu Lin	Human lncRNA Structure Probing by High-throughput Sequncing Method	Joel McManus
79	Robert Littleton	Modulating insulin receptor alternative splicing to treat pediatric rhabdomyosarcoma	Dawn Chandler
80	Liang-Chun Liu	Identification of tRNA elements important for antitermination in the Bacillus subtilis glyQS T box gene	Tina Henkin
81	Mengdi Liu	Analysis of the role of a long non-coding RNA in cancer	Saba Valadkhan
82	Qi Liu	Title not published online	Kurt Fredrick
146	Zhaokun Liu	Dissecting the role of ops sequence in recruiting transcription factor RfaH	Irina Artsimovitch
83	Yicheng Long	Multiple functions of a family of 3’-to-5’ polymerases in Dictyostelium discoideum	Jane Jackman
84	Kaylen Lott	An essential trypanosome RNA binding protein modulates RNA abundance and may be regulated by arginine methylation	Laurie Read
85	Wai Kit Ma	Inhibition of a DEAD-box RNA helicase Dbp2 by the mRNA binding protein Yra1	Elizabeth Tran
86	Xin Ma	Determination of the stoichiometry of Pyrococcus furiosus RNase P by native mass spectrometry	Venkat Gopalan
87	Rijo Maracheril	Title not published online	Xiao-Ning Zhang
88	Ashanti Matlock	Investigating RNA-protein interactions: tRNA binding by 3&prime-5&prime polymerases	Jane Jackman
89	Barsanjit Mazumder	Multifaceted role of ribosomal protein L13a during ribosome biogenesis, cellular IRES activity and translational silencing	Barsanjit Mazumder
90	Natalie Merlino	Functional characterization of the essential RNA editing complex, MRB1, reveals an ABC ATPase protein that acts as an editing specificity factor	Laurie Read
91	Aamir Mir	The Catalytic Mechanism of Hammerhead Ribozyme	Barbara Golden
92	Gayan Mirihana Arachchilage	A library screening approach identified naturally occurring sequences for an RNA G-quadruplex binding ligand	Soumitra Basu
93	Fuad Mohammad	Intronic GU-repeat region dictates alternative splicing of an ultra-conserved poison exon in BRD2	Dawn Chandler
94	Daniel Morris	Structure and RNA binding studies of Steroid Receptor RNA Activator Protein (SRAp)	Thomas Leeper
95	Melissa Mullen Davis	The pausing factor Gdown1 can load into functional RNA polymerase II complexes and accompany pol II through initiation and transcript elongation	Donal Luse
96	Hansini Mundigala	The HIV-1 DIS RNA Dimerizes Through a Bent Kissing Complex Intermediate	David Rueda
97	Daniel Murphy	Mechanism behind blindness caused by defective splicing	Peter Stoilov
98	Monali NandyMazumdar	Mechanism of translation activation by the transcription factor RfaH	Irina Artsimovitch
99	Hieu Nguyen	Splicing regulation of alternative exon 23a of the neurofibromatosis type 1 pre-mRNA by DBIRD complex	Hua Lou
100	Patrick Ochieng	Molecular insights and conformational changes observed in loop A of the hairpin ribozyme	Charles Hoogstraten
101	Erik Olson	Role of Psi RNA elements in specific binding to HIV-1 Gag and solution structure of Psi solved by small angle X-ray scattering	Karin Musier-Forsyth
102	Kenji Oman	Computational methods for the analysis of high throughput sequencing data in RNA biology	Ralf Bundschuh
103	Darren Parker	Alternative mRNA splicing has a functional role in Mammalian liver development	Auinash Kalsotra
104	Krishna Patel	Kinetic investigation of nucleotide addition by a 3'-5' polymerase	Jane Jackman
105	Jennifer Pence	Interaction of Son with a heterochromatic transgene array	Paula Bubulya
106	Vladimir Presnyak	Title not published online	Jeff Coller
107	Medha Raina	Divergent evolution of error rate tolerance during translation of phenylalanine and tyrosine in eukaryotes and prokaryotes	Michael Ibba
108	Mehdi Rajabi	Synthesis, conjugation, and labeling of multifunctional pRNA nanoparticles for specific delivery of drugs, detectors, and other therapeutics to target cells.	Peixuan Guo
109	Andrei Rajkovic	(R)-β-lysine modified elongation factor P functions in translation elongation	Michael Ibba
110	Madhumitha Ramesh	Understanding the roles of eukaryote-specific rRNA expansion segments in ribosome biogenesis	John Woolford
111	Bhalchandra Rao	Absence of a Universal Element for tRNAHis Identity in Eucarya	Jane Jackman
112	Carrie Rollins	Structural insights into the recognition of HIV acceptor splice sites by the UP1 domain of hnRNP A1	Blanton Tolbert
113	M James Ross	Characterization and reactivity of catalytic metallodrugs targeting HCV IRES RNA	Jimmy Cowan
114	Tiffiny Rye-McCurdy	Differences between RSV and HIV-1 Gag nucleic acid chaperone activity attributed to the MA domain	Karin Musier-Forsyth
115	Paul Sample	A Common Modification in an Unusual Place: Wybutosine within the Trypanosome Mitochondrion	Juan Alfonzo
116	Samantha Sanford	Mechanism of Telomerase Function in Human Parasites: Insights into Antigenic Variation and Telomere Length Homeostasis.	Kausik Chakrabarti
117	Hyosuk Seo	Peptides targeting modified helix 69 of 23S rRNA in bacterial ribosomes	Christine Chow
118	Khyati Shah	Understanding the Regulation, Composition and Function of P bodies and Stress Granules in Quiescent Cells	Dr. Paul K. Herman
119	Ashwani Sharma	Phi29 DNA-packaging nanomotor to detect and characterize real time translocation of RNA	Peixuan Guo
120	Madeline Sherlock	Structural Studies of G-Quadruplexes using their Intrinsic Fluorescence	Philip Bevilacqua
121	M. Adnan Siddiqui	Title not published online	Malathi Krishnamurthy
122	Jagjit Singh	Swappable RNA Structures in the Minor Spliceosome	Girish Shukla
123	Jarnail Singh	Somatic mutations in spliceosomal factors lead to alternative splicing patterns in myeloid neoplasms	Richard Padgett
124	Whitney Smith-Kinnaman	RNA polymerase II and 3’ end processing machinery in S. cerevisiae	Amber Mosley
125	William Swinehart	Dynamic modification of tRNA in the yeast S. cerevisiae	Jane Jackman
126	Frank Tedeschi	Genome-wide identification of cellular RNA targets of the DEAD-box helicase Ded1p	Eckhard Jankowsky
127	Kiel Tietz	Rapid clearance of oscillating transcripts during somitogenesis requires the decay adapter Pnrc2 and spliceosome component Cdc5l/Cef1	Sharon Amacher
128	Nathan Titkemeier	Characterization of the isoform and post-translational modification state of lysyl-tRNA synthetase packaged into HIV-1 particles by mass spectrometry	Karin Musier-Forsyth
129	Michele Tolbert	hnRNP A1 Interacts with Conserved IRES Elements in Enterovirus 71	Blanton Tolbert
130	Sushil Tomar	Elucidating recycling of transcription factor RfaH.	Irina Artsimovitch
131	Kelsey Ulanowicz	Characterization of a hypothetical RNA thermometer in Enterobacter cloacae using SHAPE analysis	Rachel Mitton-Fry
132	Oscar Vargas-Rodriguez	Homologous trans-editing factors with broad specificity prevent global mis-incorporation of Ser and Thr during protein synthesis	Karin Musier-Forsyth
133	Siwen Wang	Title not published online	Elizabeth Tran
134	Yaqi Wang	A unique non-spliceosomal rnp-4f nuclear intron class in Drosophila melanogaster	Jack Vaughn
135	Chase Weidmann	Title not published online	Aaron Goldstrohm
136	Collin Wetzel	Improving Comparative Analysis of tRNAs by Mass Spectrometry Using Isotopic Enrichment	Pat Limbach
137	DaJuan Whiteside	Title not published online	Kristian Baker
138	Rebecca Williams-Wagner	Title not published online	Tina Henkin
139	Michael Wolfe	In vivo characterization of multimer-disrupting variants of the Human Thg1 enzyme	Jane Jackman
140	Eileen Workman	Title not published online	Daniel Battle
141	Jingyan Wu	A Genome-wide Analysis to Identify Novel Genes Involved in tRNA Metabolism and Subcellular Trafficking	Anita Hopper
142	Peng Yao	Mechanism and Function of a 3-Element mRNA Switch in the VEGFA 3'UTR	Paul Fox
143	Xuan Ye	3’ to 5’ exonuclease activity of Pop2	Eckhard Jankowsky
144	Bing Zhang	Mechanistic Analysis of The Function of A Large Non-coding RNA	Saba Valadkhan
145	Hongkun Zhu	Functional characterization of derivatives of the aminoglycoside tobramycin	Kurt Fredrick