2013 Rustbelt RNA Meeting
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Poster abstracts

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