Siddharth S. Dey

1.9k citations

27 papers · 1.2k indexed · h-index 12

Co-authors: Alexander van Oudenaarden Magda Bienko Bastiaan Spanjaard Lennart Kester Dylan Mooijman Adam P. Arkin David V. Schaffer Jop Kind
Topics: Epigenetics and DNA Methylation (7 papers)Single-cell and spatial transcriptomics (6 papers)Genomics and Chromatin Dynamics (5 papers)
Cited by: Molecular Biology Cancer Research Biophysics
Journals: Cell Journal of Biological Chemistry Nature Communications
Partner nations: United States Netherlands India

In The Last Decade

Siddharth S. Dey

24 papers receiving 1.2k citations

Peers

Countries citing papers authored by Siddharth S. Dey

Since Specialization

Citations

This map shows the geographic impact of Siddharth S. Dey's research. It shows the number of citations coming from papers published by authors working in each country. You can also color the map by specialization and compare the number of citations received by Siddharth S. Dey with the expected number of citations based on a country's size and research output (numbers larger than one mean the country cites Siddharth S. Dey more than expected).

Fields of papers citing papers by Siddharth S. Dey

Since Specialization

Physical SciencesHealth SciencesLife SciencesSocial Sciences

This network shows the impact of papers produced by Siddharth S. Dey. Nodes represent research fields, and links connect fields that are likely to share authors. Colored nodes show fields that tend to cite the papers produced by Siddharth S. Dey. The network helps show where Siddharth S. Dey may publish in the future.

Co-authorship network of co-authors of Siddharth S. Dey

This figure shows the co-authorship network connecting the top 25 collaborators of Siddharth S. Dey. A scholar is included among the top collaborators of Siddharth S. Dey based on the total number of citations received by their joint publications. Widths of edges represent the number of papers authors have co-authored together. Node borders signify the number of papers an author published with Siddharth S. Dey. Siddharth S. Dey is excluded from the visualization to improve readability, since they are connected to all nodes in the network.

All Works

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20 of 20 papers shown

#	Work	Indexed citations
1	Sp1 mechanotransduction regulates breast cancer cell invasion in engineered viscoelastic extracellular matrices 2025 ·Biomaterials ·(unknown),(unknown),(unknown),Sylvia Fong,(unknown),(unknown),(unknown),Siddharth S. Dey,Ryan S. Stowers	0
2	Combinatorial quantification of 5mC and 5hmC at individual CpG dyads and the transcriptome in single cells reveals modulators of DNA methylation maintenance fidelity 2024 ·Nature Structural & Molecular Biology ·(unknown),Saumya Sarkar,(unknown),(unknown),Siddharth S. Dey	4
3	Prior Fc receptor activation primes macrophages for increased sensitivity to IgG via long-term and short-term mechanisms 2024 ·Developmental Cell ·(unknown),(unknown),(unknown),(unknown),(unknown),(unknown),(unknown),(unknown),Siddharth S. Dey,Maxwell Z. Wilson,Meghan A. Morrissey	6
4	Cucumber: Breeding and Genomics 2023 ·Vegetable Science ·Siddharth S. Dey,Vidya Sagar,(unknown),(unknown),A. D. Munshi,Sudhakar Pandey,(unknown)	3
5	Optogenetic control of the integrated stress response reveals proportional encoding and the stress memory landscape 2023 ·Cell Systems ·(unknown),Francesca Zappa,(unknown),(unknown),(unknown),Siddharth S. Dey,Diego Acosta‐Alvear,Maxwell Z. Wilson	11
6	Targeted rRNA depletion enables efficient mRNA sequencing in diverse bacterial species and complex co-cultures 2023 ·mSystems ·(unknown),(unknown),(unknown),(unknown),Annette R. Rowe,Michelle O’Malley,Siddharth S. Dey	0
7	Strand-specific single-cell methylomics reveals distinct modes of DNA demethylation dynamics during early mammalian development 2021 ·Nature Communications ·(unknown),Dylan Mooijman,(unknown),Jean-Charles Boisset,Mina Popovic,Björn Heindryckx,Susana M. Chuva de Sousa Lopes,Siddharth S. Dey,Alexander van Oudenaarden	18
8	A probabilistic framework for cellular lineage reconstruction using integrated single-cell 5-hydroxymethylcytosine and genomic DNA sequencing 2021 ·Cell Reports Methods ·(unknown),(unknown),(unknown),Nicolas Rivron,Siddharth S. Dey	4
9	Simultaneous quantification of protein–DNA interactions and transcriptomes in single cells with scDam&T-seq 2020 ·Nature Protocols ·(unknown),Franka J. Rang,Koos Rooijers,Sandra S. de Vries,(unknown),Kim L. de Luca,(unknown),Dylan Mooijman,Siddharth S. Dey,Jop Kind	21
10	Efficient and cost-effective bacterial mRNA sequencing from low input samples through ribosomal RNA depletion 2020 ·BMC Genomics ·(unknown),(unknown),(unknown),Michelle O’Malley,Siddharth S. Dey	21
11	An Extended Culture System that Supports Human Primordial Germ Cell-like Cell Survival and Initiation of DNA Methylation Erasure 2020 ·Stem Cell Reports ·Joanna J. Gell,Wanlu Liu,Enrique Sosa,(unknown),Grace Hancock,Yu Tao,Sissy E. Wamaitha,(unknown),Siddharth S. Dey,Amander T. Clark	31
12	Simultaneous quantification of protein–DNA contacts and transcriptomes in single cells 2019 ·Nature Biotechnology ·Koos Rooijers,(unknown),Franka J. Rang,Sandra S. de Vries,(unknown),Kim L. de Luca,Dylan Mooijman,Siddharth S. Dey,Jop Kind	78
13	Control over single-cell distribution of G1 lengths by WNT governs pluripotency 2019 ·PLoS Biology ·Jiwon Jang,Dasol Han,Mahdi Golkaram,Morgane Audouard,Guojing Liu,Daniel Bridges,Stefan Hellander,(unknown),Siddharth S. Dey,Linda Petzold,Kenneth S. Kosik	11
14	Genome-wide Maps of Nuclear Lamina Interactions in Single Human Cells 2015 ·Cell ·Jop Kind,Ludo Pagie,Sandra S. de Vries,Leila Nahidiazar,Siddharth S. Dey,Magda Bienko,Ye Zhan,Bryan R. Lajoie,Carolyn A. de Graaf,Mario Amendola,Geoffrey Fudenberg,Maxim Imakaev,Leonid A. Mirny,Kees Jalink,Job Dekker,Alexander van Oudenaarden,Bas van Steensel	332
15	Orthogonal control of expression mean and variance by epigenetic features at different genomic loci 2015 ·Molecular Systems Biology ·Siddharth S. Dey,Jonathan E. Foley,Prajit Limsirichai,David V. Schaffer,Adam P. Arkin	85
16	Integrated genome and transcriptome sequencing of the same cell 2015 ·Nature Biotechnology ·Siddharth S. Dey,Lennart Kester,Bastiaan Spanjaard,Magda Bienko,Alexander van Oudenaarden	367
17	Mutual Information Analysis Reveals Coevolving Residues in Tat That Compensate for Two Distinct Functions in HIV-1 Gene Expression 2012 ·Journal of Biological Chemistry ·Siddharth S. Dey,Yuhua Xue,Marcin P. Joachimiak,Gregory D. Friedland,John Burnett,Qiang Zhou,Adam P. Arkin,David V. Schaffer	9
18	Chromatin accessibility at the HIV LTR promoter sets a threshold for NF-κB mediated viral gene expression 2012 ·Integrative Biology ·Kathryn Miller‐Jensen,Siddharth S. Dey,Nhung Pham,Jonathan E. Foley,Adam P. Arkin,David V. Schaffer	23
19	Varying virulence: epigenetic control of expression noise and disease processes 2011 ·Trends in biotechnology ·Kathryn Miller‐Jensen,Siddharth S. Dey,David V. Schaffer,Adam P. Arkin	55
20	(1S,2S,4S,5S)-Cyclohexane-1,2,4,5-tetrol monohydrate 2005 ·Acta Crystallographica Section C Crystal Structure Communications ·Goverdhan Mehta,Saikat Sen,Siddharth S. Dey	5

About Siddharth S. Dey

Siddharth S. Dey is a scholar working on Horticulture, Virology and Aging, having authored 27 papers that have together received 1.2k indexed citations. Recurring topics across this work include Epigenetics and DNA Methylation (7 papers), Single-cell and spatial transcriptomics (6 papers) and Genomics and Chromatin Dynamics (5 papers). The work is most often cited by research in Molecular Biology (1.1k citations), Cancer Research (237 citations) and Biophysics (83 citations). Siddharth S. Dey has collaborated with scholars based in United States, Netherlands and India. Frequent co-authors include Alexander van Oudenaarden, Magda Bienko, Bastiaan Spanjaard, Lennart Kester, Dylan Mooijman, Adam P. Arkin, David V. Schaffer, Jop Kind, Nicola Crosetto and Jean-Charles Boisset. Their work appears in journals such as Cell, Journal of Biological Chemistry and Nature Communications.

Rankless uses publication and citation data sourced from OpenAlex, an open and comprehensive bibliographic database. While OpenAlex provides broad and valuable coverage of the global research landscape, it—like all bibliographic datasets—has inherent limitations. These include incomplete records, variations in author disambiguation, differences in journal indexing, and delays in data updates. As a result, some metrics and network relationships displayed in Rankless may not fully capture the entirety of a scholar's output or impact.

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