Scalable biobanking: A modular electronic Honest Broker and Biorepository for integrated clinical, specimen and genomic research. - Alex S. Felmeister; Tyler J. Rivera; Aaron J. Masino; Adam C. Resnick; Jeffrey W. Pennington (BIBM, 2015)

annoFuse: an R Package to annotate, prioritize, and interactively explore putative oncogenic RNA fusions. - Krutika S. Gaonkar; Federico Marini 002; Komal S. Rathi; Payal Jain; Yuankun Zhu; Nicholas A. Chimicles; Miguel A. Brown; Ammar S. Naqvi; Bo Zhang 062; Phillip B. Storm; John M. Maris; Pichai Raman; et al. (BMC Bioinform., 2020)

A transcriptome-based classifier to determine molecular subtypes in medulloblastoma. - Komal S. Rathi; Sherjeel Arif; Mateusz Koptyra; Ammar S. Naqvi; Deanne M. Taylor; Phillip B. Storm; Adam C. Resnick; Jo Lynne Rokita; Pichai Raman (PLoS Comput. Biol., 2020)

MitoScape: A big-data, machine-learning platform for obtaining mitochondrial DNA from next-generation sequencing data. - Larry N. Singh; Brian Ennis; Bryn Loneragan; Noah L. Tsao; M. Isabel G. Lopez Sanchez; Jianping Li; Patrick Acheampong; Oanh Tran; Ian A. Trounce; Yuankun Zhu; Prasanth Potluri; Regeneron Genetics Center; et al. (PLoS Comput. Biol., 2021)

Automated segmentation of pediatric brain tumors based on multi-parametric MRI and deep learning. - Rachel Madhogarhia; Anahita Fathi Kazerooni; Sherjeel Arif; Jeffrey B. Ware; Ariana M. Familiar; Lorenna Vidal; Sina Bagheri; Hannah Anderson; Debanjan Haldar; Sophie Yagoda; Erin Graves; Michael Spadola; et al. (Computer-Aided Diagnosis, 2022)

A Framework for the Interoperability of Cloud Platforms: Towards FAIR Data in SAFE Environments. - Robert L. Grossman; Rebecca R. Boyles; Brandi N. Davis-Dusenbery; Amanda Haddock; Allison P. Heath; Brian D. O'Connor; Adam C. Resnick; Deanne M. Taylor; Stan Ahalt (CoRR, 2022)

The Brain Tumor Segmentation (BraTS) Challenge 2023: Focus on Pediatrics (CBTN-CONNECT-DIPGR-ASNR-MICCAI BraTS-PEDs). - Anahita Fathi Kazerooni; Nastaran Khalili; Xinyang Liu; Debanjan Haldar; Zhifan Jiang; Syed Muhammad Anwar; Jake Albrecht; Maruf Adewole; Udunna Anazodo; Hannah Anderson; Sina Bagheri; Ujjwal Baid; et al. (CoRR, 2023)

A multi-institutional pediatric dataset of clinical radiology MRIs by the Children's Brain Tumor Network. - Ariana M. Familiar; Anahita Fathi Kazerooni; Hannah Anderson; Aliaksandr Lubneuski; Karthik Viswanathan; Rocky Breslow; Nastaran Khalili; Sina Bagheri; Debanjan Haldar; Meen Chul Kim; Sherjeel Arif; Rachel Madhogarhia; et al. (CoRR, 2023)

Training and Comparison of nnU-Net and DeepMedic Methods for Autosegmentation of Pediatric Brain Tumors. - Arastoo Vossough; Nastaran Khalili; Ariana M. Familiar; Deep Gandhi; Karthik Viswanathan; Wenxin Tu; Debanjan Haldar; Sina Bagheri; Hannah Anderson; Shuvanjan Haldar; Phillip B. Storm; Adam C. Resnick; et al. (CoRR, 2024)

The Brain Tumor Segmentation in Pediatrics (BraTS-PEDs) Challenge: Focus on Pediatrics (CBTN-CONNECT-DIPGR-ASNR-MICCAI BraTS-PEDs). - Anahita Fathi Kazerooni; Nastaran Khalili; Deep Gandhi; Xinyang Liu; Zhifan Jiang; Syed Muhammed Anwar; Jake Albrecht; Maruf Adewole; Udunna Anazodo; Hannah Anderson; Sina Bagheri; Ujjwal Baid; et al. (CoRR, 2024)

BraTS-PEDs: Results of the Multi-Consortium International Pediatric Brain Tumor Segmentation Challenge 2023. - Anahita Fathi Kazerooni; Nastaran Khalili; Xinyang Liu; Debanjan Haldar; Zhifan Jiang; Anna Zapaishchykova; Julija Pavaine; Lubdha M. Shah; Blaise V. Jones; Nakul Sheth; Sanjay P. Prabhu; Aaron S. McAllister; et al. (CoRR, 2024)

Playbook workflow builder: Interactive construction of bioinformatics workflows. - Daniel J. B. Clarke; John Erol Evangelista; Zhuorui Xie; Giacomo B. Marino; Anna I. Byrd; Mano Ram Maurya; Sumana Srinivasan; Keyang Yu; Varduhi Petrosyan; Matthew E. Roth; Miroslav Milinkov; Charles Hadley King; et al. (PLoS Comput. Biol., 2025)