Connecting omics signatures and revealing biological mechanisms with iLINCS von 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

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Transforming L1000 profiles to RNA-seq-like profiles with deep learning von Jeon, Minji, Xie, Zhuorui, Evangelista, John E, Wojciechowicz, Megan L, Clarke, Daniel J. B, Ma'ayan, Avi

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DrugShot: querying biomedical search terms to retrieve prioritized lists of small molecules von Kropiwnicki, Eryk, Lachmann, Alexander, Clarke, Daniel J B, Xie, Zhuorui, Jagodnik, Kathleen M, Ma'ayan, Avi

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

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Enrichr-KG: bridging enrichment analysis across multiple libraries von Evangelista, John Erol, Xie, Zhuorui, Marino, Giacomo B, Nguyen, Nhi, Clarke, Daniel J B, Ma’ayan, Avi

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PrismEXP: gene annotation prediction from stratified gene-gene co-expression matrices von Lachmann, Alexander, Rizzo, Kaeli A, Bartal, Alon, Jeon, Minji, Clarke, Daniel J B, Ma'ayan, Avi

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Rummagene: massive mining of gene sets from supporting materials of biomedical research publications von Clarke, Daniel J. B., Marino, Giacomo B., Deng, Eden Z., Xie, Zhuorui, Evangelista, John Erol, Ma’ayan, Avi

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

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Harmonizome 3.0: integrated knowledge about genes and proteins from diverse multi-omics resources von Diamant, Ido, Clarke, Daniel J B, Evangelista, John Erol, Lingam, Nathania, Ma'ayan, Avi

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Toxicology knowledge graph for structural birth defects von 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

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Systemic Inflammation Persists the First Year after Mild Traumatic Brain Injury: Results from the Prospective Trondheim Mild Traumatic Brain Injury Study von Chaban, Viktoriia, Clarke, Gerard J B, Skandsen, Toril, Islam, Rakibul, Einarsen, Cathrine E, Vik, Anne, Damås, Jan K, Mollnes, Tom E, Håberg, Asta K, Pischke, Soeren E

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GeneRanger and TargetRanger: processed gene and protein expression levels across cells and tissues for target discovery von Marino, Giacomo B, Ngai, Michael, Clarke, Daniel J B, Fleishman, Reid H, Deng, Eden Z, Xie, Zhuorui, Ahmed, Nasheath, Ma’ayan, Avi

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

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

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Factors influencing early and late outcome following the Fontan procedure in the current era. The ‘Two Commandments’? von Hosein, Riad B.M., Clarke, Andrew J.B., McGuirk, Simon P., Griselli, Massimo, Stumper, Oliver, De Giovanni, Joseph V., Barron, David J., Brawn, William J.

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cherry map from the inter-specific cross Prunus avium 'Napoleon' x P. nipponica based on microsatellite, gene-specific and isoenzyme markers von Clarke, J. B, Sargent, D. J, Bošković, R. I, Belaj, A, Tobutt, K. R

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Gene Set Knowledge Discovery with Enrichr von Xie, Zhuorui, Bailey, Allison, Kuleshov, Maxim V., Clarke, Daniel J. B., Evangelista, John E., Jenkins, Sherry L., Lachmann, Alexander, Wojciechowicz, Megan L., Kropiwnicki, Eryk, Jagodnik, Kathleen M., Jeon, Minji, Ma'ayan, Avi

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Effect of retinal and/or extra-retinal information on age in memory-guided saccades von Burke, M. R, Clarke, J. B, Hedley, J

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A cherry map from the inter-specific cross Prunus avium ‘Napoleon’ × P. nipponica based on microsatellite, gene-specific and isoenzyme markers von Clarke, J. B., Sargent, D. J., Bošković, R. I., Belaj, A., Tobutt, K. R.

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Identification of molecular markers linked to the mildew resistance gene Pl-d in apple von James, C.M, Clarke, J.B, Evans, K.M

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