DrugShot: querying biomedical search terms to retrieve prioritized lists of small molecules

por Kropiwnicki, Eryk, Lachmann, Alexander, Clarke, Daniel J. B., Xie, Zhuorui, Jagodnik, Kathleen M., Ma’ayan, Avi
Publicado 2022

PrismEXP: gene annotation prediction from stratified gene-gene co-expression matrices

por Lachmann, Alexander, Rizzo, Kaeli A., Bartal, Alon, Jeon, Minji, Clarke, Daniel J. B., Ma’ayan, Avi
Publicado 2023

Enrichr-KG: bridging enrichment analysis across multiple libraries

por Evangelista, John Erol, Xie, Zhuorui, Marino, Giacomo B, Nguyen, Nhi, Clarke, Daniel J B, Ma’ayan, Avi
Publicado 2023

Transforming L1000 profiles to RNA-seq-like profiles with deep learning

por Jeon, Minji, Xie, Zhuorui, Evangelista, John E., Wojciechowicz, Megan L., Clarke, Daniel J. B., Ma’ayan, Avi
Publicado 2022

Computational screen to identify potential targets for immunotherapeutic identification and removal of senescence cells

por Deng, Eden Z., Fleishman, Reid H., Xie, Zhuorui, Marino, Giacomo B., Clarke, Daniel J. B., Ma'ayan, Avi
Publicado 2023

Gene set predictor for post-treatment Lyme disease

por Clarke, Daniel J.B., Rebman, Alison W., Fan, Jinshui, Soloski, Mark J., Aucott, John N., Ma’ayan, Avi
Publicado 2022

GeneRanger and TargetRanger: processed gene and protein expression levels across cells and tissues for target discovery

por Marino, Giacomo B, Ngai, Michael, Clarke, Daniel J B, Fleishman, Reid H, Deng, Eden Z, Xie, Zhuorui, Ahmed, Nasheath, Ma’ayan, Avi
Publicado 2023

lncHUB2: aggregated and inferred knowledge about human and mouse lncRNAs

por Marino, Giacomo B, Wojciechowicz, Megan L, Clarke, Daniel J B, Kuleshov, Maxim V, Xie, Zhuorui, Jeon, Minji, Lachmann, Alexander, Ma’ayan, Avi
Publicado 2023

Gene and drug landing page aggregator

por Clarke, Daniel J B, Kuleshov, Maxim V, Xie, Zhuorui, Evangelista, John E, Meyers, Marilyn R, Kropiwnicki, Eryk, Jenkins, Sherry L, Ma’ayan, Avi
Publicado 2022

Drugmonizome and Drugmonizome-ML: integration and abstraction of small molecule attributes for drug enrichment analysis and machine learning

por Kropiwnicki, Eryk, Evangelista, John E, Stein, Daniel J, Clarke, Daniel J B, Lachmann, Alexander, Kuleshov, Maxim V, Jeon, Minji, Jagodnik, Kathleen M, Ma’ayan, Avi
Publicado 2021

The COVID-19 Gene and Drug Set Library

por Kuleshov, Maxim V., Clarke, Daniel J.B., Kropiwnicki, Eryk, Jagodnik, Kathleen M., Bartal, Alon, Evangelista, John E., Zhou, Abigail, Ferguson, Laura B., Lachmann, Alexander, Ma’ayan, Avi
Publicado 2020

eXpression2Kinases (X2K) Web: linking expression signatures to upstream cell signaling networks

por Clarke, Daniel J B, Kuleshov, Maxim V, Schilder, Brian M, Torre, Denis, Duffy, Mary E, Keenan, Alexandra B, Lachmann, Alexander, Feldmann, Axel S, Gundersen, Gregory W, Silverstein, Moshe C, Wang, Zichen, Ma’ayan, Avi
Publicado 2018

SigCom LINCS: data and metadata search engine for a million gene expression signatures

por Evangelista, John Erol, Clarke, Daniel J B, Xie, Zhuorui, Lachmann, Alexander, Jeon, Minji, Chen, Kerwin, Jagodnik, Kathleen M, Jenkins, Sherry L, Kuleshov, Maxim V, Wojciechowicz, Megan L, Schürer, Stephan C, Medvedovic, Mario, Ma’ayan, Avi
Publicado 2022

The COVID-19 Drug and Gene Set Library

por Kuleshov, Maxim V., Stein, Daniel J., Clarke, Daniel J.B., Kropiwnicki, Eryk, Jagodnik, Kathleen M., Bartal, Alon, Evangelista, John E., Hom, Jason, Cheng, Minxuan, Bailey, Allison, Zhou, Abigail, Ferguson, Laura B., Lachmann, Alexander, Ma'ayan, Avi
Publicado 2020

LINCS Data Portal 2.0: next generation access point for perturbation-response signatures

por Stathias, Vasileios, Turner, John, Koleti, Amar, Vidovic, Dusica, Cooper, Daniel, Fazel-Najafabadi, Mehdi, Pilarczyk, Marcin, Terryn, Raymond, Chung, Caty, Umeano, Afoma, Clarke, Daniel J B, Lachmann, Alexander, Evangelista, John Erol, Ma’ayan, Avi, Medvedovic, Mario, Schürer, Stephan C
Publicado 2020

Predicting Lyme Disease From Patients' Peripheral Blood Mononuclear Cells Profiled With RNA-Sequencing

por Clarke, Daniel J. B., Rebman, Alison W., Bailey, Allison, Wojciechowicz, Megan L., Jenkins, Sherry L., Evangelista, John E., Danieletto, Matteo, Fan, Jinshui, Eshoo, Mark W., Mosel, Michael R., Robinson, William, Ramadoss, Nitya, Bobe, Jason, Soloski, Mark J., Aucott, John N., Ma'ayan, Avi
Publicado 2021

Toxicology knowledge graph for structural birth defects

por Evangelista, John Erol, Clarke, Daniel J. B., Xie, Zhuorui, Marino, Giacomo B., Utti, Vivian, Jenkins, Sherry L., Ahooyi, Taha Mohseni, Bologa, Cristian G., Yang, Jeremy J., Binder, Jessica L., Kumar, Praveen, Lambert, Christophe G., Grethe, Jeffrey S., Wenger, Eric, Taylor, Deanne, Oprea, Tudor I., de Bono, Bernard, Ma’ayan, Avi
Publicado 2023

Appyters: Turning Jupyter Notebooks into data-driven web apps

por Clarke, Daniel J.B., Jeon, Minji, Stein, Daniel J., Moiseyev, Nicole, Kropiwnicki, Eryk, Dai, Charles, Xie, Zhuorui, Wojciechowicz, Megan L., Litz, Skylar, Hom, Jason, Evangelista, John Erol, Goldman, Lucas, Zhang, Serena, Yoon, Christine, Ahamed, Tahmid, Bhuiyan, Samantha, Cheng, Minxuan, Karam, Julie, Jagodnik, Kathleen M., Shu, Ingrid, Lachmann, Alexander, Ayling, Sam, Jenkins, Sherry L., Ma'ayan, Avi
Publicado 2021

Connecting omics signatures and revealing biological mechanisms with iLINCS

por Pilarczyk, Marcin, Fazel-Najafabadi, Mehdi, Kouril, Michal, Shamsaei, Behrouz, Vasiliauskas, Juozas, Niu, Wen, Mahi, Naim, Zhang, Lixia, Clark, Nicholas A., Ren, Yan, White, Shana, Karim, Rashid, Xu, Huan, Biesiada, Jacek, Bennett, Mark F., Davidson, Sarah E., Reichard, John F., Roberts, Kurt, Stathias, Vasileios, Koleti, Amar, Vidovic, Dusica, Clarke, Daniel J. B., Schürer, Stephan C., Ma’ayan, Avi, Meller, Jarek, Medvedovic, Mario
Publicado 2022

Making Common Fund data more findable: catalyzing a data ecosystem

por Charbonneau, Amanda L, Brady, Arthur, Czajkowski, Karl, Aluvathingal, Jain, Canchi, Saranya, Carter, Robert, Chard, Kyle, Clarke, Daniel J B, Crabtree, Jonathan, Creasy, Heather H, D'Arcy, Mike, Felix, Victor, Giglio, Michelle, Gingrich, Alicia, Harris, Rayna M, Hodges, Theresa K, Ifeonu, Olukemi, Jeon, Minji, Kropiwnicki, Eryk, Lim, Marisa C W, Liming, R Lee, Lumian, Jessica, Mahurkar, Anup A, Mandal, Meisha, Munro, James B, Nadendla, Suvarna, Richter, Rudyard, Romano, Cia, Rocca-Serra, Philippe, Schor, Michael, Schuler, Robert E, Tangmunarunkit, Hongsuda, Waldrop, Alex, Williams, Cris, Word, Karen, Sansone, Susanna-Assunta, Ma'ayan, Avi, Wagner, Rick, Foster, Ian, Kesselman, Carl, Brown, C Titus, White, Owen
Publicado 2022