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: py

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

library with cross-python path, ini-parsing, io, code, log facilities
65 versions
Latest release: over 1 year ago
350 dependent packages
34,555,520 downloads last month

Papers Mentioning py 403

10.1038/sdata.2018.43
U-Index, a dataset and an impact metric for informatics tools and databases
Cited by: 9
Author(s): Alison Callahan, Rainer Winnenburg, Nigam H. Shah
Software Mentions: 2
Published: over 6 years ago
10.1155/2013/240175
The World Bacterial Biogeography and Biodiversity through Databases: A Case Study of NCBI Nucleotide Database and GBIF Database
Cited by: 8
Author(s): Okba Selama, Philip James, Farida Natèche, Elizabeth M. H. Wellington, Hocine Hacène
Software Mentions: 2
Published: almost 12 years ago
10.3389/fchem.2021.640994
Conformational Changes of Glutamine 5′-Phosphoribosylpyrophosphate Amidotransferase for Two Substrates Analogue Binding: Insight from Conventional Molecular Dynamics and Accelerated Molecular Dynamics Simulations
Cited by: 5
Author(s): Congcong Li, Siao Chen, Tianci Huang, Fangning Zhang, Jiawei Yuan, Hao Teng Chang, Wannan Li, Wei Han
Software Mentions: 2
Published: over 3 years ago
10.3389/fgene.2020.00282
GVCHAP: A Computing Pipeline for Genomic Prediction and Variance Component Estimation Using Haplotypes and SNP Markers
Cited by: 11
Author(s): Dzianis Prakapenka, Chunkao Wang, Zuoxiang Liang, Cheng Bian, Cheng Tan, Yang Da
Software Mentions: 2
Published: over 4 years ago
10.3390/biology9090281
TIP_finder: An HPC Software to Detect Transposable Element Insertion Polymorphisms in Large Genomic Datasets
Cited by: 3
Author(s): Simón Orozco-Arias, Nicolas Tobón-Orozco, Johan S. Piña, Cristian Felipe Jiménez Varón, Reinel Tabares-Soto, Romain Guyot
Software Mentions: 2
Published: about 4 years ago
10.1371/journal.pone.0245206
Negligible-cost microfluidic device fabrication using 3D-printed interconnecting channel scaffolds
Cited by: 19
Author(s): Harry Felton, Rhidian Hughes, Andrea Diaz-Gaxiola
Software Mentions: 2
Published: almost 4 years ago
10.3389/fgene.2020.00269
MASQC: Next Generation Sequencing Assists Third Generation Sequencing for Quality Control in N6-Methyladenine DNA Identification
Cited by: 25
Author(s): Siqian Yang, Yaoxin Wang, Ying Chen, Qi Dai
Software Mentions: 2
Published: over 4 years ago
10.1371/journal.pbio.3000300
Genotype network intersections promote evolutionary innovation
Cited by: 28
Author(s): Devin P. Bendixsen, James Collet, Bjørn Østman, Eric J. Hayden
Software Mentions: 2
Published: over 5 years ago
10.1371/journal.pone.0233651
Association of microtubules and axonal RNA transferred from myelinating Schwann cells in rat sciatic nerve
Cited by: 9
Author(s): Lucía Canclini, Joaquina Farías, Andrés Di Paolo, José Sotelo‐Silveira, Gustavo A. Folle, Alejandra Kun, Julio Sotelo
Software Mentions: 1
Published: over 4 years ago
10.1371/journal.pone.0065986
Multicellular Computing Using Conjugation for Wiring
Cited by: 56
Author(s): Ángel Goñi-Moreno, Martyn Amos, Fernando de la Cruz
Software Mentions: 1
Published: over 11 years ago
10.3389/fchem.2020.573259
Rapid in silico Design of Potential Cyclic Peptide Binders Targeting Protein-Protein Interfaces
Cited by: 13
Author(s): Brianda L. Santini, Martin Zacharias
Software Mentions: 1
Published: about 4 years ago
10.1371/journal.pone.0047015
Structural Characterization of the Complex of SecB and Metallothionein-Labeled proOmpA by Cryo-Electron Microscopy
Cited by: 6
Author(s): Qiang Zhou, Shan Sun, Phang C. Tai, Sen-Fang Sui
Software Mentions: 1
Published: about 12 years ago
10.3389/fgene.2021.676971
U5 snRNA Interactions With Exons Ensure Splicing Precision
Cited by: 3
Author(s): Olga V. Artemyeva-Isman, Andrew C.G. Porter
Software Mentions: 1
Published: over 3 years ago
10.1371/journal.pone.0117297
Endosymbiont Dominated Bacterial Communities in a Dwarf Spider
Cited by: 41
Author(s): Bram Vanthournout, Frederik Hendrickx
Software Mentions: 1
Published: over 9 years ago
10.1371/journal.pone.0019424
A Dynamic View of Trauma/Hemorrhage-Induced Inflammation in Mice: Principal Drivers and Networks
Cited by: 92
Author(s): Qi Mi, Gregory Constantine, Cordelia Ziraldo, Alexey Solovyev, Andrés Torres, Rajaie Namas, Timothy B. Bentley, Timothy R. Billiar, Rubén Zamora, Juan Carlos Puyana, Yoram Vodovotz
Software Mentions: 1
Published: over 13 years ago
10.1371/journal.pone.0033306
Composition and Similarity of Bovine Rumen Microbiota across Individual Animals
Cited by: 434
Author(s): Elie Jami, Itzhak Mizrahi
Software Mentions: 1
Published: over 12 years ago
10.3389/fnhum.2017.00420
Static and Dynamic Measures of Human Brain Connectivity Predict Complementary Aspects of Human Cognitive Performance
Cited by: 18
Author(s): Aurora I. Ramos-Nuñez, Simon Fischer‐Baum, Randi C. Martin, Qiuhai Yue, Fengdan Ye, Michael W. Deem
Software Mentions: 1
Published: over 7 years ago
10.1371/journal.pone.0023697
Combined SAXS/EM Based Models of the S. elongatus Post-Translational Circadian Oscillator and its Interactions with the Output His-Kinase SasA
Cited by: 35
Author(s): Rekha Pattanayek, Dewight Williams, Gian Luigi Rossi, Steven Weigand, Tetsuya Mori, Carl Hirschie Johnson, Phoebe L. Stewart, Martin Egli
Software Mentions: 1
Published: over 13 years ago
10.3389/fmicb.2018.01964
Profiling of the Microbiome Associated With Nitrogen Removal During Vermifiltration of Wastewater From a Commercial Dairy
Cited by: 8
Author(s): Ellen Lai, Matthias Hess, Frank M. Mitloehner
Software Mentions: 1
Published: over 6 years ago
10.1371/journal.pgen.1007636
Components of Brachypodium distachyon resistance to nonadapted wheat stripe rust pathogens are simply inherited
Cited by: 16
Author(s): Brian Gilbert, Jan Bettgenhaeuser, Narayana M. Upadhyaya, Melanie Soliveres, Davinder Singh, Robert Park, Matthew J. Moscou, Michael Ayliffe
Software Mentions: 1
Published: about 6 years ago
10.7554/eLife.67027
Differences in interactions between transmembrane domains tune the activation of metabotropic glutamate receptors
Cited by: 16
Author(s): Jordana K. Thibado, Jean-Yves Tano, Joon Lee, Leslie Salas-Estrada, Davide Provasi, Alexa Strauss, João Marcelo Lamim Ribeiro, Guoqing Xiang, Johannes Broichhagen, Marta Filizola, Martin J. Lohse, Joshua Levitz
Software Mentions: 1
Published: over 3 years ago
10.7554/eLife.03487
A novel N-terminal extension in mitochondrial TRAP1 serves as a thermal regulator of chaperone activity
Cited by: 37
Author(s): James R. Partridge, Laura A. Lavery, Daniel Elnatan, Nariman Naber, Roger Cooke, David A. Agard
Software Mentions: 1
Published: almost 10 years ago
10.1186/1471-2105-13-S17-S11
Mapping small molecule binding data to structural domains
Cited by: 11
Author(s): Felix Krüger, Raghd Rostom, John P. Overington
Software Mentions: 1
Published: almost 12 years ago
10.1371/journal.pcbi.1002901
Characterizing the Relationship between Steady State and Response Using Analytical Expressions for the Steady States of Mass Action Models
Cited by: 17
Author(s): Paul Loriaux, Glenn Tesler, Alexander Hoffmann
Software Mentions: 1
Published: over 11 years ago
10.7554/eLife.31007
Human subthalamic nucleus activity during non-motor decision making
Cited by: 33
Author(s): Baltazar Zavala, Anthony I. Jang, Kareem A. Zaghloul
Software Mentions: 1
Published: almost 7 years ago
10.7717/peerj-cs.238
A unified approach for cluster-wise and general noise rejection approaches for k-means clustering
Cited by: 9
Author(s): Seiki Ubukata
Software Mentions: 1
Published: about 5 years ago
10.7717/peerj.11603
Forecasting the COVID-19 transmission in Italy based on the minimum spanning tree of dynamic region network
Cited by: 7
Author(s): Min Dong, Xuhang Zhang, Kun Yang, Rui Liu, Pei Chen
Software Mentions: 1
Published: over 3 years ago
10.1186/1756-3305-7-242
Identification of G protein-coupled receptors in Schistosoma haematobium and S. mansoni by comparative genomics
Cited by: 37
Author(s): Tulio D L Campos, Neil D. Young, Pasi K. Korhonen, Ross S. Hall, Stefano Mangiola, Andrew Lonie, Robin B. Gasser
Software Mentions: 1
Published: over 10 years ago
10.3390/v12121473
The RNA Architecture of the SARS-CoV-2 3′-Untranslated Region
Cited by: 34
Author(s): Junxing Zhao, Jianming Qiu, Sadikshya Aryal, Jennifer Hackett, Jingxin Wang
Software Mentions: 1
Published: almost 4 years ago
10.3390/v9120374
High-Resolution Structure Analysis of Antibody V5 and U4 Conformational Epitopes on Human Papillomavirus 16
Cited by: 10
Author(s): Jian Guan, Stephanie M. Bywaters, Sarah A. Brendle, Robert E. Ashley, Alexander M. Makhov, James F. Conway, Neil D. Christensen, Susan Hafenstein
Software Mentions: 1
Published: almost 7 years ago
10.3389/fneur.2020.00815
A Study of the Relationship Between Uric Acid and Substantia Nigra Brain Connectivity in Patients With REM Sleep Behavior Disorder and Parkinson's Disease
Cited by: 18
Author(s): Timothy M. Ellmore, Jessika Suescun, Richard J. Castriotta, Mya C. Schiess
Software Mentions: 1
Published: over 4 years ago
10.3389/fnins.2020.00147
Linking Pain Sensation to the Autonomic Nervous System: The Role of the Anterior Cingulate and Periaqueductal Gray Resting-State Networks
Cited by: 40
Author(s): David Hohenschurz-Schmidt, Giovanni Calcagnini, Ottavia Dipasquale, Jade Jackson, Sonia Medina, Owen O’Daly, Jonathan O’Muircheartaigh, Alfonso de Lara Rubio, Steven Williams, Stephen B. McMahon, Elena Makovac, Matthew A. Howard
Software Mentions: 1
Published: over 4 years ago
10.18632/oncotarget.14524
Pse-Analysis: a python package for DNA/RNA and protein/peptide sequence analysis based on pseudo components and kernel methods
Cited by: 109
Author(s): Bin Liu, Hao Wu, Deyuan Zhang, Xiaolong Wang, Kuo‐Chen Chou
Software Mentions: 1
Published: almost 8 years ago
10.3389/fnins.2019.00467
Non-invasive Motor Cortex Neuromodulation Reduces Secondary Hyperalgesia and Enhances Activation of the Descending Pain Modulatory Network
Cited by: 49
Author(s): Timothy J. Meeker, Michael L. Keaser, Shazia Khan, Rao P. Gullapalli, David A. Seminowicz, Joel D. Greenspan
Software Mentions: 1
Published: over 5 years ago
10.3389/fpls.2020.00258
Reconstructing the Complex Evolutionary History of the Papuasian Schefflera Radiation Through Herbariomics
Cited by: 37
Author(s): Zhi Qiang Shee, David G. Frodin, Rodrigo Cámara‐Leret, Lisa Pokorny
Software Mentions: 1
Published: over 4 years ago
10.18632/oncotarget.26440
The molecular mechanism of action of methylene quinuclidinone and its effects on the structure of p53 mutants
Cited by: 11
Author(s): Sara Ibrahim Omar, Jack A. Tuszyński
Software Mentions: 1
Published: almost 6 years ago
10.3390/vaccines8030350
A Canine-Directed Chimeric Multi-Epitope Vaccine Induced Protective Immune Responses in BALB/c Mice Infected with Leishmania infantum
Cited by: 19
Author(s): Maria Agallou, Maritsa Margaroni, Stathis D. Kotsakis, Evdokia Karagouni
Software Mentions: 1
Published: over 4 years ago
10.3389/fpls.2020.00802
Chromosome Painting Based on Bulked Oligonucleotides in Cotton
Cited by: 4
Author(s): Yuling Liu, Xiuyuan Wang, Yangyang Wei, Zhen Liu, Quánwěi Lú, Fang Liu, Tao Zhang, Renhai Peng
Software Mentions: 1
Published: over 4 years ago
10.3390/molecules26092456
Allosteric Modulation of the CB1 Cannabinoid Receptor by Cannabidiol—A Molecular Modeling Study of the N-Terminal Domain and the Allosteric-Orthosteric Coupling
Cited by: 14
Author(s): Jakub Jakowiecki, Renata Abel, Urszula Orzeł, Paweł Pasznik, Robert Preißner, Sławomir Filipek
Software Mentions: 1
Published: over 3 years ago
10.1534/g3.118.200948
Repeats of Unusual Size in Plant Mitochondrial Genomes: Identification, Incidence and Evolution
Cited by: 91
Author(s): Emily L. Wynn, Alan C. Christensen
Software Mentions: 1
Published: almost 6 years ago
10.1186/1471-2105-6-159
Full cyclic coordinate descent: solving the protein loop closure problem in Cα space
Cited by: 24
Author(s): Wouter Boomsma, Thomas Hamelryck
Software Mentions: 1
Published: over 19 years ago
10.1186/gb-2012-13-1-r6
MetaMerge: scaling up genome-scale metabolic reconstructions, with application to Mycobacterium tuberculosis
Cited by: 30
Author(s): Leonid Chindelevitch, Sarah A. Stanley, Deborah T. Hung, Aviv Regev, Bonnie Berger
Software Mentions: 1
Published: almost 13 years ago
10.1093/molbev/msaa246
Chromosome-Scale Genome Assemblies of Aphids Reveal Extensively Rearranged Autosomes and Long-Term Conservation of the X Chromosome
Cited by: 40
Author(s): Thomas C. Mathers, Roland H. M. Wouters, Sam T. Mugford, David Swarbreck, Cock van Oosterhout, Saskia A. Hogenhout
Software Mentions: 1
Published: about 4 years ago
10.1080/23802359.2021.1907809
The complete mitogenome of the Mountain chicken frog, Leptodactylus fallax
Cited by: 0
Author(s): Nina F. D. White, Andrew A. Cunningham, Michael A. Hudson, Pablo Orozco‐terWengel
Software Mentions: 1
Published: over 3 years ago
10.1093/gbe/evt207
Comparative Analysis of Mitochondrial Genomes in Diplura (Hexapoda, Arthropoda): Taxon Sampling Is Crucial for Phylogenetic Inferences
Cited by: 11
Author(s): Wanjun Chen, Markus Koch, Jon Mallatt, Yigang Luan
Software Mentions: 1
Published: almost 11 years ago
10.3390/life10110254
Diversity, Composition and Functional Inference of Gut Microbiota in Indian Cabbage white Pieris canidia (Lepidoptera: Pieridae)
Cited by: 9
Author(s): Ying Wang, Jianqing Zhu, Jie Fang, Li Shen, Shuojia Ma, Zimiao Zhao, Weidong Yu, Weibin Jiang
Software Mentions: 1
Published: about 4 years ago
10.1038/s41438-019-0160-4
MDR: an integrative DNA N6-methyladenine and N4-methylcytosine modification database for Rosaceae
Cited by: 47
Author(s): Zhaoyu Liu, Jian-Feng Xing, Wei Chen, Meiwei Luan, Rui Xie, Jing Huang, Shuang Xie, Chuan-Le Xiao
Software Mentions: 1
Published: over 5 years ago
10.1002/brb3.2033
Functional heterogeneity in the left lateral posterior parietal cortex during visual and haptic crossmodal dot‐surface matching
Cited by: 4
Author(s): Jiajia Yang, Yanan Yu, Hiroaki Shigemasu, Hideki Kadota, Kiyoshi Nakahara, Takanori Kochiyama, Yoshimichi Ejima, Jinglong Wu
Software Mentions: 1
Published: almost 4 years ago
10.1038/s41408-018-0162-8
Genetic correlation between multiple myeloma and chronic lymphocytic leukaemia provides evidence for shared aetiology
Cited by: 21
Author(s): Molly Went, Amit Sud, Helen E. Speedy, Nicola J. Sunter, Asta Försti, Philip Law, David C. Johnson, Fabio Mirabella, Amy Holroyd, Ni Li, Giulia Orlando, Niels Weinhold, Mark van Duin, Bowang Chen, Jonathan S. Mitchell, Larry Mansouri, Gunnar Juliusson, Karin E. Smedby, Sandrine Jayne, Aneela Majid, Claire Dearden, David Allsup, James R. Bailey, Guy Pratt, Chris Pepper, Chris Fegan, Richard Rosenquist, Rowan Kuiper, Owen Stephens, Uta Bertsch, Peter Broderick, Hermann Einsele, Walter M. Gregory, Jens Hillengaß, Per Hoffmann, Graham Jackson, Karl Heinz Jöckel, Jolanta Nickel, Markus M. Nöthen, Miguel Inácio da Silva Filho, Hauke Thomsen, Brian A. Walker, Annemiek Broyl, Faith E. Davies, Markus Hansson, Hartmut Goldschmidt, Martin J. S. Dyer, Martin Kaiser, Pieter Sonneveld, Gareth J. Morgan, Kari Hemminki, Björn Nilsson, Daniel Catovsky, James M. Allan, Richard S. Houlston
Software Mentions: 1
Published: almost 6 years ago
10.1172/jci.insight.138137
Human C. difficile toxin–specific memory B cell repertoires encode poorly neutralizing antibodies
Cited by: 7
Author(s): Hemangi B. Shah, Kenneth Smith, Edgar J. Scott, Jason L. Larabee, Judith A. James, Jimmy D Ballard, Mark L. Lang
Software Mentions: 1
Published: over 4 years ago
10.6028/jres.117.010
Instrument Control (iC) – An Open-Source Software to Automate Test Equipment
Cited by: 6
Author(s): Kurt P. Pernstich
Software Mentions: 1
Published: over 12 years ago
10.1186/s13068-021-01897-y
Comparison of methodologies used to determine aromatic lignin unit ratios in lignocellulosic biomass
Cited by: 16
Author(s): Renee M. Happs, J. Bennett Addison, Crissa Doeppke, Bryon S. Donohoe, Mark F. Davis, Anne E. Harman‐Ware
Software Mentions: 1
Published: over 3 years ago
10.1007/s00204-016-1739-2
Identification and hazard prediction of tattoo pigments by means of pyrolysis—gas chromatography/mass spectrometry
Cited by: 34
Author(s): Ines Schreiver, Christoph Hutzler, Sarah Andree, Peter Laux, Andreas Luch
Software Mentions: 1
Published: over 8 years ago
10.1002/cne.24411
Inhibitory and modulatory inputs to the vocal central pattern generator of a teleost fish
Cited by: 12
Author(s): Elisabeth Rosner, Kevin N. Rohmann, Andrew H. Bass, Boris P. Chagnaud
Software Mentions: 1
Published: over 6 years ago
10.7554/eLife.02730
Neuronal connectome of a sensory-motor circuit for visual navigation
Cited by: 93
Author(s): Nadine Randel, Albina Asadulina, Luis A Bezares-Calderón, Csaba Verasztó, Elizabeth A. Williams, Markus Conzelmann, Réza Shahidi, Gáspár Jékely
Software Mentions: 1
Published: over 10 years ago
10.3390/polym13040654
Optimisation on Thermoforming of Biodegradable Poly (Lactic Acid) (PLA) by Numerical Modelling
Cited by: 10
Author(s): Huidong Wei
Software Mentions: 1
Published: almost 4 years ago
10.1016/j.redox.2020.101694
PER1 interaction with GPX1 regulates metabolic homeostasis under oxidative stress
Cited by: 17
Author(s): Qi Sun, Yuxuan Yang, Zhongqiu Wang, Xiao Yang, Yan Gao, Yang Zhao, Weifeng Ge, Junhao Liu, Xi Xu, Wei Guan, Dan Weng, Shiming Wang, Junsong Wang, Jianfa Zhang
Software Mentions: 1
Published: about 4 years ago
10.1016/j.xpro.2021.100379
Live imaging and quantitation of nascent transcription using the MS2/MCP system in the Drosophila embryo
Cited by: 11
Author(s): Caroline Hoppe, Hilary L. Ashe
Software Mentions: 1
Published: over 3 years ago
10.1038/sdata.2016.122
An electrical load measurements dataset of United Kingdom households from a two-year longitudinal study
Cited by: 217
Author(s): David M. Murray, Lina Stanković, Vladimir Stanković
Software Mentions: 1
Published: almost 8 years ago
10.1038/sdata.2018.257
Anthropomorphic breast model repository for research and development of microwave breast imaging technologies
Cited by: 9
Author(s): Muhammad Omer, Elise C. Fear
Software Mentions: 1
Published: about 6 years ago
10.1002/aps3.11420
New targets acquired: Improving locus recovery from the Angiosperms353 probe set
Cited by: 30
Author(s): Todd G. B. McLay, Joanne L. Birch, Bee F. Gunn, Weixuan Ning, Jennifer A. Tate, Lars Nauheimer, EM Joyce, Lalita Simpson, Alexander N. Schmidt‐Lebuhn, William J. Baker, Félix Forest, Chris Jackson
Software Mentions: 1
Published: over 3 years ago
10.1186/1745-6150-1-35
Cited by: 41
Author(s): Gáspár Jékely
Software Mentions: 1
Published: almost 19 years ago
10.1093/bioinformatics/btab097
HiCRep.py: fast comparison of Hi-C contact matrices in Python
Cited by: 16
Author(s): Dejun Lin, Justin Sanders, William Stafford Noble
Software Mentions: 1
Published: almost 4 years ago
10.1038/s41598-017-07228-2
Modulation of piglets’ microbiota: differential effects by a high wheat bran maternal diet during gestation and lactation
Cited by: 34
Author(s): Julie Leblois, Sébastien Massart, Bing Li, José Wavreille, Jérôme Bindelle, Nadia Everaert
Software Mentions: 1
Published: over 7 years ago
10.1038/s41598-017-14286-z
Keeping it complicated: Mitochondrial genome plasticity across diplonemids
Cited by: 17
Author(s): Matus Valach, Sandrine Moreira, Steve Hoffmann, Peter F. Stadler, Gertraud Burger
Software Mentions: 1
Published: about 7 years ago
10.1111/acel.13141
Shorter life and reduced fecundity can increase colony fitness in virtual <i>Caenorhabditis elegans</i>
Cited by: 18
Author(s): Evgeniy R. Galimov, David Gems
Software Mentions: 1
Published: over 4 years ago
10.1186/1756-0381-6-25
Genomic analyses with biofilter 2.0: knowledge driven filtering, annotation, and model development
Cited by: 44
Author(s): Sarah A. Pendergrass, Alex T. Frase, John R. Wallace, Daniel Wolfe, Neerja Katiyar, Carrie Moore, Marylyn D. Ritchie
Software Mentions: 1
Published: almost 11 years ago
10.1038/s41598-019-41758-1
Application of ESMACS binding free energy protocols to diverse datasets: Bromodomain-containing protein 4
Cited by: 21
Author(s): David W. Wright, Shunzhou Wan, Christophe Meyer, Herman van Vlijmen, Gary Tresadern, Peter V. Coveney
Software Mentions: 1
Published: over 5 years ago
10.1038/s41598-019-43820-4
Downregulated Wnt/β-catenin signalling in the Down syndrome hippocampus
Cited by: 18
Author(s): Simone Grannò, Jonathon Nixon‐Abell, Daniel C. Berwick, Justin Tosh, George R. Heaton, Sultan Almudimeegh, Zenisha Nagda, Jean-Christophe Rain, Manuela Zanda, Vincent Plagnol, Victor L. J. Tybulewicz, Karen Cleverley, Frances K. Wiseman, Elizabeth Fisher, Kirsten Harvey
Software Mentions: 1
Published: over 5 years ago
10.3390/ijms19010151
Computational Insights into the Interactions between Calmodulin and the c/nSH2 Domains of p85α Regulatory Subunit of PI3Kα: Implication for PI3Kα Activation by Calmodulin
Cited by: 22
Author(s): Duan Ni, Dingyu Liu, Jian Zhang, Shaoyong Lu
Software Mentions: 1
Published: almost 7 years ago
10.3390/ijms21113793
Prediction of Novel Inhibitors of the Main Protease (M-pro) of SARS-CoV-2 through Consensus Docking and Drug Reposition
Cited by: 117
Author(s): Aleix Gimeno, Júlia Mestres‐Truyol, María José Ojeda‐Montes, Guillem Macip, Bryan Saldivar‐Espinoza, Adrià Ceretó-Massagué, Gerard Pujadas, Santiago Garcı́a-Vallvé
Software Mentions: 1
Published: over 4 years ago
10.1038/s41598-020-69613-8
Genomic evidence of recent hybridization between sea turtles at Abrolhos Archipelago and its association to low reproductive output
Cited by: 12
Author(s): Larissa Souza Arantes, Lucas Cabral Lage Ferreira, Maximilian Driller, Fernando Pedro Marinho Repinaldo Filho, Camila J. Mazzoni, Fabrício R. Santos
Software Mentions: 1
Published: over 4 years ago
10.1186/s12870-021-03147-7
Transcriptome profiles revealed molecular mechanisms of alternating temperatures in breaking the epicotyl morphophysiological dormancy of Polygonatum sibiricum seeds
Cited by: 6
Author(s): Dengqun Liao, Ruipeng An, Jianhe Wei, Dongmei Wang, Xianen Li, Jianjun Qi
Software Mentions: 1
Published: over 3 years ago
10.1186/s12891-019-2854-z
Computational modeling of human bone fracture healing affected by different conditions of initial healing stage
Cited by: 28
Author(s): Mohammad S. Ghiasi, Jason E. Chen, Edward K. Rodriguez, Ashkan Vaziri, Ara Nazarian
Software Mentions: 1
Published: almost 5 years ago
10.1038/s41598-020-78803-3
A comprehensive analysis of the phylogenetic signal in ramp sequences in 211 vertebrates
Cited by: 2
Author(s): Lauren M. McKinnon, Justin Miller, Michael F. Whiting, John S. K. Kauwe, Perry G. Ridge
Software Mentions: 1
Published: almost 4 years ago
10.1038/s41598-021-89569-7
Insights into the taxonomic and functional characterization of agricultural crop core rhizobiomes and their potential microbial drivers
Cited by: 14
Author(s): Antonio Castellano‐Hinojosa, Sarah L. Strauss
Software Mentions: 1
Published: over 3 years ago
10.3390/s20143820
Recent Analysis of Forged Request Headers Constituted by HTTP DDoS
Cited by: 1
Author(s): Abdul Ghafar Jaafar, Saiful Adli Ismail, Mohd Shahidan Abdullah, Nazri Kama, Azri Azmi, Othman Mohd Yusop
Software Mentions: 1
Published: over 4 years ago
10.1186/s12874-017-0335-3
Estimating the standardized incidence ratio (SIR) with incomplete follow-up data
Cited by: 27
Author(s): Heiko Becher, Volker Winkler
Software Mentions: 1
Published: over 7 years ago
10.1093/scan/nsaa146
Patients with anxiety disorders rely on bilateral dlPFC activation during verbal working memory
Cited by: 16
Author(s): Nicholas L. Balderston, Elizabeth A. Flook, Abigail Hsiung, Jeffrey Liu, Amanda Thongarong, Sara Stahl, Walid Makhoul, Yvette I. Sheline, Monique Ernst, Christian Grillon
Software Mentions: 1
Published: about 4 years ago
10.6028/jres.120.014
An Implementation of the Fundamental Parameters Approach for Analysis of X-ray Powder Diffraction Line Profiles
Cited by: 18
Author(s): Marcus H. Mendenhall, Katharine M. Mullen, James P. Cline
Software Mentions: 1
Published: about 9 years ago
10.1186/s12864-017-4276-3
Genomic analysis of endemic clones of toxigenic and non-toxigenic Corynebacterium diphtheriae in Belarus during and after the major epidemic in 1990s
Cited by: 29
Author(s): Steffen Grosse-Kock, Valentina Kolodkina, Ed C. Schwalbe, Jochen Blom, Andreas Burkovski, Paul A. Hoskisson, Sylvain Brisse, Darren Smith, Iain C. Sutcliffe, Leonid Titov, Vartul Sangal
Software Mentions: 1
Published: about 7 years ago
10.1128/mSystems.00016-18
Characterization of Wild and Captive Baboon Gut Microbiota and Their Antibiotic Resistomes
Cited by: 40
Author(s): Pablo Tsukayama, Manish Boolchandani, Sanket Patel, Erica C. Pehrsson, Molly K. Gibson, Kenneth L. Chiou, Clifford J. Jolly, Jeffrey Rogers, Jane E. Phillips‐Conroy, Gautam Dantas
Software Mentions: 1
Published: over 6 years ago
10.1186/s12864-016-2566-9
Rapid gene identification in sugar beet using deep sequencing of DNA from phenotypic pools selected from breeding panels
Cited by: 24
Author(s): David Ries, Daniela Holtgräwe, Prisca Viehöver, Bernd Weißhaar
Software Mentions: 1
Published: over 8 years ago
10.1107/S2059798320014928
<i>TEMPy</i>2: a Python library with improved 3D electron microscopy density-fitting and validation workflows
Cited by: 24
Author(s): Tristan Cragnolini, Harpal Sahota, Agnel Praveen Joseph, Aaron Sweeney, Sony Malhotra, Daven Vasishtan, Maya Topf
Software Mentions: 1
Published: almost 4 years ago
10.1007/s13735-017-0118-y
Investigating country-specific music preferences and music recommendation algorithms with the LFM-1b dataset
Cited by: 28
Author(s): Markus Schedl
Software Mentions: 1
Published: almost 8 years ago
10.1099/jmm.0.001203
Potential RNA-dependent RNA polymerase inhibitors as prospective therapeutics against SARS-CoV-2
Cited by: 49
Author(s): Rudramani Pokhrel, Prem P. Chapagain, Jessica Siltberg-Liberles
Software Mentions: 1
Published: over 4 years ago
10.1093/cid/ciaa1773
Spontaneous Emergence of Azithromycin Resistance in Independent Lineages of <i>Salmonella</i> Typhi in Northern India
Cited by: 34
Author(s): Megan E Carey, Rajeev Jain, Mohammad Yousuf, Mailis Maes, Zoe A. Dyson, Trang Nguyen Hoang Thu, To Nguyen Thi Nguyen, Thanh Ho Ngoc Dan, Quynh Nguyen, Jaspreet Mahindroo, Duy Pham, Kawaljeet Singh Sandha, Stephen Baker, Neelam Taneja
Software Mentions: 1
Published: almost 4 years ago
10.1038/s42003-021-02360-2
Cryo-electron tomography provides topological insights into mutant huntingtin exon 1 and polyQ aggregates
Cited by: 14
Author(s): Jesús G. Galaz-Montoya, Sarah H. Shahmoradian, Koning Shen, Judith Frydman, Wah Chiu
Software Mentions: 1
Published: over 3 years ago
10.1016/j.cub.2021.03.050
Variable kinship patterns in Neolithic Anatolia revealed by ancient genomes
Cited by: 38
Author(s): Reyhan Yaka, Igor Mapelli, Damla Kaptan, Ayça Doğu, Maciej Chyleñski, Ömür Dilek Erdal, Dilek Koptekin, Kıvılcım Başak Vural, Alex Bayliss, Camilla Mazzucato, Evrim Fer, Sevim Seda Çokoğlu, Vendela Kempe Lagerholm, Maja Krzewińska, Cansu Karamurat, Hasan Can Gemici, Arda Sevkar, Nihan Dilşad Dağtaş, Gülşah Merve Kılınç, Donovan Adams, Arielle R. Munters, Ekin Sağlıcan, Marco Milella, Eline M.J. Schotsmans, Erinç Yurtman, Mehmet Serkan Çetin, Sevgi Yorulmaz, N. Ezgi Altınışık, Ayshin Ghalichi, Anna Juras, C. Can Bilgin, Torsten Günther, Jan Storå, Mattias Jakobsson, Maurice de Kleijn, Gökhan Mustafaoğlu, Andrew Fairbairn, Jessica Pearson, İnci̇ Togan, Nurcan Kayacan, Arkadiusz Marciniak, Clark Spencer Larsen, Ian Hodder, Çiğdem Atakuman, Marin A. Pilloud, Elif Sürer, Fokke Gerritsen, Rana Özbal, Douglas Baird, Yılmaz Selim Erdal, Güneş Duru, Mihriban Özbaşaran, Scott D. Haddow, Christopher J. Knüsel, Anders Götherström, Füsun Özer, Mehmet Somel
Software Mentions: 1
Published: over 3 years ago
10.1016/j.dib.2019.104000
A benchmark dataset for analyzing and visualizing the dynamic epiproteome
Cited by: 2
Author(s): Sandeep Kaur, Benedetta Frida Baldi, Jenny Vuong, Seán I. O’Donoghue
Software Mentions: 1
Published: over 5 years ago
10.1038/s41422-018-0092-9
METTL3-mediated N6-methyladenosine mRNA modification enhances long-term memory consolidation
Cited by: 131
Author(s): Zeyu Zhang, Meng Wang, Dong Xie, Zeng-Hui Huang, Lisha Zhang, Ying Yang, Dongxue Ma, Wenguang Li, Qi Zhou, Yun‐Gui Yang, Xiu‐Jie Wang
Software Mentions: 1
Published: about 6 years ago
10.1038/s41422-018-0108-5
Cryo-EM reveals ligand induced allostery underlying InsP3R channel gating
Cited by: 46
Author(s): Guizhen Fan, Mariah R. Baker, Zhao Wang, Alexander Seryshev, Steven J. Ludtke, Matthew L. Baker, Irina I. Serysheva
Software Mentions: 1
Published: about 6 years ago
10.3390/cancers12102878
A Computational Framework for Prediction and Analysis of Cancer Signaling Dynamics from RNA Sequencing Data—Application to the ErbB Receptor Signaling Pathway
Cited by: 14
Author(s): Hiroaki Imoto, Suxiang Zhang, Mariko Okada
Software Mentions: 1
Published: about 4 years ago
10.1371/journal.pone.0196905
High-throughput evaluation of T7 promoter variants using biased randomization and DNA barcoding
Cited by: 23
Author(s): Ryo Komura, Wataru Aoki, Keisuke Motone, Atsushi Satomura, Mitsuyoshi Ueda
Software Mentions: 1
Published: over 6 years ago
10.1140/epjc/s10052-014-3163-1
Fastlim: a fast LHC limit calculator
Cited by: 77
Author(s): Michele Papucci, Kazuki Sakurai, Andreas Weiler, Lisa Zeune
Software Mentions: 1
Published: about 10 years ago
10.1186/s13227-015-0027-1
The Hox cluster microRNA miR-615: a case study of intronic microRNA evolution
Cited by: 15
Author(s): Shan Quah, Peter W.H. Holland
Software Mentions: 1
Published: about 9 years ago
10.1371/journal.pone.0199568
Feeding sows resistant starch during gestation and lactation impacts their faecal microbiota and milk composition but shows limited effects on their progeny
Cited by: 19
Author(s): Julie Leblois, Sébastien Massart, Hélène Soyeurt, Clément Grelet, Frédéric Dehareng, Martine Schroyen, Bing Li, José Wavreille, Jérôme Bindelle, Nadia Everaert
Software Mentions: 1
Published: over 6 years ago
10.1371/journal.pone.0001036
A Simple Method for Combining Genetic Mapping Data from Multiple Crosses and Experimental Designs
Cited by: 18
Author(s): Jeremy L. Peirce, Karl W. Broman, Ling Lü, Robert W. Williams
Software Mentions: 1
Published: about 17 years ago
10.1371/journal.pone.0214201
A whole genome scan of SNP data suggests a lack of abundant hard selective sweeps in the genome of the broad host range plant pathogenic fungus Sclerotinia sclerotiorum
Cited by: 21
Author(s): Mark Derbyshire, Matthew Denton‐Giles, James K. Hane, Steven Chang, Mahsa Mousavi‐Derazmahalleh, Sylvain Raffaele, L. Buchwaldt, Lars G. Kamphuis
Software Mentions: 1
Published: over 5 years ago
10.1371/journal.pone.0069885
GenGIS 2: Geospatial Analysis of Traditional and Genetic Biodiversity, with New Gradient Algorithms and an Extensible Plugin Framework
Cited by: 102
Author(s): Donovan H. Parks, Timothy Mankowski, Somayyeh Zangooei, Michael S. Porter, David G. Armanini, Donald J. Baird, Morgan G. I. Langille, Robert G. Beiko
Software Mentions: 1
Published: over 11 years ago