Ecosyste.ms: Papers
An open API service providing mapping between scientific papers and software projects that are mentioned in them.
All mentions data is based on the CZI Software Mentions dataset.
Projects: pypi: Assemble
https://packages.ecosyste.ms/registries/pypi.org/packages/Assemble
Assemble: Assemble the packages!
12 versions
Latest release: over 8 years ago
79 downloads last month
Papers Mentioning Assemble 25
10.1186/1758-2946-5-12
Computational mass spectrometry for small moleculesCited by: 124
Author(s): Kerstin Scheubert, Franziska Hufsky, Sebastian Böcker
Software Mentions: 5
Published: over 11 years ago
10.1186/s13321-021-00529-9
MAYGEN: an open-source chemical structure generator for constitutional isomers based on the orderly generation principleCited by: 6
Author(s): Mehmet Aziz Yirik, Maria Sorokina, Christoph Steinbeck
Software Mentions: 3
Published: over 3 years ago
10.1128/MRA.00990-18
Draft Genome Sequence of Salmonella enterica subsp. enterica Serotype Typhimurium Sequence Type 313, Isolated from IndiaCited by: 0
Author(s): Sohan Rodney Bangera, Shashikiran Umakanth, Asish K. Mukhopadhyay, Pimlapas Leekitcharoenphon, Goutam Chowdhury, René S. Hendriksen, Mamatha Ballal
Software Mentions: 2
Published: about 6 years ago
10.1186/1759-8753-5-25
Molecular characterization of a new member of the lariat capping twin-ribozyme intronsCited by: 13
Author(s): Yunjia Tang, Hans Bruun Nielsen, Benoı̂t Masquida, Paul P. Gardner, Steinar Johansen
Software Mentions: 2
Published: about 10 years ago
10.7554/eLife.57063
Functionally specialized human CD4+ T-cell subsets express physicochemically distinct TCRsCited by: 12
Author(s): Sofya A. Kasatskaya, Kristin Ladell, Evgeniy S. Egorov, Kelly L. Miners, Alexey N. Davydov, Maria Metsger, Dmitry B. Staroverov, Elena K Matveyshina, Irina A. Shagina, Ilgar Z. Mamedov, Mark Izraelson, Pavel V. Shelyakin, Olga V. Britanova, David A. Price, Dmitriy M. Chudakov
Software Mentions: 2
Published: almost 4 years ago
10.1042/BSR20180430
Computational modeling of RNA 3D structure based on experimental dataCited by: 37
Author(s): Almudena Ponce-Salvatierra, Astha Astha, Katarzyna Merdas, Chandran Nithin, Pritha Ghosh, Sunandan Mukherjee, Janusz Bujnicki
Software Mentions: 2
Published: almost 6 years ago
10.1371/journal.pcbi.1005032
Structure Prediction of RNA Loops with a Probabilistic ApproachCited by: 25
Author(s): Jun Li, Zhang Jian, Jun Wang, Weihua Li, Wei Wang
Software Mentions: 2
Published: over 8 years ago
10.1371/journal.pone.0169324
Characterization and Genetic Variation of Vibrio cholerae Isolated from Clinical and Environmental Sources in ThailandCited by: 62
Author(s): Achiraya Siriphap, Pimlapas Leekitcharoenphon, Rolf Sommer Kaas, Chonchanok Theethakaew, Frank Møller Aarestrup, Orasa Sutheinkul, René S. Hendriksen
Software Mentions: 2
Published: almost 8 years ago
10.1371/journal.pone.0136444
GARN: Sampling RNA 3D Structure Space with Game Theory and Knowledge-Based Scoring StrategiesCited by: 10
Author(s): Mélanie Boudard, Julie Bernauer, Dominique Barth, Johanne Cohen, Alain Denise
Software Mentions: 2
Published: about 9 years ago
10.1093/gigascience/gix075
The draft genome sequence of a desert tree Populus pruinosaCited by: 43
Author(s): Wenbo Yang, Kun Wang, Jian Zhang, Jianchao Ma, Jianquan Liu, Tao Ma
Software Mentions: 2
Published: over 7 years ago
10.1038/s41598-018-34457-w
Dynamic evolution of inverted repeats in Euglenophyta plastid genomesCited by: 15
Author(s): Anna Karnkowska, Matthew S. Bennett, Richard E. Triemer
Software Mentions: 2
Published: about 6 years ago
10.1371/journal.pone.0160457
Differential Assembly of Catalytic Interactions within the Conserved Active Sites of Two RibozymesCited by: 0
Author(s): Sabine N. S. van Schie, Raghuvir N. Sengupta, Daniel Herschlag
Software Mentions: 1
Published: over 8 years ago
10.1038/s41598-017-01348-5
Three-dimensional modeling of single stranded DNA hairpins for aptamer-based biosensorsCited by: 108
Author(s): Iman Jeddi, Leonor Saiz
Software Mentions: 1
Published: over 7 years ago
10.1371/journal.pone.0001326
A High Quality Draft Consensus Sequence of the Genome of a Heterozygous Grapevine VarietyCited by: 916
Author(s): Riccardo Velasco, Andrey Zharkikh, Michela Troggio, Dustin Cartwright, Alessandro Cestaro, Dmitry Pruss, Massimo Pindo, Lisa M. Fitzgerald, S. Vezzulli, Julia Reid, G. Malacarne, Diana Iliev, G. Coppola, Bryan Wardell, Diego Micheletti, Teresita Macalma, M. G. D. FACCI, Jeff T. Mitchell, Michele Perazzolli, Glenn Eldredge, Pamela Gatto, Rozan Oyzerski, Marco Moretto, Natalia Gutin, M. Stefanini, Yang Chen, C. Segala, Christine Davenport, L. Dematté, Amy Mraz, J. Battilana, Keith Stormo, Fabrizio Costa, Quanzhou Tao, Azeddine Si‐Ammour, Tim Harkins, Angie Lackey, Clotilde Perbost, Bruce E. Taillon, Alessandra Stella, Victor Solovyev, Jeffrey A. Fawcett, Lieven Sterck, Klaas Vandepoele, S. Grando, Stefano Toppo, C. Moser, Jerry S. Lanchbury, Robert Bogden, Mark H. Skolnick, Vittorio Sgaramella, S. K. Bhatnagar, Paolo Fontana, Alexander Gutin, Yves Van de Peer, F. Salamini, Roberto Viola
Software Mentions: 1
Published: almost 17 years ago
10.1186/s12870-015-0523-4
Parallel subfunctionalisation of PsbO protein isoforms in angiosperms revealed by phylogenetic analysis and mapping of sequence variability onto protein structureCited by: 8
Author(s): Miloš Duchoslav, Lukáš Fischer
Software Mentions: 1
Published: over 9 years ago
10.7759/cureus.1039
Value-Based Care in the Worldwide Battle Against CancerCited by: 15
Author(s): Niloufer J. Johansen, Christobel Saunders
Software Mentions: 1
Published: over 7 years ago
10.4155/fso.15.15
Selective nuclear localization of siRNA by metallic versus semiconducting single wall carbon nanotubes in keratinocytesCited by: 5
Author(s): J. Torin Huzil, Evi Saliaj, М. В. Иванова, Marjan Gharagozloo, Maria Jimena Loureiro, Constanze Lamprecht, Andreas Korinek, Ding-Wen Chen, Marianna Földvári
Software Mentions: 1
Published: about 9 years ago
10.1186/s13059-017-1249-4
Stable centromere positioning in diverse sequence contexts of complex and satellite centromeres of maize and wild relativesCited by: 40
Author(s): Jonathan I. Gent, Na Wang, R. Kelly Dawe
Software Mentions: 1
Published: over 7 years ago
10.1155/2014/978609
Genomic Changes in an Attenuated ZB Strain of Foot-and-Mouth Disease Virus Serotype Asia1 and Comparison with Its Virulent Parental StrainCited by: 4
Author(s): Aiguo Xin, Mingwang Zhu, Zhenqi Peng, Qi Hu, Chenhong Shi, Defang Liao, Jihua Wang, Huachun Li
Software Mentions: 1
Published: almost 11 years ago
10.1007/s41048-015-0001-4
Physics-based RNA structure predictionCited by: 20
Author(s): Xiaojun Xu, Shijie Chen
Software Mentions: 1
Published: over 9 years ago
10.3390/molecules21111451
Accumulation of Stable Full-Length Circular Group I Intron RNAs during Heat-ShockCited by: 7
Author(s): Kasper Langebjerg Andersen, Bertrand Beckert, Benoı̂t Masquida, Steinar Johansen, Hans Bruun Nielsen
Software Mentions: 1
Published: about 8 years ago
10.1186/s13567-015-0291-z
Apramycin treatment affects selection and spread of a multidrug-resistant Escherichia coli strain able to colonize the human gut in the intestinal microbiota of pigsCited by: 7
Author(s): Ana Herrero-Fresno, Camilla Zachariasen, Monica Hegstad Hansen, Alexander Norup Nielsen, René S. Hendriksen, S. S. Nielsen, John Elmerdahl Olsen
Software Mentions: 1
Published: almost 9 years ago
10.3390/v11121102
Next-Generation Sequencing on Insectivorous Bat Guano: An Accurate Tool to Identify Arthropod Viruses of Potential Agricultural ConcernCited by: 8
Author(s): Mathieu Bourgarel, Valérie Noël, Davies M. Pfukenyi, Johan Michaux, Adrien André, Pierre Becquart, Frédérique Cerqueira, Célia Barrachina, Vanina Boué, Loïc Talignani, Gift Matope, Dorothée Misse, Sergé Morand, Florian Liégeois
Software Mentions: 1
Published: almost 5 years ago
10.1093/bioinformatics/btaa977
On the complexity of haplotyping a microbial communityCited by: 14
Author(s): Samuel M. Nicholls, Wayne Aubrey, Kurt De Grave, Leander Schietgat, Christopher J. Creevey, Amanda Clare
Software Mentions: 1
Published: almost 4 years ago
10.1371/journal.pone.0156212
Investigating Salmonella Eko from Various Sources in Nigeria by Whole Genome Sequencing to Identify the Source of Human InfectionsCited by: 8
Author(s): Pimlapas Leekitcharoenphon, Ibrahim A. Raufu, Mette Thorup Nielsen, Birthe S. Rosenqvist Lund, J. A. Ameh, A. G. Ambali, Gitte Sørensen, Simon Le Hello, Frank Møller Aarestrup, René S. Hendriksen
Software Mentions: 1
Published: over 8 years ago