pypi: matplotlib | Projects | Ecosyste.ms: Papers

10.1128/mSystems.00340-20

Evaluating Organism-Wide Changes in the Metabolome and Microbiome following a Single Dose of Antibiotic
Cited by: 5
Author(s): Alison Vrbanac, Kathryn A. Patras, Alan K. Jarmusch, Robert H. Mills, Samuel R. Shing, Robert A. Quinn, Fernando Vargas, Kyung E. Rhee, Pieter C. Dorrestein, Rob Knight, Victor Nizet
Software Mentions: 4
Published: about 4 years ago

10.3390/jof2010006

Proteomic Analysis of Pathogenic Fungi Reveals Highly Expressed Conserved Cell Wall Proteins
Cited by: 41
Author(s): Jackson Champer, James I. Ito, Karl V. Clemons, David A. Stevens, Markus Kalkum
Software Mentions: 4
Published: almost 9 years ago

10.2196/16113

Deep Learning Approach for Imputation of Missing Values in Actigraphy Data: Algorithm Development Study
Cited by: 14
Author(s): Jong-Hwan Jang, Junggu Choi, Hyun Woong Roh, Sang Joon Son, Chang Hyung Hong, Eun Young Kim, Tae Young Kim, Dukyong Yoon
Software Mentions: 4
Published: over 4 years ago

10.7554/eLife.60498

Genome-wide alterations of uracil distribution patterns in human DNA upon chemotherapeutic treatments
Cited by: 11
Author(s): Hajnalka Laura Pálinkás, Angéla Békési, Gergely Róna, Lőrinc Sándor Pongor, Gábor Papp, Gergely Tihanyi, Eszter Holub, Ádám Póti, Carolina Gemma, Simak Ali, Michael J. Morten, Eli Rothenberg, Michele Pagano, Dávid Szűts, Balázs Győrffy, Beáta G. Vértessy
Software Mentions: 4
Published: about 4 years ago

10.7554/eLife.62207

Thalamus and claustrum control parallel layer 1 circuits in retrosplenial cortex
Cited by: 21
Author(s): Ellen Brennan, Izabela Jedrasiak‐Cape, Sameer Kailasa, Sharena P Rice, S Sudhakar, Omar J. Ahmed
Software Mentions: 4
Published: over 3 years ago

10.7554/eLife.44889

Identification of compounds that rescue otic and myelination defects in the zebrafish adgrg6 (gpr126) mutant
Cited by: 19
Author(s): Elvira Diamantopoulou, Sarah Baxendale, Antonio de la Vega de León, Anzar Asad, Celia J. Holdsworth, Leïla Abbas, Valerie J. Gillet, Giselle R. Wiggin, Tanya T. Whitfield
Software Mentions: 4
Published: over 5 years ago

10.7554/eLife.11282

Population genomics of intrapatient HIV-1 evolution
Cited by: 205
Author(s): Fabio Zanini, Johanna Brodin, Lina Thebo, Christa Lanz, Göran Bratt, Jan Albert, Richard A. Neher
Software Mentions: 4
Published: almost 9 years ago

10.7554/eLife.16220

Trisomy 21 consistently activates the interferon response
Cited by: 205
Author(s): Kelly D. Sullivan, Hannah C. Lewis, Amanda A. Hill, Ahwan Pandey, Leisa Jackson, Joseph M Cabral, Keith P Smith, L. Alexander Liggett, Eliana B. Gómez, Matthew D. Galbraith, James DeGregori, Joaquín M. Espinosa
Software Mentions: 4
Published: over 8 years ago

10.7554/eLife.30352

Pedunculopontine glutamatergic neurons control spike patterning in substantia nigra dopaminergic neurons
Cited by: 31
Author(s): Daniel J. Galtieri, Chad M Estep, David L. Wokosin, Stephen F. Traynelis, D. James Surmeier
Software Mentions: 4
Published: about 7 years ago

10.7554/eLife.63372

Coherent theta activity in the medial and orbital frontal cortices encodes reward value
Cited by: 11
Author(s): Linda M. Amarante, Mark Laubach
Software Mentions: 4
Published: about 3 years ago

10.3390/ijms22063125

A Transcriptomic Approach to Understanding the Combined Impacts of Supra-Optimal Temperatures and CO2 Revealed Different Responses in the Polyploid Coffea arabica and Its Diploid Progenitor C. canephora
Cited by: 12
Author(s): Isabel Marques, Isabel Fernandes, Octávio S. Paulo, Fernando C. Lidon, Fábio M. DaMatta, José C. Ramalho, Ana I. Ribeiro‐Barros
Software Mentions: 4
Published: over 3 years ago

10.3390/ijms22147415

Compatibility of Distinct Label-Free Proteomic Workflows in Absolute Quantification of Proteins Linked to the Oocyte Quality in Human Follicular Fluid
Cited by: 5
Author(s): Aleksandra Lewandowska, Anna Fel, Marcel Thiel, Paulina Czaplewska, Krzysztof Łukaszuk, Jacek R. Wiśniewski, Stanisław Ołdziej
Software Mentions: 4
Published: over 3 years ago

10.1098/rsif.2019.0474

Modelling microbial communities using biochemical resource allocation analysis
Cited by: 13
Author(s): Suraj Sharma, Ralf Steuer
Software Mentions: 4
Published: about 5 years ago

10.1523/ENEURO.0378-20.2021

Time Course of Alterations in Adult Spinal Motoneuron Properties in the SOD1(G93A) Mouse Model of ALS
Cited by: 11
Author(s): Seoan Huh, C. J. Heckman, Marin Manuel
Software Mentions: 4
Published: over 3 years ago

10.1186/s13321-016-0158-y

Rocker: Open source, easy-to-use tool for AUC and enrichment calculations and ROC visualization
Cited by: 69
Author(s): Sakari Lätti, Sanna Niinivehmas, Olli T. Pentikäinen
Software Mentions: 3
Published: about 8 years ago

10.1186/1471-2105-13-9

PyElph - a software tool for gel images analysis and phylogenetics
Cited by: 196
Author(s): Ana B. Pavel, Cristian-Ioan Vasile
Software Mentions: 3
Published: almost 13 years ago

10.7554/eLife.22268

Distribution of neurosensory progenitor pools during inner ear morphogenesis unveiled by cell lineage reconstruction
Cited by: 18
Author(s): Sylvia Dyballa, Thierry Savy, Philipp Germann, Karol Mikula, Mariana Remešíková, Róbert Špir, Andrea Zecca, Nadine Peyriéras, Cristina Pujades
Software Mentions: 3
Published: almost 8 years ago

10.1186/s13321-017-0243-x

eTOX ALLIES: an automated pipeLine for linear interaction energy-based simulations
Cited by: 7
Author(s): Luigi Capoferri, Marc van Dijk, Ariën S. Rustenburg, Tsjerk A. Wassenaar, Derk P. Kooi, Eko Aditya Rifai, Nico Vermeulen, Daan P. Geerke
Software Mentions: 3
Published: about 7 years ago

10.12688/wellcomeopenres.15903.1

Could dementia be detected from UK primary care patients’ records by simple automated methods earlier than by the treating physician? A retrospective case-control study
Cited by: 8
Author(s): Elizabeth Ford, Johannes Starlinger, Philip Rooney, Seb Oliver, Sube Banerjee, Harm van Marwijk, Jackie A Cassell
Software Mentions: 3
Published: over 4 years ago

10.1371/journal.pcbi.1006848

Predicting proteome allocation, overflow metabolism, and metal requirements in a model acetogen
Cited by: 45
Author(s): Joanne K. Liu, Colton J. Lloyd, Mahmoud M. Al‐Bassam, Ali Ebrahim, Ji-Nu Kim, Connor A. Olson, Alexander A. Aksenov, Pieter C. Dorrestein, Karsten Zengler
Software Mentions: 3
Published: over 5 years ago

10.1186/s12967-020-02247-6

CLEAR: coverage-based limiting-cell experiment analysis for RNA-seq
Cited by: 12
Author(s): Logan A. Walker, Michael G. Sovic, Chi‐Ling Chiang, Eileen Hu, Jiyeon K. Denninger, Xi Chen, Elizabeth D. Kirby, John C. Byrd, Natarajan Muthusamy, Ralf Bundschuh, Pearlly S. Yan
Software Mentions: 3
Published: almost 5 years ago

10.1186/s13321-020-00422-x

KnowTox: pipeline and case study for confident prediction of potential toxic effects of compounds in early phases of development
Cited by: 16
Author(s): Andrea Morger, Miriam Mathea, Janosch Achenbach, Antje Wolf, Roland Buesen, Klaus-Juergen Schleifer, Robert Landsiedel, Andrea Volkamer
Software Mentions: 3
Published: over 4 years ago

10.1186/s13321-020-00429-4

AutoGrow4: an open-source genetic algorithm for de novo drug design and lead optimization
Cited by: 57
Author(s): Jacob O. Spiegel, Jacob D. Durrant
Software Mentions: 3
Published: over 4 years ago

10.1186/s12859-017-1763-0

Visibiome: an efficient microbiome search engine based on a scalable, distributed architecture
Cited by: 0
Author(s): Syafiq Kamarul Azman, Muhammad Zohaib Anwar, Andreas Henschel
Software Mentions: 3
Published: over 7 years ago

10.3390/s21134519

Machine Learning Methods for Fear Classification Based on Physiological Features
Cited by: 8
Author(s): Livia Petrescu, Cătălin Petrescu, Ana Maria Oprea, Oana Mitruț, Gabriela Moise, Alin Moldoveanu, Florica Moldoveanu
Software Mentions: 3
Published: over 3 years ago

10.1371/journal.pone.0241609

Deaf intermarriage has limited effect on the prevalence of recessive deafness and no effect on underlying allelic frequency
Cited by: 5
Author(s): Derek C. Braun, Shaili Jain, Eric J. Epstein, Brian H. Greenwald, Brienna Herold, Margaret Gray
Software Mentions: 3
Published: about 4 years ago

10.3390/v13030509

Avian Influenza A Viruses Reassort and Diversify Differently in Mallards and Mammals
Cited by: 13
Author(s): Ketaki Ganti, Anish Bagga, Juliana DaSilva, Samuel S. Shepard, John Barnes, Susan A. Shriner, Katia Koelle, Anice C. Lowen
Software Mentions: 3
Published: over 3 years ago

10.3390/jcm10132753

Fecal Microbial Transplantation versus Mesalamine Enema for Treatment of Active Left-Sided Ulcerative Colitis—Results of a Randomized Controlled Trial
Cited by: 19
Author(s): Jan Březina, Lukáš Bajer, Pavel Wohl, Dana Ďuricová, P Hrabák, Aleš Novotný, Jana Koželuhová, Milan Lukáš, Jakub Mrázek, K. Fliegerová, Simona Kvasnová, Chahrazed Mekadim, Jan Mareš, Julius Špičák, Pavel Drastich
Software Mentions: 3
Published: over 3 years ago

10.1128/JCM.01822-19

Optimizing DNA Extraction Methods for Nanopore Sequencing of Neisseria gonorrhoeae Directly from Urine Samples
Cited by: 28
Author(s): Teresa Street, Leanne Barker, Nicholas D. Sanderson, James Kavanagh, Sarah Hoosdally, Kevin N. Cole, Robert Newnham, Mathyruban Selvaratnam, Monique Andersson, Martin J. Llewelyn, Justin O’Grady, Derrick W. Crook, David W Eyre
Software Mentions: 3
Published: over 4 years ago

10.1371/journal.pone.0163453

Image-Based Single Cell Profiling: High-Throughput Processing of Mother Machine Experiments
Cited by: 31
Author(s): Christian Carsten Sachs, Alexander Grünberger, Stefan Helfrich, Christopher Probst, Wolfgang Wiechert, Dietrich Kohlheyer, Katharina Nöh
Software Mentions: 3
Published: about 8 years ago

10.1002/osp4.402

Correlation of plasma metabolites with glucose and lipid fluxes in human insulin resistance
Cited by: 7
Author(s): Annick V. Hartstra, Pieter F. de Groot, Diogo Mendes Bastos, Evgeni Levin, Mireille J. Serlie, Maarten R. Soeters, Ceyda Tuğba Pekmez, Lars Ove Dragsted, Mariëtte T. Ackermans, Albert K. Groen, Max Nieuwdorp
Software Mentions: 3
Published: almost 5 years ago

10.1371/journal.ppat.1003754

The Effects of Somatic Hypermutation on Neutralization and Binding in the PGT121 Family of Broadly Neutralizing HIV Antibodies
Cited by: 165
Author(s): Devin Sok, Uri Laserson, Jonathan Laserson, Yiping Liu, François Vigneault, Jean-Philippe Julien, Bryan Briney, Alejandra Ramos, Karen Saye, Khoa Le, Alison E. Mahan, Shenshen Wang, Mehran Kardar, Gur Yaari, Laura M. Walker, Birgitte B. Simen, Elizabeth St. John, Po-Ying Chan-Hui, Kristine M. Swiderek, Stephen H. Kleinstein, Galit Alter, Michael S. Seaman, Arup K. Chakraborty, Daphne Koller, Ian A. Wilson, George M. Church, Dennis R. Burton, Pascal Poignard
Software Mentions: 3
Published: about 11 years ago

10.3390/s21124054

HyAdamC: A New Adam-Based Hybrid Optimization Algorithm for Convolution Neural Networks
Cited by: 17
Author(s): Kyung Soo Kim, Yong-Suk Choi
Software Mentions: 3
Published: over 3 years ago

10.1371/journal.pone.0038518

Intrinsic Noise Analyzer: A Software Package for the Exploration of Stochastic Biochemical Kinetics Using the System Size Expansion
Cited by: 47
Author(s): Philipp Thomas, Hannes Matuschek, Ramon Grima
Software Mentions: 3
Published: over 12 years ago

10.1371/journal.pcbi.1005775

Estimating time of HIV-1 infection from next-generation sequence diversity
Cited by: 44
Author(s): Vadim Puller, Richard A. Neher, Jan Albert
Software Mentions: 3
Published: about 7 years ago

10.3389/fnbot.2016.00014

Developing Dynamic Field Theory Architectures for Embodied Cognitive Systems with cedar
Cited by: 15
Author(s): Oliver Lomp, Mathis Richter, Stephan K. U. Zibner, Gregor Schöner
Software Mentions: 3
Published: about 8 years ago

10.3390/polym13142255

The Proposal and Necessity of the Numerical Description of Nano- and Microplastics’ Surfaces (Plastisphere)
Cited by: 3
Author(s): Agnieszka Dąbrowska, Marianna Gniadek, Piotr Machowski
Software Mentions: 3
Published: over 3 years ago

10.1155/2020/7156165

DBT Masses Automatic Segmentation Using U-Net Neural Networks
Cited by: 11
Author(s): Xiaobo Lai, W. Yang, Ruipeng Li
Software Mentions: 3
Published: almost 5 years ago

10.1039/d0sc06057g

Real-time imaging of nanoscale electrochemical Ni etching under thermal conditions
Cited by: 9
Author(s): Shu Fen Tan, Kate Reidy, Julian Klein, Ainsley Pinkowitz, Baoming Wang, Frances M. Ross
Software Mentions: 3
Published: almost 4 years ago

10.1002/1878-0261.13041

Characterization of fragment sizes, copy number aberrations and 4‐mer end motifs in cell‐free DNA of hepatocellular carcinoma for enhanced liquid biopsy‐based cancer detection
Cited by: 10
Author(s): Chao Jin, Xiaonan Liu, Wenyuan Zheng, Liping Su, Liu Yang, Xu Guo, Xiaoming Gu, Hongping Li, Bo Xu, Gang Wang, Jing Yu, Qiong Zhang, Dan Bao, Shaogui Wan, Fei Xu, Xiaohuan Lai, Jiayun Liu, Jinliang Xing
Software Mentions: 3
Published: over 3 years ago

10.3390/s21103552

Sensing Optimum in the Raw: Leveraging the Raw-Data Imaging Capabilities of Raspberry Pi for Diagnostics Applications
Cited by: 2
Author(s): Alessandro Tonelli, Veronica Mangia, Alessandro Candiani, Francesco Pasquali, Tiziana Jessica Mangiaracina, Alessandro Grazioli, Michele Sozzi, Davide Gorni, Simona Bussolati, Annamaria Cucinotta, Giuseppina Basini, Stefano Selleri
Software Mentions: 3
Published: over 3 years ago

10.1371/journal.pcbi.1008197

Integrating structure-based machine learning and co-evolution to investigate specificity in plant sesquiterpene synthases
Cited by: 8
Author(s): Janani Durairaj, Elena Melillo, Harro J. Bouwmeester, Jules Beekwilder, Dick de Ridder, Aalt D. J. van Dijk
Software Mentions: 3
Published: over 3 years ago

10.1007/s12035-018-1377-1

Differential Methylation of H3K79 Reveals DOT1L Target Genes and Function in the Cerebellum In Vivo
Cited by: 17
Author(s): Patrick Bovio, Henriette Franz, Stefanie Heidrich, Tudor Rauleac, Fabian Kilpert, Thomas Manke, Tanja Vogel
Software Mentions: 3
Published: about 6 years ago

10.1186/s12870-019-1854-3

Arabidopsis thaliana organelles mimic the T7 phage DNA replisome with specific interactions between Twinkle protein and DNA polymerases Pol1A and Pol1B
Cited by: 15
Author(s): Stewart A. Morley, Antolín Peralta-Castro, Luis G. Brieba, Justin Miller, Kai Li Ong, Perry G. Ridge, Amanda E. Oliphant, Stephen Aldous, Brent L. Nielsen
Software Mentions: 3
Published: over 5 years ago

10.3897/CompCytogen.v12i4.31015

Pilot satellitome analysis of the model plant, Physcomitrella patens, revealed a transcribed and high-copy IGS related tandem repeat
Cited by: 20
Author(s): Ilya Kirov, Marina Gilyok, Andrey Knyazev, Igor Fesenko
Software Mentions: 3
Published: almost 6 years ago

10.3390/ijms21155248

Drug Discovery Targeting the Disorder-To-Order Transition Regions through the Conformational Diversity Mimicking and Statistical Analysis
Cited by: 5
Author(s): Insung Na, Sungwoo Choi, Sang Jun Son, Vladimir N. Uversky, Chul Geun Kim
Software Mentions: 3
Published: over 4 years ago

10.7554/eLife.00808

Condensin controls recruitment of RNA polymerase II to achieve nematode X-chromosome dosage compensation
Cited by: 159
Author(s): William S. Kruesi, Leighton J. Core, Colin T. Waters, John T. Lis, Barbara J Meyer
Software Mentions: 3
Published: over 11 years ago

10.3390/e23091165

The Problem of Fairness in Synthetic Healthcare Data
Cited by: 20
Author(s): Karan Bhanot, Qi Miao, John S. Erickson, Isabelle Guyon, Kristin P. Bennett
Software Mentions: 3
Published: about 3 years ago

10.3390/molecules25143226

Comparative Assessment of Protein Kinase Inhibitors in Public Databases and in PKIDB
Cited by: 37
Author(s): Colin Bournez, Fabrice Carles, Gautier Peyrat, Samia Aci-Sèche, Stéphane Bourg, Christophe Meyer, Pascal Bonnet
Software Mentions: 3
Published: over 4 years ago

10.1186/1752-0509-8-22

GraTeLPy: graph-theoretic linear stability analysis
Cited by: 8
Author(s): Georg R. Walther, Matthew Hartley, Maya Mincheva
Software Mentions: 3
Published: almost 11 years ago

10.1038/s41597-020-0483-x

Developing reliable hourly electricity demand data through screening and imputation
Cited by: 31
Author(s): T. Ruggles, David Farnham, Dan Tong, Ken Caldeira
Software Mentions: 3
Published: over 4 years ago

10.3389/fmed.2021.714221

Disease Severity and Prognosis of SARS-CoV-2 Infection in Hospitalized Patients Is Not Associated With Viral Load in Nasopharyngeal Swab
Cited by: 8
Author(s): Elisabetta Cocconcelli, G. Castelli, Francesco Onelia, Enrico Lavezzo, Chiara Giraudo, Nicol Bernardinello, Giulia Fichera, Davide Leoni, Marco Trevenzoli, Marina Saetta, Annamaria Cattelan, Andrea Crisanti, Paolo Spagnolo, Elisabetta Balestro
Software Mentions: 3
Published: about 3 years ago

10.1371/journal.pcbi.1007641

Realistic assumptions about spatial locations and clustering of premises matter for models of foot-and-mouth disease spread in the United States
Cited by: 2
Author(s): Stefan Sellman, Michael J. Tildesley, Christopher L. Burdett, Ryan S. Miller, Clayton Hallman, Colleen T. Webb, Uno Wennergren, Katie Portacci, Tom Lindström
Software Mentions: 3
Published: almost 5 years ago

10.1371/journal.pone.0232959

Crystal structure of Thermus thermophilus methylenetetrahydrofolate dehydrogenase and determinants of thermostability
Cited by: 7
Author(s): Fernando Maiello, Gloria Gallo, Camila Coelho, Fernanda Sucharski, Leon Hardy, Martin Würtele
Software Mentions: 3
Published: over 4 years ago

10.3389/fonc.2021.621278

Subgroup-Independent Mapping of Renal Cell Carcinoma—Machine Learning Reveals Prognostic Mitochondrial Gene Signature Beyond Histopathologic Boundaries
Cited by: 30
Author(s): André Marquardt, Antonio Giovanni Solimando, Alexander Kerscher, Max Bittrich, Charis Kalogirou, Hubert Kübler, Andreas Rosenwald, Ralf C. Bargou, Philip Kollmannsberger, Bastian Schilling, Svenja Meierjohann, Markus Krebs
Software Mentions: 3
Published: over 3 years ago

10.1038/srep11988

Exploring Host-Microbiome Interactions using an in Silico Model of Biomimetic Robots and Engineered Living Cells
Cited by: 17
Author(s): Keith C. Heyde, Warren C. Ruder
Software Mentions: 3
Published: over 9 years ago

10.1038/srep20788

Activation and inhibition of tph2 serotonergic neurons operate in tandem to influence larval zebrafish preference for light over darkness
Cited by: 27
Author(s): Ruey‐Kuang Cheng, Seetha Krishnan, Suresh Jesuthasan
Software Mentions: 3
Published: almost 9 years ago

10.7554/eLife.28023

Cell differentiation defines acute and chronic infection cell types in Staphylococcus aureus
Cited by: 53
Author(s): Juan Carlos García-Betancur, Ángel Goñi-Moreno, Thomas Horger, Melanie Schott, Malvika Sharan, Julian Eikmeier, Barbara Wohlmuth, Alma Zernecke, Knut Ohlsen, Christina Kuttler, Daniel López
Software Mentions: 3
Published: about 7 years ago

10.3389/fonc.2021.605296

Prediction of Post-hepatectomy Liver Failure in Patients With Hepatocellular Carcinoma Based on Radiomics Using Gd-EOB-DTPA-Enhanced MRI: The Liver Failure Model
Cited by: 15
Author(s): Yuyan Chen, Zelong Liu, Yun Xian Mo, Bin Li, Qian Zhou, Sui Peng, Shaoqiang Li, Ming Kuang
Software Mentions: 3
Published: over 3 years ago

10.3390/ijms21218004

MRI Radiomic Features to Predict IDH1 Mutation Status in Gliomas: A Machine Learning Approach using Gradient Tree Boosting
Cited by: 21
Author(s): Yu Sakai, Chen Yang, Shingo Kihira, Nadejda M. Tsankova, Fahad Khan, Adı́lia Hormigo, Albert Lai, Timothy F. Cloughesy, Kambiz Nael
Software Mentions: 3
Published: about 4 years ago

10.3390/s20102962

Nextmed: Automatic Imaging Segmentation, 3D Reconstruction, and 3D Model Visualization Platform Using Augmented and Virtual Reality
Cited by: 41
Author(s): Santiago González Izard, Ramiro Sánchez Torres, Óscar Alonso Plaza, Juan Antonio Juanes Méndez, Francisco José García-Peñalvo
Software Mentions: 3
Published: over 4 years ago

10.1038/srep38084

Circulating cell-free DNA, telomere length and bilirubin in the Vienna Active Ageing Study: exploratory analysis of a randomized, controlled trial
Cited by: 16
Author(s): Anela Tosevska, Bernhard Franzke, Marlene Hofmann, Immina Vierheilig, Barbara Schober-Halper, Stefan Oesen, Oliver Neubauer, Barbara Wessner, Karl‐Heinz Wagner
Software Mentions: 3
Published: almost 8 years ago

10.1038/srep40366

Lessons from temporal and spatial patterns in global use of N and P fertilizer on cropland
Cited by: 151
Author(s): A. F. Bouwman, Arthur Beusen, Luis Lassaletta, Dirk van Apeldoorn, Hans van Grinsven, J. Zhang, M. K. Van
Software Mentions: 3
Published: almost 8 years ago

10.3390/s20102937

A Safe Charging Algorithm Based on Multiple Mobile Chargers
Cited by: 5
Author(s): Wei Wang, Haoran Jing, Junhua Liao, Feng Yin, Yuan Ping, Liangyin Chen
Software Mentions: 3
Published: over 4 years ago

10.1016/j.isci.2021.102950

Comparative proteomic investigation of multiple methicillin-resistant Staphylococcus aureus strains generated through adaptive laboratory evolution
Cited by: 10
Author(s): Jordy Evan Sulaiman, Lexin Long, Long Wu, Pei‐Yuan Qian, Henry Lam
Software Mentions: 3
Published: about 3 years ago

10.1093/bioinformatics/btz921

Logomaker: beautiful sequence logos in Python
Cited by: 218
Author(s): Ammar Tareen, Justin B. Kinney
Software Mentions: 3
Published: almost 5 years ago

10.1371/journal.pone.0236958

Supply-side options to reduce land requirements of fully renewable electricity in Europe
Cited by: 15
Author(s): Tim Tröndle
Software Mentions: 3
Published: over 4 years ago

10.3390/molecules26102929

Force Field Parameters for Fe2+4S2−4 Clusters of Dihydropyrimidine Dehydrogenase, the 5-Fluorouracil Cancer Drug Deactivation Protein: A Step towards In Silico Pharmacogenomics Studies
Cited by: 1
Author(s): Maureen Bilinga Tendwa, Lorna J. Chebon, Kevin A. Lobb, Thommas M. Musyoka, Özlem Tastan Bishop
Software Mentions: 3
Published: over 3 years ago

10.1038/s41598-017-06741-8

Porcine familial adenomatous polyposis model enables systematic analysis of early events in adenoma progression
Cited by: 22
Author(s): Tatiana Flisikowska, Monika Stachowiak, Hongen Xu, Alexandra Wagner, Alejandra Hernandez-Caceres, Christine Wurmser, Carolin Perleberg, Hubert Pausch, Anna Perkowska, Konrad Fischer, Dmitrij Frishman, R. Fries, M. Świtoński, Alexander Kind, Dieter Saur, Angelika Schnieke, Krzysztof Flisikowski
Software Mentions: 3
Published: over 7 years ago

10.3390/e23081018

Multifractal Behaviors of Stock Indices and Their Ability to Improve Forecasting in a Volatility Clustering Period
Cited by: 10
Author(s): Shuwen Zhang, Fang Wen
Software Mentions: 3
Published: over 3 years ago

10.1038/s41598-017-09644-w

Fungal lifestyle reflected in serine protease repertoire
Cited by: 85
Author(s): Anna Muszewska, Marta M. Stepniewska-Dziubinska, Kamil Steczkiewicz, Julia Pawłowska, Agata Dziedzic, Krzysztof Ginalski
Software Mentions: 3
Published: over 7 years ago

10.1186/s12943-016-0554-y

Systems analysis identifies miR-29b regulation of invasiveness in melanoma
Cited by: 18
Author(s): Miles C. Andrews, Joseph Cursons, Daniel Hurley, Matthew Anaka, Jonathan Cebon, Andreas Behren, Edmund J. Crampin
Software Mentions: 3
Published: about 8 years ago

10.7554/eLife.37090

Integrated culturing, modeling and transcriptomics uncovers complex interactions and emergent behavior in a three-species synthetic gut community
Cited by: 58
Author(s): Kevin D’hoe, Stefan Vet, Karoline Faust, Frédéric Moens, Gwen Falony, Didier Gonze, Verónica Lloréns‐Rico, Lendert Gelens, Jan Danckaert, Luc De Vuyst, Jeroen Raes
Software Mentions: 3
Published: about 6 years ago

10.1093/molbev/msw083

A Recent Whole-Genome Duplication Divides Populations of a Globally Distributed Microsporidian
Cited by: 13
Author(s): Tom A. Williams, Sirintra Nakjang, Scott E. Campbell, Mark Freeman, Matthías Eydal, Karen Moore, Robert P. Hirt, T. Martin Embley, Bryony A. P. Williams
Software Mentions: 3
Published: over 8 years ago

10.1038/s41598-017-10697-0

Millisecond dynamics of BTK reveal kinome-wide conformational plasticity within the apo kinase domain
Cited by: 43
Author(s): Mohammad M. Sultan, R. Aldrin Denny, Ray Unwalla, Frank Lovering, Vijay S. Pande
Software Mentions: 3
Published: about 7 years ago

10.3390/s16030373

Estimating the Underwater Diffuse Attenuation Coefficient with a Low-Cost Instrument: The KdUINO DIY Buoy
Cited by: 29
Author(s): Raúl Bardají, Albert-Miquel Sánchez, Carine Simon, Marcel Robert Wernand, Jaume Piera
Software Mentions: 3
Published: over 8 years ago

10.1038/s41598-017-16760-0

In situ investigation of phase transformations in Ti-6Al-4V under additive manufacturing conditions combining laser melting and high-speed micro-X-ray diffraction
Cited by: 100
Author(s): Christoph Kenel, Daniel Grolimund, X. Li, Ezequiel Panepucci, Vallerie Ann Samson, Darío Ferreira Sánchez, Federica Marone, Christian Leinenbach
Software Mentions: 3
Published: almost 7 years ago

10.3389/fonc.2020.598721

Deep CNN Model Using CT Radiomics Feature Mapping Recognizes EGFR Gene Mutation Status of Lung Adenocarcinoma
Cited by: 24
Author(s): Baihua Zhang, Shouliang Qi, Pan Xu, Chen Li, Yu-Dong Yao, Wei Qian, Yubao Guan
Software Mentions: 3
Published: almost 4 years ago

10.1038/s41379-020-0640-y

Artificial intelligence assistance significantly improves Gleason grading of prostate biopsies by pathologists
Cited by: 74
Author(s): Wouter Bulten, Maschenka Balkenhol, Jean-Joël Awoumou Belinga, Américo Brilhante, Aslı Çakir, Lars Egevad, Martin Eklund, Xavier Farré, Katerina Geronatsiou, Vincent Molinié, Guilherme Martins Pereira, Paromita Roy, Günter Saile, Paulo G. O. Salles, Ewout Schaafsma, Joëlle Tschui, Anne-Marie Vos, ISUP Pathology Imagebase Expert Panel, Hester van Boven, Robert Vink, Jeroen van der Laak, Christina Hulsbergen-van der Kaa, Geert Litjens, Brett Delahunt, Hemamali Samaratunga, David J. Grignon, Andrew Evans, Daniel M. Berney, Chin-Chen Pan, Glen Kristiansen, James G. Kench, Jon Oxley, Kátia Ramos Moreira Leite, Jesse K. McKenney, Peter A. Humphrey, Samson W. Fine, Toyonori Tsuzuki, Murali Varma, Ming Zhou, Éva Compérat, David G. Bostwick, Kenneth A. Iczkowski, Cristina Magi‐Galluzzi, John R. Srigley, Hiroyuki Takahashi, Theo van der Kwast
Software Mentions: 3
Published: over 3 years ago

10.1021/acs.analchem.1c01359

Combined Metabolic and Chemical (CoMetChem) Labeling Using Stable Isotopes—a Strategy to Reveal Site-Specific Histone Acetylation and Deacetylation Rates by LC–MS
Cited by: 1
Author(s): Alienke van Pijkeren, Jörn Dietze, Alejandro Sánchez Brotons, Anna-Sophia Egger, Tim Lijster, Andrei Barcaru, Madlen Hotze, Philipp Kobler, Frank J. Dekker, Péter Horvatovich, Barbro N. Melgert, Mathias Ziegler, Kathrin Thedieck, Ines Heiland, Rainer Bischoff, Marcel Kwiatkowski
Software Mentions: 3
Published: about 3 years ago

10.17912/micropub.biology.000230

Loss of fuss in Drosophila melanogaster results in decreased locomotor activity due to an increased number of pauses.
Cited by: 1
Author(s): Mathias Raß, Svenja Oestreich, Ardi Manaj, Stephan Schneuwly
Software Mentions: 3
Published: over 4 years ago

10.1186/s12938-017-0419-7

NeoAnalysis: a Python-based toolbox for quick electrophysiological data processing and analysis
Cited by: 4
Author(s): Bo Zhang, Ji Dai, Tao Zhang
Software Mentions: 3
Published: about 7 years ago

10.7554/eLife.22152

Mapping the function of neuronal ion channels in model and experiment
Cited by: 32
Author(s): William F Podlaski, Alexander Seeholzer, Lukas N. Groschner, Gero Miesenböck, Rajnish Ranjan, Tim P. Vogels
Software Mentions: 3
Published: over 7 years ago

10.1038/s41598-021-94330-1

The expression of FLNA and CLU in PBMCs as a novel screening marker for hepatocellular carcinoma
Cited by: 13
Author(s): Rathasapa Patarat, Shoji Riku, Pattapon Kunadirek, Natthaya Chuaypen, Pisit Tangkijvanich, Apiwat Mutirangura, Charoenchai Puttipanyalears
Software Mentions: 3
Published: over 3 years ago

10.1186/s12859-020-03701-4

AdmixPipe: population analyses in Admixture for non-model organisms
Cited by: 17
Author(s): Steven M. Mussmann, Marlis R. Douglas, Tyler K. Chafin
Software Mentions: 3
Published: over 4 years ago

10.3389/fphar.2020.00187

Repositioning of Hypoglycemic Drug Linagliptin for Cancer Treatment
Cited by: 8
Author(s): Yong Li, Yiqun Li, Dengke Li, Kaiming Li, Quan Zhengyang, Ziyi Wang, Zhenxiao Sun
Software Mentions: 3
Published: over 4 years ago

10.1038/s41598-021-90102-z

Glycoproteomic analysis of the changes in protein N-glycosylation during neuronal differentiation in human-induced pluripotent stem cells and derived neuronal cells
Cited by: 6
Author(s): Kazumasa Kimura, Takumi Koizumi, Takaya Urasawa, Yuki Ohta, Daisuke Takakura, Nana Kawasaki
Software Mentions: 3
Published: over 3 years ago

10.7554/eLife.66288

Repressing Ago2 mRNA translation by Trim71 maintains pluripotency through inhibiting let-7 microRNAs
Cited by: 17
Author(s): Qiuying Liu, Xiaoli Chen, Mariah K Novak, Shaojie Zhang, Wenqian Hu
Software Mentions: 3
Published: almost 4 years ago

10.1371/journal.pcbi.1005746

A deep convolutional neural network for classification of red blood cells in sickle cell anemia
Cited by: 149
Author(s): Mengjia Xu, Dimitrios Papageorgiou, Sabia Z. Abidi, Ming Dao, Hong Zhao, George Em Karniadakis
Software Mentions: 3
Published: about 7 years ago

10.1038/s41598-018-36041-8

Characterizing early drug resistance-related events using geometric ensembles from HIV protease dynamics
Cited by: 20
Author(s): Olivier Sheik Amamuddy, Nigel T. Bishop, Özlem Tastan Bishop
Software Mentions: 3
Published: almost 6 years ago

10.7554/eLife.61312

Escape from neutralizing antibodies by SARS-CoV-2 spike protein variants
Cited by: 1,163
Author(s): Yiska Weisblum, Fabian Schmidt, Fengwen Zhang, Justin DaSilva, Daniel Poston, Julio C. C. Lorenzi, Frauke Muecksch, Magdalena Rutkowska, Hans-Heinrich Hoffmann, Eleftherios Michailidis, Christian Gaebler, Marianna Agudelo, Alice Cho, Zijun Wang, Anna Gazumyan, Melissa Cipolla, Larry L. Luchsinger, Christopher D. Hillyer, Marina Caskey, Davide F. Robbiani, Charles M. Rice, Michel C. Nussenzweig, Théodora Hatziioannou, Paul D. Bieniasz
Software Mentions: 3
Published: about 4 years ago

10.3389/fphys.2018.00787

Prediction of Mutations to Control Pathways Enabling Tumor Cell Invasion with the CoLoMoTo Interactive Notebook (Tutorial)
Cited by: 9
Author(s): Nicolas Levy, Aurélien Naldi, Céline Hernandez, Gautier Stoll, Denis Thieffry, Andreï Zinovyev, Laurence Calzone, Loı̈c Paulevé
Software Mentions: 3
Published: over 6 years ago

10.1186/s12859-017-1774-x

Repliscan: a tool for classifying replication timing regions
Cited by: 15
Author(s): Gregory J Zynda, Jawon Song, Lorenzo Concia, Emily E. Wear, Linda Hanley‐Bowdoin, William F. Thompson, Matthew Vaughn
Software Mentions: 3
Published: over 7 years ago

10.3390/md16100386

Kororamides, Convolutamines, and Indole Derivatives as Possible Tau and Dual-Specificity Kinase Inhibitors for Alzheimer’s Disease: A Computational Study
Cited by: 25
Author(s): Laura Llorach-Parés, Alfons Nonell-Canals, Conxita Àvila, Melchor Sánchez-Martínez
Software Mentions: 3
Published: about 6 years ago

10.1038/s41598-019-40432-w

Reactive centre loop dynamics and serpin specificity
Cited by: 28
Author(s): Emilia M. Marijanovic, James Fodor, Blake T. Riley, Benjamin T. Porebski, Maurício G. S. Costa, Itamar Kass, David E. Hoke, Sheena McGowan, Ashley M. Buckle
Software Mentions: 3
Published: over 5 years ago

Projects: pypi: matplotlib

Papers Mentioning matplotlib 1,045