Ruth Dannenfelser

14 papers A* 1B 2Journal 10
YearRankTypeTitle / Venue / Authors
2025 B conf
ALPINE: An Interpretable Approach for Decoding Phenotypes from Multi-condition Sequencing Data.
RECOMB
Wei-Hao Lee, Lechuan Li, Ruth Dannenfelser, Vicky Yao
2024 B conf
Enhancing Gene Set Analysis in Embedding Spaces: A Novel Best-Match Approach.
RECOMB
Lechuan Li, Ruth Dannenfelser, Charlie Cruz, Vicky Yao
2023 A* conf
Into the Single Cell Multiverse: an End-to-End Dataset for Procedural Knowledge Extraction in Biomedical Texts.
NeurIPS
Ruth Dannenfelser, Jeffrey Zhong, Ran Zhang, Vicky Yao
2023 J jnl
Into the Single Cell Multiverse: an End-to-End Dataset for Procedural Knowledge Extraction in Biomedical Texts.
CoRR
Ruth Dannenfelser, Jeffrey Zhong, Ran Zhang, Vicky Yao
2023 J jnl
Joint embedding of biological networks for cross-species functional alignment.
Bioinform.
Lechuan Li, Ruth Dannenfelser, Yu Zhu, Nathaniel Hejduk, Santiago Segarra, Vicky Yao
2020 — —
Data-Driven Approaches and Systems to Interrogate Complex Disease
Ruth Dannenfelser
2013 J jnl
ESCAPE: database for integrating high-content published data collected from human and mouse embryonic stem cells.
Database J. Biol. Databases Curation
Huilei Xu, Caroline Baroukh, Ruth Dannenfelser, Edward Y. Chen, Christopher M. Tan, Yan Kou, Yujin E. Kim, Ihor Lemischka, Avi Ma'ayan
2013 J jnl
Network2Canvas: network visualization on a canvas with enrichment analysis.
Bioinform.
Christopher M. Tan, Edward Y. Chen, Ruth Dannenfelser, Neil R. Clark, Avi Ma'ayan
2012 J jnl
Genes2FANs: connecting genes through functional association networks.
BMC Bioinform.
Ruth Dannenfelser, Neil R. Clark, Avi Ma'ayan
2012 J jnl
Sets2Networks: network inference from repeated observations of sets.
BMC Syst. Biol.
Neil R. Clark, Ruth Dannenfelser, Christopher M. Tan, Michael E. Komosinski, Avi Ma'ayan
2011 J jnl
FNV: light-weight flash-based network and pathway viewer.
Bioinform.
Ruth Dannenfelser, Alexander Lachmann, Mariola Szenk, Avi Ma'ayan
2011 J jnl
Genes2WordCloud: a quick way to identify biological themes from gene lists and free text.
Source Code Biol. Medicine
Caroline Baroukh, Sherry L. Jenkins, Ruth Dannenfelser, Avi Ma'ayan
2011 J jnl
Recovering Protein-Protein and Domain-Domain Interactions from Aggregation of IP-MS Proteomics of Coregulator Complexes.
PLoS Comput. Biol.
Amin R. Mazloom, Ruth Dannenfelser, Neil R. Clark, Arsen V. Grigoryan, Kathryn M. Linder, Timothy Cardozo, Julia C. Bond, Aislyn D. W. Boran, Ravi Iyengar, Anna Malovannaya, Rainer B. Lanz, Avi Ma'ayan
2010 J jnl
JCoDA: a tool for detecting evolutionary selection.
BMC Bioinform.
Steven N. Steinway, Ruth Dannenfelser, Christopher D. Laucius, James E. Hayes, Sudhir Nayak