Author

Sandeep Amberkar

University of LiverpoolORCID 0000-0001-5544-6059Unclaimed ORCID profile · follow to get notified of new preprints

Biology Disciplines

Click to filter author papers

Genomics· 2 Bioinformatics· 1 Genetic & Genomic Medicine· 1 Systems Biology· 1

Signature Assays, Organisms & Methods

Click to filter · or open tag

Approach:statistical model· 5 Research Focus:database / resource· 4 Research Focus:gene regulatory network inference· 3 Organism:plant (other)· 3 Assay:whole-genome sequencing· 3 Organism:human· 2 Organism:Arabidopsis· 1 Research Focus:benchmarking· 1

Frequent Co-Authors

Andrew R. JonesiD· 2 shared Bruno Contreras‐MoreiraiD· 2 shared Guy NaamatiiD· 2 shared Sarah C. DyeriD· 2 shared Shradha SarafiD· 2 shared Winston HideiD· 2 shared Ajit SinghiD· 1 shared Allan I. LeveyiD· 1 shared

Activity by Year

2019-2025 · peak 2/yr

Co-Author Collaboration Network

10 top collaborators · 17 mutual co-author links

Click any collaborator node to inspect or filter shared papers

Focal author (center)Selected co-authorORCID co-authorUnlinked name

Curved chords = mutual co-authorship

2 shared papersGenomics

Andrew R. JonesORCID

Mutual co-authors in cluster

Author profile →

5 papers

Recent·Most cited

GenomicsbioRxivPreprintFeb 17, 2025

A pan-gene catalogue of Asian cultivated rice

Bruno Contreras‐Moreira, Eshan Sharma, Shradha Saraf…·Andrew R. Jones

The paper develops a pan-gene catalogue for Asian cultivated rice by creating a reference panel of 16 cultivars and identifying core and cultivar-specific genes.

2 citations

plant (other)whole-genome sequencing

𝕏 PostBluesky

GenomicsGenome biologyPeer-reviewedOct 5, 2023

Calling pangenes from plant genome alignments confirms presence-absence variation

Bruno Contreras‐Moreira, Shradha Saraf, Guy Naamati…·Sarah C. Dyer

The paper introduces get_pangenes to identify pangenes from genome alignments, showing it outperforms existing methods and confirms presence-absence variation in barley.

15 citations

plant (other)whole-genome sequencing

𝕏 PostBluesky

Genetic & Genomic MedicineAlzheimer s & DementiaPeer-reviewedApr 2, 2021

Whole-genome sequencing reveals new Alzheimer's disease-associated rare variants in loci related to synaptic function and neuronal development

Dmitry Prokopenko, Sarah L. Morgan, Kristina Mullin…·Rudolph E. Tanzi

105 citationstop 1%

humanwhole-genome sequencing

𝕏 PostBluesky

BioinformaticsPlant Biotechnology JournalPeer-reviewedMar 22, 2021

KnetMiner: a comprehensive approach for supporting evidence-based gene discovery and complex trait analysis across species

Keywan Hassani‐Pak, Ajit Singh, Marco Brandizi…·Chris Rawlings

KnetMiner integrates literature and data to find links between traits and genes across species, providing tools for hypothesis generation and gene discovery.

117 citationstop 2%

plant (other)Arabidopsis

𝕏 PostBluesky

Systems BiologybioRxivPreprintJan 3, 2019

Meta-analysis of the human brain transcriptome identifies heterogeneity across human AD coexpression modules robust to sample collection and methodological approach

Benjamin A. Logsdon, Thanneer Malai Perumal, Vivek Swarup…·Lara M. Mangravite

Coexpression meta-analysis of 2114 human brain RNA-seq samples across the AMP-AD consortium identifies five consensus Alzheimer's disease transcriptional clusters, including two sex-heterogeneous clusters and a previously unreported proteostasis cluster.

45 citations

humanbulk RNA-seq

𝕏 PostBluesky