Alexander Lachmann

According to our database, Alexander Lachmann authored at least 27 papers between 2008 and 2024.

Collaborative distances:

• Dijkstra number of four.
• Erdős number of four.

2024

RummaGEO: Automatic mining of human and mouse gene sets from GEO.

Giacomo B. Marino, Daniel J. B. Clarke, Alexander Lachmann, Eden Z. Deng, Avi Ma'ayan

Patterns, 2024

2023

lncHUB2: aggregated and inferred knowledge about human and mouse lncRNAs.

Giacomo B. Marino, Megan L. Wojciechowicz, Daniel J. B. Clarke, Maxim V. Kuleshov, Zhuorui Xie, Minji Jeon, Alexander Lachmann, Avi Ma'ayan

Database J. Biol. Databases Curation, March, 2023

2022

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

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

Nucleic Acids Res., 2022

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

Eryk Kropiwnicki, Alexander Lachmann, Daniel J. B. Clarke, Zhuorui Xie, Kathleen M. Jagodnik, Avi Ma'ayan

BMC Bioinform., 2022

blitzGSEA: efficient computation of gene set enrichment analysis through gamma distribution approximation.

Alexander Lachmann, Zhuorui Xie, Avi Ma'ayan

Bioinform., 2022

2021

Appyters: Turning Jupyter Notebooks into data-driven web apps.

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

Patterns, 2021

KEA3: improved kinase enrichment analysis via data integration.

Maxim V. Kuleshov, Zhuorui Xie, Alexandra B. K. London, Janice Yang, John Erol Evangelista, Alexander Lachmann, Ingrid Shu, Denis Torre, Avi Ma'ayan

Nucleic Acids Res., 2021

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

Eryk Kropiwnicki, John Erol Evangelista, Daniel J. Stein, Daniel J. B. Clarke, Alexander Lachmann, Maxim V. Kuleshov, Minji Jeon, Kathleen M. Jagodnik, Avi Ma'ayan

Database J. Biol. Databases Curation, 2021

2020

The COVID-19 Drug and Gene Set Library.

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

Patterns, 2020

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

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

Nucleic Acids Res., 2020

EnrichrBot: Twitter bot tracking tweets about human genes.

Alon Bartal, Alexander Lachmann, Daniel J. B. Clarke, Allison H. Seiden, Kathleen M. Jagodnik, Avi Ma'ayan

Bioinform., 2020

2019

Geneshot: search engine for ranking genes from arbitrary text queries.

Alexander Lachmann, Brian M. Schilder, Megan L. Wojciechowicz, Denis Torre, Maxim V. Kuleshov, Alexandra B. Keenan, Avi Ma'ayan

Nucleic Acids Res., 2019

modEnrichr: a suite of gene set enrichment analysis tools for model organisms.

Maxim V. Kuleshov, Jennifer E. L. Diaz, Zachary N. Flamholz, Alexandra B. Keenan, Alexander Lachmann, Megan L. Wojciechowicz, Ross L. Cagan, Avi Ma'ayan

Nucleic Acids Res., 2019

ChEA3: transcription factor enrichment analysis by orthogonal omics integration.

Alexandra B. Keenan, Denis Torre, Alexander Lachmann, Ariel K. Leong, Megan L. Wojciechowicz, Vivian Utti, Kathleen M. Jagodnik, Eryk Kropiwnicki, Zichen Wang, Avi Ma'ayan

Nucleic Acids Res., 2019

2018

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

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

Nucleic Acids Res., 2018

L1000FWD: fireworks visualization of drug-induced transcriptomic signatures.

Zichen Wang, Alexander Lachmann, Alexandra B. Keenan, Avi Ma'ayan

Bioinform., 2018

2017

Systematic, network-based characterization of therapeutic target inhibitors.

Yao Shen, Mariano J. Alvarez, Brygida C. Bisikirska, Alexander Lachmann, Ronald Realubit, Sergey Pampou, Jorida Coku, Charles Karan, Andrea Califano

PLoS Comput. Biol., 2017

2016

Enrichr: a comprehensive gene set enrichment analysis web server 2016 update.

Maxim V. Kuleshov, Matthew R. Jones, Andrew D. Rouillard, Nicolas F. Fernandez, Qiaonan Duan, Zichen Wang, Simon Koplev, Sherry L. Jenkins, Kathleen M. Jagodnik, Alexander Lachmann, Michael G. McDermott, Caroline D. Monteiro, Gregory W. Gundersen, Avi Ma'ayan

Nucleic Acids Res., 2016

ARACNe-AP: gene network reverse engineering through adaptive partitioning inference of mutual information.

Alexander Lachmann, Federico M. Giorgi, Gonzalo López, Andrea Califano

Bioinform., 2016

Detection and removal of spatial bias in multiwell assays.

Alexander Lachmann, Federico M. Giorgi, Mariano J. Alvarez, Andrea Califano

Bioinform., 2016

2011

FNV: light-weight flash-based network and pathway viewer.

Ruth Dannenfelser, Alexander Lachmann, Mariola Szenk, Avi Ma'ayan

Bioinform., 2011

2010

Lists2Networks: Integrated analysis of gene/protein lists.

Alexander Lachmann, Avi Ma'ayan

BMC Bioinform., 2010

GATE: software for the analysis and visualization of high-dimensional time series expression data.

Ben D. MacArthur, Alexander Lachmann, Ihor Lemischka, Avi Ma'ayan

Bioinform., 2010

ChEA: transcription factor regulation inferred from integrating genome-wide ChIP-X experiments.

Alexander Lachmann, Huilei Xu, Jayanth Krishnan, Seth I. Berger, Amin R. Mazloom, Avi Ma'ayan

Bioinform., 2010

Inferring the Sign of Kinase-Substrate Interactions by Combining Quantitative Phosphoproteomics with a Literature-Based Mammalian Kinome Network.

Marylens Hernandez, Alexander Lachmann, Shan Zhao, Kunhong Xiao, Avi Ma'ayan

Proceedings of the 10th IEEE International Conference on Bioinformatics and Bioengineering, 2010

2009

KEA: kinase enrichment analysis.

Alexander Lachmann, Avi Ma'ayan

Bioinform., 2009

2008

Finding relevant patterns in bursty sequences.

Alexander Lachmann, Mirek Riedewald

Proc. VLDB Endow., 2008