Thomas Manke

23.4k total citations · 4 hit papers
92 papers, 11.9k citations indexed

About

Thomas Manke is a scholar working on Molecular Biology, Nuclear and High Energy Physics and Genetics. According to data from OpenAlex, Thomas Manke has authored 92 papers receiving a total of 11.9k indexed citations (citations by other indexed papers that have themselves been cited), including 57 papers in Molecular Biology, 27 papers in Nuclear and High Energy Physics and 10 papers in Genetics. Recurrent topics in Thomas Manke's work include Genomics and Chromatin Dynamics (29 papers), Quantum Chromodynamics and Particle Interactions (27 papers) and Particle physics theoretical and experimental studies (23 papers). Thomas Manke is often cited by papers focused on Genomics and Chromatin Dynamics (29 papers), Quantum Chromodynamics and Particle Interactions (27 papers) and Particle physics theoretical and experimental studies (23 papers). Thomas Manke collaborates with scholars based in Germany, Japan and United States. Thomas Manke's co-authors include Fidel Ramírez, Björn Grüning, Friederike Dündar, Vivek Bhardwaj, Andreas S. Richter, Fabian Kilpert, Devon Ryan, Steffen Heyne, Sarah Diehl and Martin Vingron and has published in prestigious journals such as Nature, Cell and Proceedings of the National Academy of Sciences.

In The Last Decade

Thomas Manke

91 papers receiving 11.9k citations

Hit Papers

align trajectories sort by overperformance

What are hit papers?

Hit papers significantly outperform the citation benchmark for their cohort. A paper qualifies if it has ≥500 total citations, achieves ≥1.5× the top-1% citation threshold for papers in the same subfield and year (this is the minimum needed to enter the top 1%, not the average within it), or reaches the top citation threshold in at least one of its specific research topics.

deepTools2: a next generation web server for deep-sequencing data analysis

2016 4.4k citations Fidel Ramírez, Devon Ryan et al. Nucleic Acids Research profile →
deepTools: a flexible platform for exploring deep-sequencing data

2014 2.1k citations Fidel Ramírez, Friederike Dündar et al. Nucleic Acids Research profile →
High-resolution TADs reveal DNA sequences underlying genome organization in flies

2018 543 citations Fidel Ramírez, Vivek Bhardwaj et al. Nature Communications profile →
DHX9 suppresses RNA processing defects originating from the Alu invasion of the human genome

2017 422 citations Vivek Bhardwaj, Gerhard Mittler et al. profile →

Author Peers

Peers are selected by citation overlap in the author's most active subfields. citations · hero ref

Author						Papers	Cites
Thomas Manke	9.0k	2.2k	1.4k	1.4k	986	92	11.9k
M. Hauer	12.4k 1.4×	2.0k 0.9×	2.5k 1.8×	251 0.2×	480 0.5×	40	14.2k
Iouri Chepelev	6.1k 0.7×	577 0.3×	1.1k 0.8×	761 0.6×	591 0.6×	41	7.2k
Joel Rozowsky	5.8k 0.6×	692 0.3×	1.1k 0.8×	2.1k 1.6×	273 0.3×	79	7.7k
D. Schultz	7.3k 0.8×	658 0.3×	1.1k 0.8×	944 0.7×	1.1k 1.1×	119	9.9k
William F. Dietrich	4.6k 0.5×	551 0.3×	1.8k 1.3×	397 0.3×	2.4k 2.4×	111	10.3k
Paolo Provero	6.2k 0.7×	293 0.1×	507 0.4×	3.7k 2.7×	630 0.6×	157	9.3k
Nicholas Proudfoot	20.1k 2.2×	2.1k 1.0×	2.3k 1.6×	2.4k 1.8×	1.4k 1.4×	219	23.3k
Pedro Romero	9.1k 1.0×	580 0.3×	845 0.6×	195 0.1×	970 1.0×	65	11.3k
David C. Page	9.8k 1.1×	2.7k 1.2×	9.7k 7.0×	447 0.3×	601 0.6×	145	14.8k
Sumire Kobayashi	3.0k 0.3×	186 0.1×	523 0.4×	972 0.7×	1.5k 1.6×	37	5.5k

Countries citing papers authored by Thomas Manke

Since Specialization

Citations

This map shows the geographic impact of Thomas Manke'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 Thomas Manke with the expected number of citations based on a country's size and research output (numbers larger than one mean the country cites Thomas Manke more than expected).

Fields of papers citing papers by Thomas Manke

Since Specialization

Physical SciencesHealth SciencesLife SciencesSocial Sciences

This network shows the impact of papers produced by Thomas Manke. 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 Thomas Manke. The network helps show where Thomas Manke may publish in the future.

Co-authorship network of co-authors of Thomas Manke

This figure shows the co-authorship network connecting the top 25 collaborators of Thomas Manke. A scholar is included among the top collaborators of Thomas Manke 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 Thomas Manke. Thomas Manke 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

Hohl, Tobias M., Ulrike Bönisch, Thomas Manke, & Laura Arrigoni. (2025). Enhancing single-cell ATAC sequencing with formaldehyde fixation, cryopreservation, and multiplexing for flexible analysis. BMC Research Notes. 18(1). 437–437.

Deboutte, Ward, Thomas Manke, Klaus Ebnet, et al.. (2024). Functional multi-organelle units control inflammatory lipid metabolism of macrophages. Nature Cell Biology. 26(8). 1261–1273. 25 indexed citations

Zhou, Yilong, Maria Shvedunova, Alejandro Gomez‐Auli, et al.. (2024). RNA damage compartmentalization by DHX9 stress granules. Cell. 187(7). 1701–1718.e28. 42 indexed citations

Izzo, Annalisa, Stefanie Heidrich, Alejandro Villarreal, et al.. (2023). Multimodal epigenetic changes and altered NEUROD1 chromatin binding in the mouse hippocampus underlie FOXG1 syndrome. Proceedings of the National Academy of Sciences. 120(2). e2122467120–e2122467120. 9 indexed citations

Lopez‐Delisle, Lucille, Leily Rabbani, Joachim Wolff, et al.. (2020). pyGenomeTracks: reproducible plots for multivariate genomic datasets . Bioinformatics. 37(3). 422–423. 247 indexed citations

Wolff, Joachim, Leily Rabbani, Ralf Gilsbach, et al.. (2020). Galaxy HiCExplorer 3: a web server for reproducible Hi-C, capture Hi-C and single-cell Hi-C data analysis, quality control and visualization. Nucleic Acids Research. 48(W1). W177–W184. 200 indexed citations

Arrigoni, Laura, et al.. (2020). AutoRELACS: automated generation and analysis of ultra-parallel ChIP-seq. Scientific Reports. 10(1). 12400–12400. 1 indexed citations

Bhardwaj, Vivek, Steffen Heyne, Katarzyna Sikora, et al.. (2019). snakePipes: facilitating flexible, scalable and integrative epigenomic analysis. Bioinformatics. 35(22). 4757–4759. 105 indexed citations

Richter, Florian, Fidel Ramírez, Maria Shvedunova, et al.. (2019). CAPRI enables comparison of evolutionarily conserved RNA interacting regions. Nature Communications. 10(1). 2682–2682. 33 indexed citations

10.

Ramírez, Fidel, Vivek Bhardwaj, Laura Arrigoni, et al.. (2018). High-resolution TADs reveal DNA sequences underlying genome organization in flies. Nature Communications. 9(1). 189–189. 543 indexed citations breakdown →

11.

Arrigoni, Laura, Fidel Ramírez, Ilaria Panzeri, et al.. (2018). RELACS nuclei barcoding enables high-throughput ChIP-seq. Communications Biology. 1(1). 22 indexed citations

12.

Ramírez, Fidel, Devon Ryan, Björn Grüning, et al.. (2016). deepTools2: a next generation web server for deep-sequencing data analysis. Nucleic Acids Research. 44(W1). W160–W165. 4364 indexed citations breakdown →

13.

Ramírez, Fidel, Sarah Toscano, Kin Chung Lam, et al.. (2015). High-Affinity Sites Form an Interaction Network to Facilitate Spreading of the MSL Complex across the X Chromosome in Drosophila. Molecular Cell. 60(1). 146–162. 58 indexed citations

14.

Foti, Rossana, Stefano Gnan, Daniela Cornacchia, et al.. (2015). Nuclear Architecture Organized by Rif1 Underpins the Replication-Timing Program. Molecular Cell. 61(2). 260–273. 135 indexed citations

15.

Fejér, György, Ildikó Győry, Idan Cohen, et al.. (2013). Nontransformed, GM-CSF–dependent macrophage lines are a unique model to study tissue macrophage functions. Proceedings of the National Academy of Sciences. 110(24). E2191–8. 82 indexed citations

16.

Izzo, Annalisa, Kinga Kamieniarz-Gdula, Fidel Ramírez, et al.. (2013). The Genomic Landscape of the Somatic Linker Histone Subtypes H1.1 to H1.5 in Human Cells. Cell Reports. 3(6). 2142–2154. 96 indexed citations

17.

Ott, Claus‐Eric, Johannes Grünhagen, Marten Jäger, et al.. (2011). MicroRNAs Differentially Expressed in Postnatal Aortic Development Downregulate Elastin via 3′ UTR and Coding-Sequence Binding Sites. PLoS ONE. 6(1). e16250–e16250. 87 indexed citations

18.

Vingron, Martin, Alvis Brāzma, Richard Coulson, et al.. (2009). Integrating sequence, evolution and functional genomics in regulatory genomics. Genome Biology. 10(1). 202–202. 14 indexed citations

19.

Rödelsperger, Christian, Sebastian Köhler, Marcel H. Schulz, et al.. (2009). Short ultraconserved promoter regions delineate a class of preferentially expressed alternatively spliced transcripts. Genomics. 94(5). 308–316. 8 indexed citations

20.

Khan, A. Ali, Sinya Aoki, R. Burkhalter, et al.. (2000). Heavy-light decay constants from clover heavy quark action in QCD with two flavors of dynamical quarks. Nuclear Physics B - Proceedings Supplements. 83-84. 331–333. 4 indexed citations

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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