John‐Marc Chandonia

18.9k citations

41 papers · 12.0k indexed · 2 hit papers · h-index 18

Impact in

Molecular Biology top 0.5%
- RNA and protein synthesis mechanisms
- Genomics and Phylogenetic Studies
- Protein Structure and Dynamics
- Machine Learning in Bioinformatics
- RNA Research and Splicing
- RNA modifications and cancer
Endocrinology top 1%

Papers in

Molecular Biology 33
- Protein Structure and Dynamics 18
- Genomics and Phylogenetic Studies 14
- Machine Learning in Bioinformatics 12
- RNA and protein synthesis mechanisms 12
- Genetics, Bioinformatics, and Biomedical Research 4
Information Systems and Management 3

Co-authors: Steven E. Brenner Gary C. Hon Gavin E. Crooks Naomi K. Fox Martin Karplus Changhua Yu Fred E. Cohen Terry C. Hazen
Journals: Nucleic Acids Research (5 papers)Proteins Structure Function and Bioinformatics (4 papers)Journal of Molecular Biology (3 papers)Bioinformatics (2 papers)Protein Science (2 papers)
Partner nations: United States France United Kingdom

In The Last Decade

John‐Marc Chandonia

40 papers receiving 11.9k citations

Hit Papers

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SCOPe: Structural Classification of Proteins—extended, integrating SCOP and ASTRAL data and classification of new structures 2013 · 550 citations

Peers

Countries citing papers authored by John‐Marc Chandonia

Since Specialization

Citations

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

Fields of papers citing papers by John‐Marc Chandonia

Since Specialization

Physical SciencesHealth SciencesLife SciencesSocial Sciences

This network shows the impact of papers produced by John‐Marc Chandonia. 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 John‐Marc Chandonia. The network helps show where John‐Marc Chandonia may publish in the future.

Co-authors

The 25 scholars most cited alongside John‐Marc Chandonia, linked wherever they have co-authored with each other. Click a name or a connecting line to browse the papers they share.

Border = papers with John‐Marc Chandonia Line = papers co-authored together John‐Marc Chandonia links everyone, so they are left out of the graph.

All Works

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20 of 20 papers shown

#	Work
1	Genomic and environmental controls on Castellaniella biogeography in an anthropogenically disturbed subsurface Environmental Microbiome ·Jennifer L. Goff, Elizabeth G. Szink, Konnor L. Durrence, Lauren Michelle Lui, Torben Nielsen, Jennifer V. Kuehl, Kristopher A. Hunt, John‐Marc Chandonia, Jiawen Huang, Michael P. Thorgersen, Farris L. Poole, David A. Stahl, Romy Chakraborty, Adam M. Deutschbauer, Adam P. Arkin, Michael W. W. Adams	2024	2
2	Large-scale genetic characterization of the model sulfate-reducing bacterium, Desulfovibrio vulgaris Hildenborough Frontiers in Microbiology ·Valentine V. Trotter, Maxim Shatsky, Morgan N. Price, Thomas R. Juba, Grant M. Zane, Kara B. De León, Erica L.‐W. Majumder, Qin Gui, Rida Ali, Kelly M. Wetmore, Jennifer V. Kuehl, Adam P. Arkin, Judy D. Wall, Adam M. Deutschbauer, John‐Marc Chandonia, Gareth Butland	2023	8
3	Ecophysiological and genomic analyses of a representative isolate of highly abundant Bacillus cereus strains in contaminated subsurface sediments Environmental Microbiology ·Jennifer L. Goff, Elizabeth G. Szink, Michael P. Thorgersen, Andrew D. Putt, Yupeng Fan, Lauren Michelle Lui, Torben Nielsen, Kristopher A. Hunt, Jonathan P. Michael, Yajiao Wang, Daliang Ning, Ying Fu, Joy D. Van Nostrand, Farris L. Poole, John‐Marc Chandonia, Terry C. Hazen, David A. Stahl, Jizhong Zhou, Adam P. Arkin, Michael W. W. Adams	2022	6
4	CORAL: A framework for rigorous self-validated data modeling and integrative, reproducible data analysis GigaScience ·Pavel S. Novichkov, John‐Marc Chandonia, Adam P. Arkin	2022	4
5	SCOPe: improvements to the structural classification of proteins – extended database to facilitate variant interpretation and machine learning Nucleic Acids Research ·John‐Marc Chandonia, Lindsey Guan, Shiangyi Lin, Changhua Yu, Naomi K. Fox, Steven E. Brenner	2021	86
6	Ecogenomics of Groundwater Phages Suggests Niche Differentiation Linked to Specific Environmental Tolerance mSystems ·Ankita Kothari, Simon Roux, Hanqiao Zhang, Anatori Prieto, Drishti Soneja, John‐Marc Chandonia, Sarah J. Spencer, Xiaoqin Wu, Sara Altenburg, Matthew W. Fields, Adam M. Deutschbauer, Adam P. Arkin, Eric J. Alm, Romy Chakraborty, Aindrila Mukhopadhyay	2021	11
7	Quantitative Tagless Copurification: A Method to Validate and Identify Protein-Protein Interactions Molecular & Cellular Proteomics ·Maxim Shatsky, Ming Dong, Haichuan Liu, Lee Lisheng Yang, Megan Choi, Mary E. Singer, Jil T. Geller, Susan J. Fisher, Steven C. Hall, Terry C. Hazen, Steven E. Brenner, Gareth Butland, Jian Jin, H. Ewa Witkowska, John‐Marc Chandonia, Mark D. Biggin	2016	11
8	SCOPe: Structural Classification of Proteins—extended, integrating SCOP and ASTRAL data and classification of new structures Nucleic Acids Research ·Naomi K. Fox, Steven E. Brenner, John‐Marc Chandonia Hit paper breakdown →	2013	550
9	Structural Genomics of Minimal Organisms: Pipeline and Results Methods in molecular biology ·Sung‐Hou Kim, Dong-Hae Shin, Rosalind Kim, Paul D. Adams, John‐Marc Chandonia	2008	3
10	Structure-based inference of molecular functions of proteins of unknown function from Berkeley Structural Genomics Center University of North Texas Digital Library (University of North Texas) ·Sung‐Hou Kim, Dong Hae Shin, Jingtong Hou, John‐Marc Chandonia, Debanu Das, In‐Geol Choi, Rosalind Kim	2007	21
11	Structural proteomics of minimal organisms: Conservation of protein fold usage and evolutionary implications BMC Structural Biology ·John‐Marc Chandonia, Sung‐Hou Kim	2006	8
12	Update on the Pfam5000 Strategy for Selection of Structural Genomics Targets PubMed ·John‐Marc Chandonia, Steven E. Brenner	2005	3
13	ANDY: A general, fault-tolerant tool for database searching oncomputer clusters University of North Texas Digital Library (University of North Texas) ·Andrew Smith, John‐Marc Chandonia, Steven E. Brenner	2005	2
14	Implications of structural genomics target selection strategies: Pfam5000, whole genome, and random approaches Proteins Structure Function and Bioinformatics ·John‐Marc Chandonia, Steven E. Brenner	2004	48
15	WebLogo: A Sequence Logo Generator: Figure 1 Genome Research ·Gavin E. Crooks, Gary C. Hon, John‐Marc Chandonia, Steven E. Brenner Hit paper breakdown →	2004	9762
16	New Local Potential Useful for Genome Annotation and 3D Modeling Journal of Molecular Biology ·John‐Marc Chandonia, Fred E. Cohen	2003	2
17	The ASTRAL Compendium in 2004 Nucleic Acids Research ·John‐Marc Chandonia	2003	442
18	ASTRAL compendium enhancements Nucleic Acids Research ·John‐Marc Chandonia	2002	113
19	High-resolution autoreactive epitope mapping and structural modeling of the 65 kDa form of human glutamic acid decarboxylase Journal of Molecular Biology ·Heather L Schwartz, John‐Marc Chandonia, Shera Kash, Jamil Kanaani, Evelyn Tunnell, Antoinette Domingo, Fred E. Cohen, J. Paul Banga, Anne‐Marie Madec, Wiltrud Richter, Steinunn Bækkeskov	1999	90
20	Neural networks for secondary structure and structural class predictions Protein Science ·John‐Marc Chandonia, Martin Karplus	1995	83

About John‐Marc Chandonia

John‐Marc Chandonia is a scholar working on Molecular Biology, Information Systems and Management, Biological Psychiatry, Ecology and Microbiology, having authored 41 papers that have together received 12.0k indexed citations. Recurring topics across this work include Protein Structure and Dynamics (18 papers), Genomics and Phylogenetic Studies (14 papers), Machine Learning in Bioinformatics (12 papers), RNA and protein synthesis mechanisms (12 papers), Enzyme Structure and Function (11 papers), Microbial Community Ecology and Physiology (6 papers), Bacteriophages and microbial interactions (5 papers) and Genetics, Bioinformatics, and Biomedical Research (4 papers). The work is most often cited by research in Molecular Biology (9.2k citations), Endocrinology (318 citations), Genetics (1.6k citations), Plant Science (2.0k citations) and Biotechnology (400 citations). John‐Marc Chandonia has collaborated with scholars based in United States, France and United Kingdom. Frequent co-authors include Steven E. Brenner, Gary C. Hon, Gavin E. Crooks, Naomi K. Fox, Martin Karplus, Changhua Yu, Fred E. Cohen, Terry C. Hazen, Wiltrud Richter and Steinunn Bækkeskov. Their work appears in journals such as Nucleic Acids Research, Proteins Structure Function and Bioinformatics, Journal of Molecular Biology, Bioinformatics and Protein Science.

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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