A citation-based method for searching scientific literature

Priyesh Agrawal, Sana Amir, Deepak, Drishtee Barua, Debasisa Mohanty. J Mol Biol 2021
Times Cited: 5







List of co-cited articles
19 articles co-cited >1



Times Cited
  Times     Co-cited
Similarity


Genome mining strategies for ribosomally synthesised and post-translationally modified peptides.
Alicia H Russell, Andrew W Truman. Comput Struct Biotechnol J 2020
21
60

antiSMASH 5.0: updates to the secondary metabolite genome mining pipeline.
Kai Blin, Simon Shaw, Katharina Steinke, Rasmus Villebro, Nadine Ziemert, Sang Yup Lee, Marnix H Medema, Tilmann Weber. Nucleic Acids Res 2019
60

A computational framework to explore large-scale biosynthetic diversity.
Jorge C Navarro-Muñoz, Nelly Selem-Mojica, Michael W Mullowney, Satria A Kautsar, James H Tryon, Elizabeth I Parkinson, Emmanuel L C De Los Santos, Marley Yeong, Pablo Cruz-Morales, Sahar Abubucker,[...]. Nat Chem Biol 2020
175
40

Bioactivity-Based Molecular Networking for the Discovery of Drug Leads in Natural Product Bioassay-Guided Fractionation.
Louis-Félix Nothias, Mélissa Nothias-Esposito, Ricardo da Silva, Mingxun Wang, Ivan Protsyuk, Zheng Zhang, Abi Sarvepalli, Pieter Leyssen, David Touboul, Jean Costa,[...]. J Nat Prod 2018
113
40

IMG-ABC v.5.0: an update to the IMG/Atlas of Biosynthetic Gene Clusters Knowledgebase.
Krishnaveni Palaniappan, I-Min A Chen, Ken Chu, Anna Ratner, Rekha Seshadri, Nikos C Kyrpides, Natalia N Ivanova, Nigel J Mouncey. Nucleic Acids Res 2020
40
40

EvoMining reveals the origin and fate of natural product biosynthetic enzymes.
Nelly Sélem-Mojica, César Aguilar, Karina Gutiérrez-García, Christian E Martínez-Guerrero, Fancisco Barona-Gómez. Microb Genom 2019
21
40

Insights into secondary metabolism from a global analysis of prokaryotic biosynthetic gene clusters.
Peter Cimermancic, Marnix H Medema, Jan Claesen, Kenji Kurita, Laura C Wieland Brown, Konstantinos Mavrommatis, Amrita Pati, Paul A Godfrey, Michael Koehrsen, Jon Clardy,[...]. Cell 2014
484
40

PRISM 3: expanded prediction of natural product chemical structures from microbial genomes.
Michael A Skinnider, Nishanth J Merwin, Chad W Johnston, Nathan A Magarvey. Nucleic Acids Res 2017
153
40

MIBiG 2.0: a repository for biosynthetic gene clusters of known function.
Satria A Kautsar, Kai Blin, Simon Shaw, Jorge C Navarro-Muñoz, Barbara R Terlouw, Justin J J van der Hooft, Jeffrey A van Santen, Vittorio Tracanna, Hernando G Suarez Duran, Victòria Pascal Andreu,[...]. Nucleic Acids Res 2020
170
40

The antiSMASH database version 3: increased taxonomic coverage and new query features for modular enzymes.
Kai Blin, Simon Shaw, Satria A Kautsar, Marnix H Medema, Tilmann Weber. Nucleic Acids Res 2021
31
40

A deep learning genome-mining strategy for biosynthetic gene cluster prediction.
Geoffrey D Hannigan, David Prihoda, Andrej Palicka, Jindrich Soukup, Ondrej Klempir, Lena Rampula, Jindrich Durcak, Michael Wurst, Jakub Kotowski, Dan Chang,[...]. Nucleic Acids Res 2019
45
40


BiG-SLiCE: A highly scalable tool maps the diversity of 1.2 million biosynthetic gene clusters.
Satria A Kautsar, Justin J J van der Hooft, Dick de Ridder, Marnix H Medema. Gigascience 2021
28
40

BiG-FAM: the biosynthetic gene cluster families database.
Satria A Kautsar, Kai Blin, Simon Shaw, Tilmann Weber, Marnix H Medema. Nucleic Acids Res 2021
37
40

The application potential of machine learning and genomics for understanding natural product diversity, chemistry, and therapeutic translatability.
David Prihoda, Julia M Maritz, Ondrej Klempir, David Dzamba, Christopher H Woelk, Daria J Hazuda, Danny A Bitton, Geoffrey D Hannigan. Nat Prod Rep 2021
11
40

The Natural Products Atlas: An Open Access Knowledge Base for Microbial Natural Products Discovery.
Jeffrey A van Santen, Grégoire Jacob, Amrit Leen Singh, Victor Aniebok, Marcy J Balunas, Derek Bunsko, Fausto Carnevale Neto, Laia Castaño-Espriu, Chen Chang, Trevor N Clark,[...]. ACS Cent Sci 2019
117
40

Dereplication of microbial metabolites through database search of mass spectra.
Hosein Mohimani, Alexey Gurevich, Alexander Shlemov, Alla Mikheenko, Anton Korobeynikov, Liu Cao, Egor Shcherbin, Louis-Felix Nothias, Pieter C Dorrestein, Pavel A Pevzner. Nat Commun 2018
89
40

Coupling MALDI-TOF mass spectrometry protein and specialized metabolite analyses to rapidly discriminate bacterial function.
Chase M Clark, Maria S Costa, Laura M Sanchez, Brian T Murphy. Proc Natl Acad Sci U S A 2018
36
40

New Approaches to Detect Biosynthetic Gene Clusters in the Environment.
Ray Chen, Hon Lun Wong, Brendan Paul Burns. Medicines (Basel) 2019
13
40

PPD: A Manually Curated Database for Experimentally Verified Prokaryotic Promoters.
Wei Su, Meng-Lu Liu, Yu-He Yang, Jia-Shu Wang, Shi-Hao Li, Hao Lv, Fu-Ying Dao, Hui Yang, Hao Lin. J Mol Biol 2021
15
20

RCSB Protein Data Bank: Architectural Advances Towards Integrated Searching and Efficient Access to Macromolecular Structure Data from the PDB Archive.
Yana Rose, Jose M Duarte, Robert Lowe, Joan Segura, Chunxiao Bi, Charmi Bhikadiya, Li Chen, Alexander S Rose, Sebastian Bittrich, Stephen K Burley,[...]. J Mol Biol 2021
20
20

PolarProtDb: A Database of Transmembrane and Secreted Proteins showing Apical-Basal Polarity.
András Zeke, László Dobson, Levente István Szekeres, Tamás Langó, Gábor E Tusnády. J Mol Biol 2021
2
50

aScan: A Novel Method for the Study of Allele Specific Expression in Single Individuals.
Federico Zambelli, Matteo Chiara, Erika Ferrandi, Pietro Mandreoli, Marco Antonio Tangaro, Giulio Pavesi, Graziano Pesole. J Mol Biol 2021
1
100

MEDUSA: Prediction of Protein Flexibility from Sequence.
Yann Vander Meersche, Gabriel Cretin, Alexandre G de Brevern, Jean-Christophe Gelly, Tatiana Galochkina. J Mol Biol 2021
8
20

BetAware-Deep: An Accurate Web Server for Discrimination and Topology Prediction of Prokaryotic Transmembrane β-barrel Proteins.
Giovanni Madeo, Castrense Savojardo, Pier Luigi Martelli, Rita Casadio. J Mol Biol 2021
3
33





Moltemplate: A Tool for Coarse-Grained Modeling of Complex Biological Matter and Soft Condensed Matter Physics.
Andrew I Jewett, David Stelter, Jason Lambert, Shyam M Saladi, Otello M Roscioni, Matteo Ricci, Ludovic Autin, Martina Maritan, Saeed M Bashusqeh, Tom Keyes,[...]. J Mol Biol 2021
13
20


interferENZY: A Web-Based Tool for Enzymatic Assay Validation and Standardized Kinetic Analysis.
Maria Filipa Pinto, Antonio Baici, Pedro José Barbosa Pereira, Sandra Macedo-Ribeiro, Annalisa Pastore, Fernando Rocha, Pedro M Martins. J Mol Biol 2021
2
50

FunCoup 5: Functional Association Networks in All Domains of Life, Supporting Directed Links and Tissue-Specificity.
Emma Persson, Miguel Castresana-Aguirre, Davide Buzzao, Dimitri Guala, Erik L L Sonnhammer. J Mol Biol 2021
4
25

MPTherm-pred: Analysis and Prediction of Thermal Stability Changes upon Mutations in Transmembrane Proteins.
A Kulandaisamy, Jan Zaucha, Dmitrij Frishman, M Michael Gromiha. J Mol Biol 2021
5
20

ANuPP: A Versatile Tool to Predict Aggregation Nucleating Regions in Peptides and Proteins.
R Prabakaran, Puneet Rawat, Sandeep Kumar, M Michael Gromiha. J Mol Biol 2021
5
20

ncRNAVar: A Manually Curated Database for Identification of Noncoding RNA Variants Associated with Human Diseases.
Wenliang Zhang, Binghui Zeng, Minglei Yang, Huan Yang, Jianbo Wang, Yongjie Deng, Haiyue Zhang, Guocai Yao, Song Wu, Weizhong Li. J Mol Biol 2021
5
20

ModFlex: Towards Function Focused Protein Modeling.
Mayya Sedova, Lukasz Jaroszewski, Mallika Iyer, Zhanwen Li, Adam Godzik. J Mol Biol 2021
1
100

REP2: A Web Server to Detect Common Tandem Repeats in Protein Sequences.
Mohamed Kamel, Kristina Kastano, Pablo Mier, Miguel A Andrade-Navarro. J Mol Biol 2021
1
100


FunRich enables enrichment analysis of OMICs datasets.
Pamali Fonseka, Mohashin Pathan, Sai V Chitti, Taeyoung Kang, Suresh Mathivanan. J Mol Biol 2021
36
20

Constrained Standardization of Count Data from Massive Parallel Sequencing.
Joris Van Houtven, Bart Cuypers, Pieter Meysman, Jef Hooyberghs, Kris Laukens, Dirk Valkenborg. J Mol Biol 2021
1
100

Galaxy InteractoMIX: An Integrated Computational Platform for the Study of Protein-Protein Interaction Data.
Patricia Mirela-Bota, Joaquim Aguirre-Plans, Alberto Meseguer, Cristiano Galletti, Joan Segura, Joan Planas-Iglesias, Javi Garcia-Garcia, Emre Guney, Baldo Oliva, Narcis Fernandez-Fuentes. J Mol Biol 2021
2
50

GeneCaRNA: A Comprehensive Gene-centric Database of Human Non-coding RNAs in the GeneCards Suite.
Ruth Barshir, Simon Fishilevich, Tsippi Iny-Stein, Ofer Zelig, Yaron Mazor, Yaron Guan-Golan, Marilyn Safran, Doron Lancet. J Mol Biol 2021
3
33


geno5mC: A Database to Explore the Association between Genetic Variation (SNPs) and CpG Methylation in the Human Genome.
C Gómez-Martín, E Aparicio-Puerta, J M Medina, Guillermo Barturen, J L Oliver, M Hackenberg. J Mol Biol 2021
1
100

Dissecting celastrol with machine learning to unveil dark pharmacology.
Tiago Rodrigues, Bernardo P de Almeida, Nuno L Barbosa-Morais, Gonçalo J L Bernardes. Chem Commun (Camb) 2019
6
20

Molecular Docking: Shifting Paradigms in Drug Discovery.
Luca Pinzi, Giulio Rastelli. Int J Mol Sci 2019
163
20

Detection and assay of antitumor antibiotics.
L J Hanka, S L Kuentzel, D G Martin, P F Wiley, G L Neil. Recent Results Cancer Res 1978
7
20

Rethinking drug design in the artificial intelligence era.
Petra Schneider, W Patrick Walters, Alleyn T Plowright, Norman Sieroka, Jennifer Listgarten, Robert A Goodnow, Jasmin Fisher, Johanna M Jansen, José S Duca, Thomas S Rush,[...]. Nat Rev Drug Discov 2020
127
20

Anticancer compounds derived from fungal endophytes: their importance and future challenges.
Ravindra N Kharwar, Ashish Mishra, Surendra K Gond, Andrea Stierle, Donald Stierle. Nat Prod Rep 2011
196
20


Co-cited is the co-citation frequency, indicating how many articles cite the article together with the query article. Similarity is the co-citation as percentage of the times cited of the query article or the article in the search results, whichever is the lowest. These numbers are calculated for the last 100 citations when articles are cited more than 100 times.