Feature Selection Methods for Improving Protein Structure Prediction with Rosetta. - Ben Blum; Michael I. Jordan; David E. Kim; Rhiju Das; Philip Bradley; David Baker 001 (NIPS, 2007)

A robust peak detection method for RNA structure inference by high-throughput contact mapping. - Jinkyu Kim 001; Seunghak Yu; Byonghyo Shim; Hanjoo Kim; Hyeyoung Min; Eui-Young Chung; Rhiju Das; Sungroh Yoon (Bioinform., 2009)

HiTRACE: high-throughput robust analysis for capillary electrophoresis. - Sungroh Yoon; Jinkyu Kim 001; Justine Hum; Hanjoo Kim; Seunghyun Park 001; Wipapat Kladwang; Rhiju Das (Bioinform., 2011)

The Stanford RNA Mapping Database for sharing and visualizing RNA structure mapping experiments - Pablo Cordero; Julius B. Lucks; Rhiju Das (CoRR, 2011)

An RNA Mapping DataBase for curating RNA structure mapping experiments. - Pablo Cordero; Julius B. Lucks; Rhiju Das (Bioinform., 2012)

HiTRACE-Web: an online tool for robust analysis of high-throughput capillary electrophoresis. - Hanjoo Kim; Pablo Cordero; Rhiju Das; Sungroh Yoon (Nucleic Acids Res., 2013)

Blind Predictions of DNA and RNA Tweezers Experiments with Force and Torque. - Fang-Chieh Chou; Jan Lipfert; Rhiju Das (PLoS Comput. Biol., 2014)

Automated band annotation for RNA structure probing experiments with numerous capillary electrophoresis profiles. - Seungmyung Lee; Hanjoo Kim; Siqi Tian; Taehoon Lee 001; Sungroh Yoon; Rhiju Das (Bioinform., 2015)

Primerize: automated primer assembly for transcribing non-coding RNA domains. - Siqi Tian; Joseph D. Yesselman; Pablo Cordero; Rhiju Das (Nucleic Acids Res., 2015)

RNA-Redesign: a web server for fixed-backbone 3D design of RNA. - Joseph D. Yesselman; Rhiju Das (Nucleic Acids Res., 2015)

Rich RNA Structure Landscapes Revealed by Mutate-and-Map Analysis. - Pablo Cordero; Rhiju Das (PLoS Comput. Biol., 2015)

Primerize-2D: automated primer design for RNA multidimensional chemical mapping. - Siqi Tian; Rhiju Das (Bioinform., 2017)

SentRNA: Improving computational RNA design by incorporating a prior of human design strategies. - Jade Shi; Rhiju Das; Vijay S. Pande (CoRR, 2018)

Updates to the RNA mapping database (RMDB), version 2. - Joseph D. Yesselman; Siqi Tian; Xin Liu 028; Lei Shi; Jin Billy Li; Rhiju Das (Nucleic Acids Res., 2018)

RNA 3D structure prediction guided by independent folding of homologous sequences. - Marcin Magnus; Kalli Kappel; Rhiju Das; Janusz M. Bujnicki (BMC Bioinform., 2019)

EternaBrain: Automated RNA design through move sets and strategies from an Internet-scale RNA videogame. - Rohan V. Koodli; Benjamin Keep; Katherine R. Coppess; Fernando Portela; Rhiju Das (PLoS Comput. Biol., 2019)

Predictive models of RNA degradation through dual crowdsourcing. - Hannah K. Wayment-Steele; Wipapat Kladwang; Andrew M. Watkins; Do Soon Kim; Bojan Tunguz; Walter Reade; Maggie Demkin; Jonathan Romano; Roger Wellington-Oguri; John J. Nicol; Jiayang Gao; Kazuki Onodera; et al. (CoRR, 2021)

Deep learning models for predicting RNA degradation via dual crowdsourcing. - Hannah K. Wayment-Steele; Wipapat Kladwang; Andrew M. Watkins; Do Soon Kim; Bojan Tunguz; Walter Reade; Maggie Demkin; Jonathan Romano; Roger Wellington-Oguri; John J. Nicol; Jiayang Gao; Kazuki Onodera; et al. (Nat. Mac. Intell., 2022)