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: NEB

https://packages.ecosyste.ms/registries/pypi.org/packages/NEB

Namespace package for NEB projects.
1 version
Latest release: over 15 years ago
11 downloads last month

Papers Mentioning NEB 36

10.1186/s13072-021-00401-y
Evaluation of whole-genome DNA methylation sequencing library preparation protocols
Cited by: 18
Author(s): Jacob Morrison, Julie Koeman, Benjamin K. Johnson, Kelly K. Foy, Ian Beddows, Wanding Zhou, David Chesla, Larissa L. Rossell, Emily J. Siegwald, Marie Adams, Hui Shen
Software Mentions: 8
Published: over 3 years ago
10.3389/fgene.2021.665153
Comparative Analysis of the Circular Transcriptome in Muscle, Liver, and Testis in Three Livestock Species
Cited by: 9
Author(s): Annie Robic, Chloé Cerutti, Christa Kühn, Thomas Faraut
Software Mentions: 6
Published: over 3 years ago
10.1038/s41597-020-0474-y
High-throughput screening platform for solid electrolytes combining hierarchical ion-transport prediction algorithms
Cited by: 87
Author(s): Bing He, Shuting Chi, Anjiang Ye, Penghui Mi, Liwen Zhang, Bowei Pu, Zheyi Zou, Yunbing Ran, Qian Zhao, Da Wang, Wenqing Zhang, Jing‐Tai Zhao, Stefan Adams, Maxim Avdeev, Siqi Shi
Software Mentions: 5
Published: over 4 years ago
10.1186/1471-2164-14-S8-S3
QChIPat: a quantitative method to identify distinct binding patterns for two biological ChIP-seq samples in different experimental conditions
Cited by: 28
Author(s): Bin Liu, Jimmy Yi, Aishwarya Sv, Xun Lan, Yiyi Ma, Tim H.M. Huang, Gustavo Leone, Victor X. Jin
Software Mentions: 4
Published: almost 11 years ago
10.1186/s12864-018-4726-6
Evaluation of commercially available small RNASeq library preparation kits using low input RNA
Cited by: 60
Author(s): Ashish Yeri, Amanda Courtright, Kirsty Danielson, Elizabeth Hutchins, Eric Alsop, Elizabeth Carlson, Michael H. Hsieh, Olivia Ziegler, Avash Das, Ravi Shah, Joel Rozowsky, Saumya Das, Kendall Van Keuren‐Jensen
Software Mentions: 3
Published: over 6 years ago
10.12688/wellcomeopenres.15552.2
A simple ATAC-seq protocol for population epigenetics
Cited by: 9
Author(s): Ronaldo de Carvalho Augusto, Olivier Rey, Céline Cosseau, Cristian Chaparro, Jérémie Vidal-Dupiol, Jean‐François Allienne, David Timothy Duval, Silvain Pinaud, Sina Tönges, Ranja Andriantsoa, Émilien Luquet, Fabien Aubret, Mamadou Dia Sow, Patrice David, Vicki A. Thomson, Dominique Joly, Mariana Gomes Lima, Déborah Federico, Étienne Danchin, Aki Minoda, Christoph Grunau
Software Mentions: 3
Published: almost 4 years ago
10.1128/mSphere.00244-20
Tetanus Toxin <i>cis</i> -Loop Contributes to Light-Chain Translocation
Cited by: 9
Author(s): Madison Zuverink, Matthew S. Bluma, Joseph T. Barbieri
Software Mentions: 2
Published: over 4 years ago
10.1099/jgv.0.000530
Flexible and rapid construction of viral chimeras applied to hepatitis C virus
Cited by: 10
Author(s): C. Patrick McClure, Richard A. Urbanowicz, Barnabas King, Sara Cano-Crespo, Alexander W. Tarr, Jonathan K. Ball
Software Mentions: 2
Published: about 8 years ago
10.3389/fonc.2020.01634
Diagnostic Accuracy and Safety of Coaxial System in Oncology Patients Treated in a Specialist Cancer Center With Prospective Validation Within Clinical Trial Data
Cited by: 2
Author(s): Khurum Khan, Reyes Gonzalez-Exposito, David Cunningham, Dow‐Mu Koh, Andrew Woolston, Louise J. Barber, Beatrice Griffiths, Kyriakos Kouvelakis, V. Calamai, Monia Bali, Nasir Khan, Annette Bryant, Claire Saffery, Charles Dearman, Ruwaida Begum, Rao S, Naureen Starling, David Watkins, Ian Chau, Chiara Braconi, Nicola Valeri, Marco Gerlinger, Nicos Fotiadis
Software Mentions: 2
Published: about 4 years ago
10.1093/g3journal/jkaa005
FlyORF-TaDa allows rapid generation of new lines for <i>in vivo</i> cell-type-specific profiling of protein–DNA interactions in <i>Drosophila melanogaster</i>
Cited by: 5
Author(s): Gabriel Aughey, Caroline Delandre, John P D McMullen, Tony D. Southall, Owen J. Marshall
Software Mentions: 2
Published: almost 4 years ago
10.1371/journal.pone.0224847
Ion torrent high throughput mitochondrial genome sequencing (HTMGS)
Cited by: 11
Author(s): Nicholas R. Harvey, Cassie L. Albury, Shani Stuart, Miles C. Benton, David Eccles, Jasmine Connell, Heidi G. Sutherland, Richard Allcock, Rodney Arthur Lea, Larisa M. Haupt, Lyn R. Griffiths
Software Mentions: 2
Published: about 5 years ago
10.1371/journal.pcbi.1004619
Principles and Overview of Sampling Methods for Modeling Macromolecular Structure and Dynamics
Cited by: 179
Author(s): Tatiana Maximova, Ryan Moffatt, Buyong Ma, Ruth Nussinov, Amarda Shehu
Software Mentions: 2
Published: over 8 years ago
10.3389/fmicb.2020.589405
Bringing Real-World Microbiology Experiences to Undergraduate Students in Resource-Limited Environments
Cited by: 1
Author(s): Y. Aparna, K.T. Anuradha, Ch Naga Jyothi, K. Sri Manjari, Anil K. Challa
Software Mentions: 1
Published: almost 4 years ago
10.1038/srep34771
Low viscosity and high attenuation in MgSiO3 post-perovskite inferred from atomic-scale calculations
Cited by: 20
Author(s): Alexandra M. Goryaeva, Philippe Carrez, Patrick Cordier
Software Mentions: 1
Published: about 8 years ago
10.1038/srep35464
The stability and catalytic activity of W13@Pt42 core-shell structure
Cited by: 7
Author(s): Jinrong Huo, Xiaoxu Wang, Lü Li, Hai-Xia Cheng, Yanjing Su, Ping Qian
Software Mentions: 1
Published: about 8 years ago
10.1038/s41598-018-22111-4
A Highly Sensitive Detection System based on Proximity-dependent Hybridization with Computer-aided Affinity Maturation of a scFv Antibody
Cited by: 8
Author(s): Zhiheng Wang, Yan Li, Wenbin Liang, Junsong Zheng, Shuhui Li, Chuanmin Hu, An Chen
Software Mentions: 1
Published: over 6 years ago
10.1038/s41598-020-59531-0
Carbon Monoxide Oxidation Promoted by Surface Polarization Charges in a CuO/Ag Hybrid Catalyst
Cited by: 3
Author(s): Xijun Wang, Chuanyi Jia, Edward Sharman, Guozhen Zhang, Xin Li, Jun Jiang
Software Mentions: 1
Published: almost 5 years ago
10.1038/s41598-020-71694-4
A first-principles analysis of the charge transfer in magnesium corrosion
Cited by: 28
Author(s): Tim Würger, Christian Feiler, Gregor B. Vonbun-Feldbauer, Mikhail L. Zheludkevich, Robert H. Meißner
Software Mentions: 1
Published: about 4 years ago
10.1038/s41598-021-94107-6
Antagonist effects of grain boundaries between the trapping process and the fast diffusion path in nickel bicrystals
Cited by: 6
Author(s): J. Li, A. Hallil, Arnaud Metsue, A. Oudriss, J. Bouhattate, X. Feaugas
Software Mentions: 1
Published: over 3 years ago
10.1080/14686996.2017.1410055
Mechanistic insights into water adsorption and dissociation on amorphous TiO<sub>2</sub>-based catalysts
Cited by: 22
Author(s): Kulbir Kaur Ghuman
Software Mentions: 1
Published: almost 7 years ago
10.7554/eLife.07735
DNA damage induces nuclear actin filament assembly by Formin-2 and Spire-1/2 that promotes efficient DNA repair
Cited by: 158
Author(s): Brittany J Belin, Terri Lee, R. Dyche Mullins
Software Mentions: 1
Published: over 9 years ago
10.3390/ijms22020935
Analyzing Low-Level mtDNA Heteroplasmy—Pitfalls and Challenges from Bench to Benchmarking
Cited by: 10
Author(s): Federica Fazzini, Liane Fendt, Sebastian Schönherr, Lukas Forer, Bernd Schöpf, Gertraud Streiter, Jamie Lee Losso, Anita Kloss‐Brandstätter, Florian Kronenberg, Hansi Weißensteiner
Software Mentions: 1
Published: almost 4 years ago
10.1155/2015/562136
Restriction Profiling of 23S Microheterogenic Ribosomal Repeats for Detection and Characterizing ofE. coliand Their Clonal, Pathogenic, and Phylogroups
Cited by: 0
Author(s): Parvathi Jayasree Rajagopalan Nair, Sarva Jit Singh
Software Mentions: 1
Published: almost 10 years ago
10.1002/advs.201802093
Unraveling High‐Yield Phase‐Transition Dynamics in Transition Metal Dichalcogenides on Metallic Substrates
Cited by: 21
Author(s): Xinmao Yin, Chi Sin Tang, Di Wu, Weilong Kong, Changjian Li, Xinbo Wang, Liang Cao, Ming Yang, Yung‐Huang Chang, Dianyu Qi, Fangping Ouyang, Stephen J. Pennycook, Yuan Ping Feng, Mark B. H. Breese, Xinbo Wang, Wenjing Zhang, Andrivo Rusydi, Andrew Thye Shen Wee
Software Mentions: 1
Published: almost 6 years ago
10.1021/acs.jpcc.1c02327
Atomic Undercoordination in Ag Islands on Ru(0001) Grown via Size-Selected Cluster Deposition: An Experimental and Theoretical High-Resolution Core-Level Photoemission Study
Cited by: 4
Author(s): Luca Sbuelz, Federico Loi, Monica Pozzo, Luca Bignardi, Eugenio Nicolini, Paolo Lacovig, Ezequiel Tosi, Silvano Lizzit, Aras Kartouzian, Ueli Heiz, Dario Alfè, Alessandro Baraldi
Software Mentions: 1
Published: over 3 years ago
10.1186/1471-2105-7-98
REtools: A laboratory program for restriction enzyme work: enzyme selection and reaction condition assistance
Cited by: 6
Author(s): Patrick Martin, Kim E. Boulukos, Philippe Pognonec
Software Mentions: 1
Published: over 18 years ago
10.1186/s12864-017-3900-6
Increasing quality, throughput and speed of sample preparation for strand-specific messenger RNA sequencing
Cited by: 7
Author(s): Simon Haile, Richard Corbett, Tina MacLeod, Steve Bilobram, Duane E. Smailus, Philip S. Tsao, Heather Kirk, Helen McDonald, Pawan Pandoh, Miruna Bala, Martin Hirst, Diane Miller, Richard A. Moore, Andrew J. Mungall, Jacquie Schein, Robin Coope, Yussanne Ma, Yongjun Zhao, Robert A. Holt, Steven J.M. Jones, Marco A. Marra
Software Mentions: 1
Published: over 7 years ago
10.1186/1472-6807-10-S1-S1
Tracing conformational changes in proteins
Cited by: 63
Author(s): Nurit Haspel, Mark Moll, Matthew L. Baker, Wah Chiu, Lydia E. Kavraki
Software Mentions: 1
Published: almost 15 years ago
10.3390/ma12152354
Xenon Diffusion Mechanism and Xenon Bubble Nucleation and Growth Behaviors in Molybdenum via Molecular Dynamics Simulations
Cited by: 9
Author(s): Wenhua Zhang, Di Yun, Wenbo Liu
Software Mentions: 1
Published: over 5 years ago
10.1186/s12934-018-0891-1
TECS: a toxin expression control strategy as a tool for optimization of inducible promoters
Cited by: 2
Author(s): Aleksandra Małachowska, Paweł Olszewski
Software Mentions: 1
Published: over 6 years ago
10.3390/v13040542
The Change P82L in the Rift Valley Fever Virus NSs Protein Confers Attenuation in Mice
Cited by: 6
Author(s): Belén Borrego, Sandra Moreno, Nuria de la Losa, Friedemann Weber, Alejandro Brun
Software Mentions: 1
Published: over 3 years ago
10.1371/journal.pcbi.1003831
The Structural Basis of ATP as an Allosteric Modulator
Cited by: 71
Author(s): Shaoyong Lu, Wenkang Huang, Wang Qi, Qiancheng Shen, Shuai Li, Ruth Nussinov, Jian Zhang
Software Mentions: 1
Published: about 10 years ago
10.3390/diagnostics10100769
Performance of Targeted Library Preparation Solutions for SARS-CoV-2 Whole Genome Analysis
Cited by: 15
Author(s): Petr Klempt, Petr Brož, Martin Kašný, Ádám Novotny, Kateřina Kvapilová, Petr Kvapil
Software Mentions: 1
Published: about 4 years ago
10.3390/foods10081899
Characterization of the Psychrotrophic Lactic Acid Bacterium Leuconostoc gelidum subsp. aenigmaticum LS4 Isolated from Kimchi Based on Comparative Analyses of Its Genomic and Phenotypic Properties
Cited by: 6
Author(s): So Yeong Mun, Ye Jin Seo, Hae-Choon Chang
Software Mentions: 1
Published: over 3 years ago
10.3389/fchem.2019.00202
A Practical Guide to Surface Kinetic Monte Carlo Simulations
Cited by: 135
Author(s): Mie Andersen, Chiara Panosetti, Karsten Reuter
Software Mentions: 1
Published: over 5 years ago
10.3389/fmicb.2021.660149
Expression of Human ACE2 N-terminal Domain, Part of the Receptor for SARS-CoV-2, in Fusion With Maltose-Binding Protein, E. coli Ribonuclease I and Human RNase A
Cited by: 1
Author(s): Shuang-yong Xu, Alexey Fomenkov, Tien-Hao Chen, Erbay Yigit
Software Mentions: 1
Published: over 3 years ago