pypi: Django | Projects | Ecosyste.ms: Papers

10.1186/s12859-017-1905-4

ADAGE signature analysis: differential expression analysis with data-defined gene sets
Cited by: 15
Author(s): Jie Tan, Matthew Huyck, Dongbo Hu, René A. Zelaya, Deborah A. Hogan, Casey S. Greene
Software Mentions: 25
Published: almost 7 years ago

10.1029/2019EA001004

Open‐Source Software Analysis Tool to Investigate Space Plasma Turbulence and Nonlinear DYNamics (ODYN)
Cited by: 6
Author(s): E. Teodorescu, Marius Echim
Software Mentions: 10
Published: over 4 years ago

10.1038/s41597-020-00638-4

AiiDA 1.0, a scalable computational infrastructure for automated reproducible workflows and data provenance
Cited by: 117
Author(s): Sebastiaan P. Huber, Spyros Zoupanos, Martin Uhrin, Leopold Talirz, Leonid Kahle, Rico Häuselmann, Dominik Gresch, Tiziano Müller, Aliaksandr V. Yakutovich, Casper Welzel Andersen, Francisco Ramirez, Carl S. Adorf, Fernando Gargiulo, Snehal Kumbhar, Elsa Passaro, Conrad Johnston, Andrius Merkys, Andrea Cepellotti, Nicolas Mounet, Nicola Marzari, Boris Kozinsky, Giovanni Pizzi
Software Mentions: 9
Published: about 4 years ago

10.1093/bioinformatics/btx738

PlanNET: homology-based predicted interactome for multiple planarian transcriptomes
Cited by: 17
Author(s): Sergio Castillo-Lara, Josep F. Abril
Software Mentions: 8
Published: almost 7 years ago

10.1186/s12864-021-07760-6

UniBind: maps of high-confidence direct TF-DNA interactions across nine species
Cited by: 31
Author(s): Rafael Riudavets Puig, Paul Boddie, Aziz Khan, Jaime A Castro-Mondragón, Anthony Mathelier
Software Mentions: 8
Published: over 3 years ago

10.1109/JTEHM.2020.2989768

Integrated Development Environment for EEG-Driven Cognitive-Neuropsychological Research
Cited by: 6
Author(s): Shoham Jacobsen, Oded Meiron, David Yoel Salomon, Nir Kraizler, Hagai Factor, Efraim Jaul, Elishai Ezra Tsur
Software Mentions: 7
Published: almost 5 years ago

10.1038/s41598-020-61645-4

The Impact of Voice Leading and Harmony on Musical Expectancy
Cited by: 3
Author(s): Leona Wall, Robert Lieck, Markus Neuwirth, Martin Rohrmeier
Software Mentions: 7
Published: over 4 years ago

10.1016/j.mec.2019.e00089

Impact framework: A python package for writing data analysis workflows to interpret microbial physiology
Cited by: 4
Author(s): Naveen Venayak, Kaushik Raj, Radhakrishnan Mahadevan
Software Mentions: 7
Published: almost 5 years ago

10.7554/eLife.13503

A Mammalian enhancer trap resource for discovering and manipulating neuronal cell types
Cited by: 50
Author(s): Yasuyuki Shima, Ken Sugino, Chris M. Hempel, Masami Shima, Praveen Taneja, James B. Bullis, Sonam Mehta, Carlos Lois, Sacha B. Nelson
Software Mentions: 7
Published: over 8 years ago

10.7717/peerj-cs.601

GrimoireLab: A toolset for software development analytics
Cited by: 16
Author(s): Santiago Dueñas, Valerio Cosentino, Jesús M. González-Barahona, Alvaro del Castillo San Félix, Daniel Izquierdo-Cortázar, Luis Cañas-Díaz, Alberto Pérez García-Plaza
Software Mentions: 6
Published: over 3 years ago

10.1186/s12859-019-2643-6

First step toward gene expression data integration: transcriptomic data acquisition with COMMAND>_
Cited by: 8
Author(s): Marco Moretto, Paolo Sonego, Ana B. Villasenõr-Altamirano, Kristof Engelen
Software Mentions: 6
Published: almost 6 years ago

10.1186/1471-2105-10-201

A-MADMAN: Annotation-based microarray data meta-analysis tool
Cited by: 35
Author(s): Andrea Bisognin, Alessandro Coppe, Francesco Ferrari, Davide Risso, Chiara Romualdi, Silvio Bicciato, Stefania Bortoluzzi
Software Mentions: 6
Published: over 15 years ago

10.1371/journal.pone.0246464

Is it feasible to detect FLOSS version release events from textual messages? A case study on Stack Overflow
Cited by: 0
Author(s): Artur Sokolovsky, Thomas Groß, Jaume Bacardit
Software Mentions: 6
Published: almost 4 years ago

10.1093/database/baab039

Automatization and self-maintenance of the O-GlcNAcome catalog: a smart scientific database
Cited by: 9
Author(s): Florian Malard, Eugenia Wulff‐Fuentes, Rex Berendt, Guillaume Didier, Stéphanie Olivier-Van Stichelen
Software Mentions: 6
Published: almost 4 years ago

10.1098/rstb.2017.0380

Geppetto: a reusable modular open platform for exploring neuroscience data and models
Cited by: 23
Author(s): Matteo Carandini, Bóris Marin, Adrián Quintana, Matt Earnshaw, Robert Court, Padraig Gleeson, Salvador Durá-Bernal, R. Angus Silver, Giovanni Idili
Software Mentions: 6
Published: about 6 years ago

10.1186/s12911-020-1046-y

Monitoring stance towards vaccination in twitter messages
Cited by: 20
Author(s): Florian Kunneman, Mattijs Lambooij, Albert Wong, Antal van den Bosch, Liesbeth Mollema
Software Mentions: 5
Published: over 4 years ago

10.3390/s21113747

Multi-Criteria Recommendation Systems to Foster Online Grocery
Cited by: 3
Author(s): Manar Mohamed Hafez, Rebeca P. Díaz Redondo, Ana Fernández Vilas, Héctor Olivera Pazó
Software Mentions: 5
Published: over 3 years ago

10.3390/s20010190

Smart & Green: An Internet-of-Things Framework for Smart Irrigation
Cited by: 40
Author(s): Nídia G. S. Campos, Atslands Rego da Rocha, Rubens Sonsol Gondim, Ticiana L. Coelho da Silva, Danielo G. Gomes
Software Mentions: 5
Published: almost 5 years ago

10.3390/s20174668

Cognitive Relevance Transform for Population Re-Targeting
Cited by: 1
Author(s): Gregor Koporec, Andrej Košir, Aleš Leonardis, Janez Perš
Software Mentions: 5
Published: about 4 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

10.3389/fninf.2014.00055

NeuronDepot: keeping your colleagues in sync by combining modern cloud storage services, the local file system, and simple web applications
Cited by: 3
Author(s): Philipp L. Rautenberg, Ajayrama Kumaraswamy, Álvaro Tejero-Cantero, Christoph Doblander, Mohammad Reza Norouzian, Kazuki Kai, Hans‐Arno Jacobsen, Hiroyuki Ai, Thomas Wachtler, Hidetoshi Ikeno
Software Mentions: 5
Published: over 10 years ago

10.1186/s12864-015-1820-x

PhosphOrtholog: a web-based tool for cross-species mapping of orthologous protein post-translational modifications
Cited by: 19
Author(s): Rima Chaudhuri, Arash Sadrieh, Nolan J. Hoffman, Benjamin L. Parker, Sean J. Humphrey, Jacqueline Stöckli, Adam P. Hill, David E. James, Jean Yee Hwa Yang
Software Mentions: 5
Published: about 9 years ago

10.1093/gigascience/giaa097

Machado: Open source genomics data integration framework
Cited by: 3
Author(s): Maurício de Alvarenga Mudadu, Adhemar Zerlotini
Software Mentions: 5
Published: about 4 years ago

10.3389/fmolb.2021.715972

Fuzzle 2.0: Ligand Binding in Natural Protein Building Blocks
Cited by: 5
Author(s): Noelia Ferruz, Florian Michel, Francisco Lobos, Steffen Schmidt, Birte Höcker
Software Mentions: 4
Published: about 3 years ago

10.1371/journal.pone.0044185

Sequencing and Characterization of Striped Venus Transcriptome Expand Resources for Clam Fishery Genetics
Cited by: 23
Author(s): Alessandro Coppe, Stefania Bortoluzzi, Giulia Murari, Ilaria A. M. Marino, Lorenzo Zane, Chiara Papetti
Software Mentions: 4
Published: about 12 years ago

10.1016/j.gpb.2018.11.002

Integrating Culture-based Antibiotic Resistance Profiles with Whole-genome Sequencing Data for 11,087 Clinical Isolates
Cited by: 8
Author(s): Valentina Galata, Cédric Christian Laczny, Christina Backes, Georg Hemmrich-Stanisak, Susanne Schmolke, André Franke, Eckart Meese, Mathias Herrmann, Lutz von Müller, Achim Plum, Rolf Müller, Cord Stähler, Andreas E. Posch
Software Mentions: 4
Published: over 5 years ago

10.1186/s12859-020-03601-7

AutoCloner: automatic homologue-specific primer design for full-gene cloning in polyploids
Cited by: 0
Author(s): Alexander Coulton, Keith J. Edwards
Software Mentions: 4
Published: over 4 years ago

10.3389/fninf.2021.713899

The EBRAINS NeuroFeatureExtract: An Online Resource for the Extraction of Neural Activity Features From Electrophysiological Data
Cited by: 2
Author(s): Luca Bologna, Roberto Smiriglia, Dario Curreri, Michele Migliore
Software Mentions: 4
Published: about 3 years ago

10.1016/j.envsoft.2020.104703

PiSCES: Pi(scine) stream community estimation system
Cited by: 3
Author(s): Mike Cyterski, Craig Barber, Mike Galvin, Rajbir Parmar, John M. Johnston, Deron Smith, Amber R. Ignatius, Lourdes Prieto, Kurt Wolfe
Software Mentions: 4
Published: over 4 years ago

10.1093/database/bau076

APADB: a database for alternative polyadenylation and microRNA regulation events
Cited by: 88
Author(s): Sören Müller, Lukas Rycak, Fabian Afonso-Grunz, Peter Winter, Adam M. Zawada, Ewa Damrath, Jessica Scheider, Juliane Schmäh, Ina Koch, Günter Kahl, Björn Rotter
Software Mentions: 4
Published: over 10 years ago

10.1093/database/baaa115

HeartBioPortal2.0: new developments and updates for genetic ancestry and cardiometabolic quantitative traits in diverse human populations
Cited by: 4
Author(s): Bohdan B. Khomtchouk, Christopher S. Nelson, Kasra A. Vand, Salvator Palmisano, Robert L. Grossman
Software Mentions: 4
Published: almost 5 years ago

10.1186/s12859-018-2526-2

Constructing a database for the relations between CNV and human genetic diseases via systematic text mining
Cited by: 15
Author(s): Xi Yang, Zhuo Song, Chengkun Wu, Wei Wang, Gen Li, Wei Zhang, Lingqian Wu, Kai Lü
Software Mentions: 4
Published: almost 6 years ago

10.1186/s12920-018-0430-2

CRlncRNA: a manually curated database of cancer-related long non-coding RNAs with experimental proof of functions on clinicopathological and molecular features
Cited by: 20
Author(s): Jun Wang, Xuan Zhang, Wen Chen, Jing Li, Changning Liu
Software Mentions: 4
Published: almost 6 years ago

10.1186/s12911-019-0750-y

A visual interactive analytic tool for filtering and summarizing large health data sets coded with hierarchical terminologies (VIADS)
Cited by: 8
Author(s): Xia Jing, Matthew Emerson, David Masters, Matthew L. Brooks, Jacob Buskirk, Nasseef Abukamail, Chang Liu, James J. Cimino, Jay H. Shubrook, Sonsoles de Lacalle, Yuchun Zhou, Vimla L. Patel
Software Mentions: 4
Published: over 5 years ago

10.1093/bioinformatics/btw417

SSBD: a database of quantitative data of spatiotemporal dynamics of biological phenomena
Cited by: 35
Author(s): Yukako Tohsato, Kenneth H. L. Ho, Koji Kyoda, Shuichi Onami
Software Mentions: 4
Published: over 8 years ago

10.1155/2014/253013

Polyglot Programming in Applications Used for Genetic Data Analysis
Cited by: 5
Author(s): Robert Nowak
Software Mentions: 4
Published: almost 11 years ago

10.1186/s13029-017-0065-2

LitDB - Keeping Track of Research Papers From Your Institute Made Simple
Cited by: 0
Author(s): Jörn Bethune, Lars Kraemer, Ingo Thomsen, Andreas Keller, David Ellinghaus, André Franke
Software Mentions: 4
Published: over 7 years ago

10.3390/vaccines8040709

Bacterial Immunogenicity Prediction by Machine Learning Methods
Cited by: 9
Author(s): Иван Димитров, Nevena Zaharieva, Irini Doytchinova
Software Mentions: 4
Published: almost 4 years ago

10.7717/peerj.5261

<i>Staphylococcus aureus</i> viewed from the perspective of 40,000+ genomes
Cited by: 57
Author(s): Robert A. Petit, Timothy D. Read
Software Mentions: 4
Published: over 6 years ago

10.7717/peerj-cs.161

An integrated platform for intuitive mathematical programming modeling using LaTeX
Cited by: 4
Author(s): Charalampos Triantafyllidis, Lazaros G. Papageorgiou
Software Mentions: 4
Published: about 6 years ago

10.1016/j.jsb.2016.02.012

Web-based volume slicer for 3D electron-microscopy data from EMDB
Cited by: 14
Author(s): José Salavert-Torres, A. Iudin, Ingvar Lagerstedt, Eduardo Sanz-García, Gerard J. Kleywegt, Ardan Patwardhan
Software Mentions: 3
Published: over 8 years ago

10.1107/S2059798321003818

<i>FragMAXapp</i>: crystallographic fragment-screening data-analysis and project-management system
Cited by: 9
Author(s): G.M.A. Lima, E. Jagudin, V. Talibov, L.S. Benz, Costantino Marullo, T. Barthel, J. Wollenhaupt, M.S. Weiss, U. Muêller
Software Mentions: 3
Published: over 3 years ago

10.3389/fninf.2018.00080

Web-Based Interfaces for Virtual C. elegans Neuron Model Definition, Network Configuration, Behavioral Experiment Definition and Experiment Results Visualization
Cited by: 1
Author(s): Gorka Epelde, Frank Morgan, Andoni Mujika, Frank Callaly, Peter Leškovský, Brian McGinley, Roberto Álvarez, Axel Blau, Finn Krewer
Software Mentions: 3
Published: almost 6 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

10.1186/s13321-021-00509-z

Flame: an open source framework for model development, hosting, and usage in production environments
Cited by: 8
Author(s): Manuel Pastor, José Carlos Gómez-Tamayo, Ferrán Sanz
Software Mentions: 3
Published: over 3 years ago

10.1186/s13326-016-0072-2

PhenoImageShare: an image annotation and query infrastructure
Cited by: 12
Author(s): Solomon Adebayo, Kenneth McLeod, Ilinca Tudose, David Osumi-Sutherland, Tony Burdett, Richard Baldock, Albert Burger, Helen Parkinson
Software Mentions: 3
Published: over 8 years ago

10.1371/journal.pcbi.1006542

Eleven quick tips to build a usable REST API for life sciences
Cited by: 17
Author(s): Aleksandra Tarkowska, Denise Carvalho-Silva, Charles E. Cook, E. B. Turner, Alex Bateman, Andy Yates
Software Mentions: 3
Published: almost 6 years ago

10.1016/j.jbc.2021.100956

OdoriFy: A conglomerate of artificial intelligence–driven prediction engines for olfactory decoding
Cited by: 12
Author(s): Ria Gupta, Aayushi Mittal, V. P. Agrawal, Samarth Gupta, Kavya Gupta, Rishi Raj Jain, Prakriti Garg, Sanjay Kumar Mohanty, Riya Sogani, Harshit Singh Chhabra, Vishakha Gautam, Tripti Mishra, Debarka Sengupta, Gaurav Ahuja
Software Mentions: 3
Published: over 3 years ago

10.1093/database/baz060

ResMarkerDB: a database of biomarkers of response to antibody therapy in breast and colorectal cancer
Cited by: 10
Author(s): Judith Pérez-Granado, Janet Piñero, Laura I. Furlong
Software Mentions: 3
Published: almost 6 years ago

10.1089/crispr.2020.0022

Deconvolution of Complex DNA Repair (DECODR): Establishing a Novel Deconvolution Algorithm for Comprehensive Analysis of CRISPR-Edited Sanger Sequencing Data
Cited by: 39
Author(s): Kevin Bloh, Rohan Kanchana, Pawel Bialk, Kelly Banas, Zugui Zhang, Byung-Chun Yoo, Eric B. Kmiec
Software Mentions: 3
Published: almost 4 years ago

10.1186/1471-2164-13-507

Surviving in a toxic world: transcriptomics and gene expression profiling in response to environmental pollution in the critically endangered European eel
Cited by: 67
Author(s): J. M. Pujolar, Ilaria A. M. Marino, Massimo Milan, Alessandro Coppe, Grégory E. Maes, Fabrizio Capoccioni, Eleonora Ciccotti, Lieven Bervoets, Adrian Covaci, Claude Belpaire, Gordon Cramb, Tomaso Patarnello, Luca Bargelloni, Stefania Bortoluzzi, Lorenzo Zane
Software Mentions: 3
Published: almost 13 years ago

10.1186/s12859-017-1680-2

CircularLogo: A lightweight web application to visualize intra-motif dependencies
Cited by: 5
Author(s): Zhenqing Ye, Tao Ma, Michael Kalmbach, Surendra Dasari, Jean Pierre A. Kocher, Liguo Wang
Software Mentions: 3
Published: over 7 years ago

10.3390/metabo10100393

BALSAM—An Interactive Online Platform for Breath Analysis, Visualization and Classification
Cited by: 5
Author(s): Peter Weber, Josch Pauling, Markus List, Jan Baumbach
Software Mentions: 3
Published: about 4 years ago

10.1093/gigascience/gix099

An architecture for genomics analysis in a clinical setting using Galaxy and Docker
Cited by: 9
Author(s): William Digan, Hector Countouris, Marc Barritault, David Baudoin, Pierre Laurent‐Puig, Hélène Blons, Anita Burgun, Bastien Rance
Software Mentions: 3
Published: about 7 years ago

10.7554/eLife.65376

A unified platform to manage, share, and archive morphological and functional data in insect neuroscience
Cited by: 20
Author(s): Stanley Heinze, Basil el Jundi, Bente Gunnveig Berg, Uwe Homberg, Randolf Menzel, Keram Pfeiffer, Ronja Hensgen, Frederick Zittrell, Marie Dacke, Eric J. Warrant, Gerit Pfuhl, Jürgen Rybak, Kevin Tedore
Software Mentions: 3
Published: about 3 years ago

10.1371/journal.pcbi.1005520

Mendel,MD: A user-friendly open-source web tool for analyzing WES and WGS in the diagnosis of patients with Mendelian disorders
Cited by: 9
Author(s): Raony G C C L Cardenas, Natália Duarte Linhares, Raquel L. Ferreira, Sérgio D.J. Pena
Software Mentions: 3
Published: over 7 years ago

10.1038/s41598-018-20232-4

Lnc2Catlas: an atlas of long noncoding RNAs associated with risk of cancers
Cited by: 25
Author(s): Chao Ren, Gaole An, Chenghui Zhao, Zhangyi Ouyang, Xiaochen Bo, Wenjie Shu
Software Mentions: 3
Published: almost 7 years ago

10.1186/s12870-020-02659-y

Database: web application for visualization of the cumulated RNAseq data against the salicylic acid (SA) and methyl jasmonate (MeJA) treatment of Arabidopsis thaliana
Cited by: 2
Author(s): Dong U Woo, Ho Hwi Jeon, Halim Park, Jin Hwa Park, Yejin Lee, Yang-Jae Kang
Software Mentions: 3
Published: about 4 years ago

10.1186/s12889-015-1358-5

Evaluation of the impact of a mobile health system on adherence to antenatal and postnatal care and prevention of mother-to-child transmission of HIV programs in Kenya
Cited by: 52
Author(s): Ivy Mushamiri, Chibulu Luo, Casey Iiams-Hauser, Yanis Ben Amor
Software Mentions: 3
Published: almost 10 years ago

10.1186/s12984-020-00742-x

Traumatic brain injury neuroelectrochemical monitoring: behind-the-ear micro-instrument and cloud application
Cited by: 3
Author(s): Momen Kamal Tageldeen, Sally A. N. Gowers, Chi Leng Leong, Martyn G. Boutelle, Emmanuel M. Drakakis
Software Mentions: 3
Published: about 4 years ago

10.1186/s12911-019-0844-6

TASKA: A modular task management system to support health research studies
Cited by: 7
Author(s): João Rafael Almeida, Rosa Gini, Giuseppe Roberto, Peter R. Rijnbeek, José Luís Oliveira
Software Mentions: 3
Published: over 5 years ago

10.1093/bioinformatics/btaa928

BiasAway: command-line and web server to generate nucleotide composition-matched DNA background sequences
Cited by: 14
Author(s): Aziz Khan, Rafael Riudavets Puig, Paul Boddie, Anthony Mathelier
Software Mentions: 3
Published: about 4 years ago

10.1186/s13023-021-01916-z

PhenoDB, GeneMatcher and VariantMatcher, tools for analysis and sharing of sequence data
Cited by: 20
Author(s): Elizabeth Wohler, Renan Paulo Martin, Sean Griffith, Eliete da S Rodrigues, Corina Antonescu, Jennifer E. Posey, Zeynep Coban‐Akdemir, Shalini N. Jhangiani, Kimberly F. Doheny, James R. Lupski, David Valle, Ada Hamosh, Nara Sobreira
Software Mentions: 2
Published: about 3 years ago

10.1186/s12859-020-03762-5

Moving forward through the in silico modeling of tuberculosis: a further step with UISS-TB
Cited by: 10
Author(s): Giulia Russo, Giuseppe Sgroi, Giuseppe Alessandro Parasiliti Palumbo, Marzio Pennisi, Miguel A. Juárez, Père-Joan Cardona, Santo Motta, K. Barry Walker, Epifanio Fichera, Marco Viceconti, Francesco Pappalardo
Software Mentions: 2
Published: almost 4 years ago

10.1186/s12859-018-2016-6

BRCA-Pathway: a structural integration and visualization system of TCGA breast cancer data on KEGG pathways
Cited by: 18
Author(s): In-Young Kim, Saemi Choi, Sun Kim
Software Mentions: 2
Published: almost 7 years ago

10.1186/s12859-018-2082-9

DecoFungi: a web application for automatic characterisation of dye decolorisation in fungal strains
Cited by: 3
Author(s): César Domínguez, Jónathan Heras, Eloy Mata, Vico Pascual
Software Mentions: 2
Published: over 6 years ago

10.1186/s12859-019-3147-0

Annot: a Django-based sample, reagent, and experiment metadata tracking system
Cited by: 1
Author(s): Elmar Bucher, Cheryl J. Claunch, Derrick Hee, Rebecca Smith, Kaylyn L. Devlin, Wallace Thompson, James E. Korkola, Laura M. Heiser
Software Mentions: 2
Published: about 5 years ago

10.1186/s12859-017-1722-9

SBMLmod: a Python-based web application and web service for efficient data integration and model simulation
Cited by: 5
Author(s): Sascha Schäuble, Anne-Kristin Stavrum, Mathias Bockwoldt, Pål Puntervoll, Ines Heiland
Software Mentions: 2
Published: over 7 years ago

10.1186/1471-2148-9-108

PhyloExplorer: a web server to validate, explore and query phylogenetic trees
Cited by: 18
Author(s): Vincent Ranwez, Nicolas Clairon, Frédéric Delsuc, Saeed Pourali, Nicolas Auberval, Sorel Diser, Vincent Berry
Software Mentions: 2
Published: almost 16 years ago

10.1186/1471-2164-11-635

Sequencing, de novo annotation and analysis of the first Anguilla anguilla transcriptome: EeelBase opens new perspectives for the study of the critically endangered european eel
Cited by: 85
Author(s): Alessandro Coppe, J. M. Pujolar, Grégory E. Maes, Peter Larsen, Michael Møller Hansen, Louis Bernatchez, Lorenzo Zane, Stefania Bortoluzzi
Software Mentions: 2
Published: almost 14 years ago

10.1186/1471-2164-15-371

A comprehensive assessment of the transcriptome of cork oak (Quercus suber) through EST sequencing
Cited by: 37
Author(s): José B. Pereira-Leal, Isabel A. Abreu, Cláudia S. Alabaça, Maria Helena Almeida, Paulo Almeida, Tânia Almeida, Isabel Amorim, Susana de Sousa Araújo, Herlânder Azevedo, Aleix Badia, Dora Batista, Andreas Böhn, Tiago Capote, Isabel Carrasquinho, Inês Chaves, Ana Cristina Coelho, María José Costa, Rita Costa, A. Cravador, Conceição Egas, Carlos Faro, Ana Margarida Fortes, Ana S. Fortunato, Maria João Gaspar, Sónia Gonçalves, José Graça, M. Horta, Vera Inácio, José Leitão, Teresa Lino-Neto, Liliana Marum, José Matos, Diogo Mendonça, Andreia Miguel, Celia María Gonzalo Miguel, Leonor Morais-Cecílio, Isabel Neves, Filomena Nóbrega, Maria Margarida Oliveira, Rute Oliveira, M. S. Pais, Jorge A P Paiva, Octávio S. Paulo, Miguel Pinheiro, João Raimundo, José C. Ramalho, Ana Isabel Ribeiro, Teresa Ribeiro, Margarida Rocheta, Ana Isabel Rodrigues, José Carlos Rodrígues, Nelson J. M. Saibo, Tatiana Santo, Ana Clara Santos, Paula Sá–Pereira, Mónica Sebastiana, Fernanda Simões, Rómulo Sacramento Sobral, R. M. Tavares, Rita Teresa Teixeira, Carolina Varela, Manuela Veloso, Cândido Pinto Ricardo
Software Mentions: 2
Published: almost 11 years ago

10.1186/s12913-021-06082-3

Impact of mhealth messages and environmental cues on hand hygiene practice among healthcare workers in the greater Kampala metropolitan area, Uganda: study protocol for a cluster randomized trial
Cited by: 4
Author(s): Richard K. Mugambe, Jane Sembuche Mselle, Tonny Ssekamatte, Moses Ntanda, John Bosco Isunju, Solomon Tsebeni Wafula, Winnifred K. Kansiime, P. Isubikalu, David Katwere Ssemwanga, Habib Yakubu, Christine L. Moe
Software Mentions: 2
Published: almost 4 years ago

10.1186/1756-0500-4-121

mmView: a web-based viewer of the mmCIF format
Cited by: 0
Author(s): Petr Čech, Daniel Svozil
Software Mentions: 2
Published: over 13 years ago

10.1093/bioinformatics/btaa072

atomium—a Python structure parser
Cited by: 12
Author(s): Sam M. Ireland, Andrew C.R. Martin
Software Mentions: 2
Published: over 4 years ago

10.1186/s40708-020-00103-3

An open-source framework for neuroscience metadata management applied to digital reconstructions of neuronal morphology
Cited by: 14
Author(s): Kayvan Bijari, Masood A. Akram, Giorgio A. Ascoli
Software Mentions: 2
Published: over 4 years ago

10.3390/metabo5030431

Analysis of Metabolomics Datasets with High-Performance Computing and Metabolite Atlases
Cited by: 50
Author(s): Y. Yao, Terence Sun, Tony Wang, Oliver Ruebel, Trent Northen, Benjamin P. Bowen
Software Mentions: 2
Published: over 9 years ago

10.1007/s11032-015-0430-2

Orphan Crops Browser: a bridge between model and orphan crops
Cited by: 18
Author(s): Claire Lessa Alvim Kamei, Edouard Severing, Annemarie Dechesne, Heleen Furrer, O. Dolstra, Luisa M. Trindade
Software Mentions: 2
Published: almost 9 years ago

10.1371/journal.pcbi.1005128

Ten Simple Rules for Developing Public Biological Databases
Cited by: 25
Author(s): Mohamed Helmy, Alexander Crits-Christoph, Gary D. Bader
Software Mentions: 2
Published: almost 8 years ago

10.1371/journal.pone.0252843

Exploring daily time-use patterns: ATUS-X data extractor and online diary visualization tool
Cited by: 5
Author(s): Kamila Kolpashnikova, Sarah Flood, Oriel Sullivan, Liana C. Sayer, Ekaterina Hertog, Muzhi Zhou, Man-Yee Kan, Jooyeoun Suh, Jonathan Gershuny
Software Mentions: 2
Published: over 3 years ago

10.1371/journal.pone.0134273

JMS: An Open Source Workflow Management System and Web-Based Cluster Front-End for High Performance Computing
Cited by: 13
Author(s): David K. Brown, David L. Penkler, Thommas M. Musyoka, Özlem Tastan Bishop
Software Mentions: 2
Published: about 9 years ago

10.1371/journal.pone.0162801

ePGA: A Web-Based Information System for Translational Pharmacogenomics
Cited by: 12
Author(s): Kleanthi Lakiotaki, Evgenia Kartsaki, Alexandros Kanterakis, Θεοδώρα Κάτσιλα, George P. Patrinos, George Potamias
Software Mentions: 2
Published: about 8 years ago

10.1371/journal.pone.0210705

Potential off-target effects of beta-blockers on gut hormone receptors: In silico study including GUT-DOCK—A web service for small-molecule docking
Cited by: 12
Author(s): Paweł Pasznik, Ewelina Rutkowska, Szymon Niewieczerzał, Judyta Cielecka‐Piontek, Dorota Latek
Software Mentions: 2
Published: almost 6 years ago

10.1093/database/bax073

An online analytical processing multi-dimensional data warehouse for malaria data
Cited by: 2
Author(s): Samsul Arifin, Gregory R. Madey, Alexander Vyushkov, Benoit Raybaud, Thomas R. Burkot, Frank H. Collins
Software Mentions: 2
Published: almost 8 years ago

10.1093/database/bay087

MetaHCR: a web-enabled metagenome data management system for hydrocarbon resources
Cited by: 1
Author(s): Peter C. Marks, Marc B. Bigler, Eric Alsop, Adrien Vigneron, Bart P. Lomans, Renato De Paula, Brett Geissler, Nicolas Tsesmetzis
Software Mentions: 2
Published: almost 7 years ago

10.1093/database/baab001

InSexBase: an annotated genomic resource of sex chromosomes and sex-biased genes in insects
Cited by: 2
Author(s): X I Chen, Mei Yang, Mengyao Chen, Jing Dong, Yi He, Feiling Liu, Kang He, Fēi Li
Software Mentions: 2
Published: almost 4 years ago

10.1093/database/baz149

WormQTL2: an interactive platform for systems genetics in Caenorhabditis elegans
Cited by: 34
Author(s): L. Basten Snoek, M.G. Sterken, Margi Hartanto, Albert-Jan van Zuilichem, J.E. Kammenga, Dick de Ridder, Harm Nijveen
Software Mentions: 2
Published: almost 5 years ago

10.1093/database/bay118

RTPDB: a database providing associations between genetic variation or expression and cancer prognosis with radiotherapy-based treatment
Cited by: 3
Author(s): Chengdong Zhang, Yuan Yang, Huanhuan Chen, Ting Zhang, Qiang Wang, Yuan Liang, Liang Zhang, Yan Zhou
Software Mentions: 2
Published: almost 7 years ago

10.3389/fdata.2021.663410

Data Ecosystems for Scientific Experiments: Managing Combustion Experiments and Simulation Analyses in Chemical Engineering
Cited by: 5
Author(s): Edoardo Ramalli, Gabriele Scalia, Barbara Pernici, Alessandro Stagni, Alberto Cuoci, Tiziano Faravelli
Software Mentions: 2
Published: about 3 years ago

10.3389/fimmu.2019.02820

Detection of Enriched T Cell Epitope Specificity in Full T Cell Receptor Sequence Repertoires
Cited by: 96
Author(s): Sofie Gielis, Pieter Moris, Wout Bittremieux, Nicolas De Neuter, Benson Ogunjimi, Kris Laukens, Pieter Meysman
Software Mentions: 2
Published: almost 5 years ago

10.1080/16549716.2018.1517930

Development of mWellcare: an mHealth intervention for integrated management of hypertension and diabetes in low-resource settings
Cited by: 29
Author(s): Devraj Jindal, Priti Gupta, Dilip Kumar Jha, Vamadevan S. Ajay, Shifalika Goenka, Pramod Jacob, Kriti Mehrotra, Pablo Perel, Jonathan Nyong, Ambuj Roy, Nikhil Tandon, Dorairaj Prabhakaran, Vikram Patel
Software Mentions: 2
Published: almost 7 years ago

10.1016/j.heliyon.2019.e02622

Auto-assessment tools for mechanical computer aided design education
Cited by: 9
Author(s): Kaur Jaakma, Panu Kiviluoma
Software Mentions: 2
Published: about 5 years ago

10.1186/s13321-018-0289-4

HAMdb: a database of human autophagy modulators with specific pathway and disease information
Cited by: 36
Author(s): Ningning Wang, Jie Dong, Lin Zhang, Defang Ouyang, Yan Cheng, Alex F. Chen, Aiping Lü, Dong‐Sheng Cao
Software Mentions: 2
Published: over 6 years ago

10.1038/s41598-020-61508-y

Hepamine - A Liver Disease Microarray Database, Visualization Platform and Data-Mining Resource
Cited by: 5
Author(s): Timo Itzel, M Neubauer, Matthias Ebert, Matthias Evert, Andreas Teufel
Software Mentions: 2
Published: over 4 years ago

10.3390/s17051173

Eyes of Things
Cited by: 17
Author(s): Oscar Deniz, Noelia Vállez, José Luís Espinosa-Aranda, Jose M. Rico-Saavedra, Javier Parra-Patino, Gloria Bueno, David Moloney, Alireza Dehghani, Aubrey Dunne, Alain Pagani, Stephan Krauß, Ruben Reiser, Martin Waeny, Matteo Sorci, Tim Llewellynn, Christian Fedorczak, Thierry Larmoire, Marco Herbst, Andre Seirafi, Kasra Seirafi
Software Mentions: 2
Published: over 7 years ago

10.3390/s18051622

A Multimodal Deep Log-Based User Experience (UX) Platform for UX Evaluation
Cited by: 24
Author(s): Jamil Hussain, Wajahat Ali Khan, Tae Ho Hur, Hafiz Syed Muhammad Bilal, Jae Hun Bang, Anees Ul Hassan, Muhammad Afzal, Sungyoung Lee
Software Mentions: 2
Published: over 6 years ago

10.3390/s21051707

ZARATAMAP: Noise Characterization in the Scope of a Smart City through a Low Cost and Mobile Electronic Embedded System
Cited by: 5
Author(s): Unai Hernández-Jayo, Amaia Goñi
Software Mentions: 2
Published: over 3 years ago

10.1186/1751-0473-6-9

LimsPortal and BonsaiLIMS: development of a lab information management system for translational medicine
Cited by: 6
Author(s): Timothy G. Bath, Selçuk Bozdag, Vackar Afzal, Daniel Crowther
Software Mentions: 2
Published: over 13 years ago

10.3390/ijerph110100749

Adaptive Tele-Therapies Based on Serious Games for Health for People with Time-Management and Organisational Problems: Preliminary Results
Cited by: 20
Author(s): Maite Frutos-Pascual, Begoña García Zapirain, Amaia Méndez Zorrilla
Software Mentions: 2
Published: almost 11 years ago

10.7554/eLife.09960

Hippocampome.org: a knowledge base of neuron types in the rodent hippocampus
Cited by: 116
Author(s): Diek W. Wheeler, Charise M. White, Colin Rees, Alexander O. Komendantov, D. R. Hamilton, Giorgio A. Ascoli
Software Mentions: 2
Published: about 9 years ago

10.1186/s13023-017-0686-1

A web-based, patient driven registry for Angelman syndrome: the global Angelman syndrome registry
Cited by: 14
Author(s): Kathryn R. Napier, Megan Tones, Chloe Simons, Helen Heussler, Adam Hunter, Meagan Cross, M. Bellgard
Software Mentions: 2
Published: over 7 years ago

Projects: pypi: Django

Papers Mentioning Django 155