pypi: table | Projects | Ecosyste.ms: Papers

10.1371/journal.pcbi.1006242

Phylogeny-corrected identification of microbial gene families relevant to human gut colonization
Cited by: 29
Author(s): Patrick H. Bradley, Stephen Nayfach, Katherine S. Pollard
Software Mentions: 27
Published: over 6 years ago

10.3390/ani9070417

Talking to Dogs: Companion Animal-Directed Speech in a Stress Test
Cited by: 9
Author(s): Raffaela Lesch, Kurt Kotrschal, Iris Schöberl, Andrea Beetz, Judith Solomon, W. Tecumseh Fitch
Software Mentions: 25
Published: over 5 years ago

10.1186/s13059-020-02100-5

Knowledge-primed neural networks enable biologically interpretable deep learning on single-cell sequencing data
Cited by: 56
Author(s): Nikolaus Fortelny, Christoph Bock
Software Mentions: 20
Published: over 4 years ago

10.1371/journal.pone.0247002

Chainchecker: An application to visualise and explore transmission chains for Ebola virus disease
Cited by: 2
Author(s): Katy A. M. Gaythorpe, Aaron Morris, Natsuko Imai, Miles Stewart, Jeffrey S. Freeman, Mary J. Choi
Software Mentions: 19
Published: almost 4 years ago

10.18632/aging.103499

Multi-omics network analysis reveals distinct stages in the human aging progression in epidermal tissue
Cited by: 16
Author(s): Nicholas Holzscheck, Jörn Söhle, Boris Kristof, Elke Grönniger, Stefan Gallinat, Horst Wenck, Marc Winnefeld, Cassandra Falckenhayn, Lars Kaderali
Software Mentions: 18
Published: over 4 years ago

10.1186/s12859-018-2351-7

wTO: an R package for computing weighted topological overlap and a consensus network with integrated visualization tool
Cited by: 36
Author(s): Deisy Morselli Gysi, André Voigt, Tiago de Miranda Fragoso, Eivind Almaas, Katja Nowick
Software Mentions: 17
Published: about 6 years ago

10.12688/wellcomeopenres.16458.2

MethylDetectR: a software for methylation-based health profiling
Cited by: 14
Author(s): Robert F. Hillary, Riccardo E. Marioni
Software Mentions: 17
Published: over 3 years ago

10.1073/pnas.2006024117

Diel variability of methane emissions from lakes
Cited by: 46
Author(s): Anna Sieczko, Nguyen Thanh Duc, Jonathan Schenk, Gustav Pajala, David Rudberg, Henrique O. Sawakuchi, David Bastviken
Software Mentions: 17
Published: over 4 years ago

10.1186/s13007-018-0376-6

PhenoFly Planning Tool: flight planning for high-resolution optical remote sensing with unmanned areal systems
Cited by: 43
Author(s): Lukas Roth, Andreas Hund, Helge Aasen
Software Mentions: 15
Published: almost 6 years ago

10.1371/journal.pgen.1009538

Transcriptome-wide investigation of stop codon readthrough in Saccharomyces cerevisiae
Cited by: 16
Author(s): Kotchaphorn Mangkalaphiban, Feng He, Robin Ganesan, Chan Wu, Richard E. Baker, Allan Jacobson
Software Mentions: 15
Published: over 3 years ago

10.1371/journal.pcbi.1005158

Machine Learning for Characterization of Insect Vector Feeding
Cited by: 25
Author(s): Denis S. Willett, Justin George, Nora S. Willett, Lukasz L. Stelinski, Stephen L. Lapointe
Software Mentions: 14
Published: about 8 years ago

10.7554/eLife.61980

Metabolomic profiling of rare cell populations isolated by flow cytometry from tissues
Cited by: 43
Author(s): Andrew W. DeVilbiss, Zhiyu Zhao, Misty S. Martin-Sandoval, Jessalyn M. Ubellacker, Alpaslan Tasdogan, Michalis Agathocleous, Thomas P. Mathews, Sean J. Morrison
Software Mentions: 13
Published: almost 4 years ago

10.1371/journal.pone.0212956

Enhanced in vivo-imaging in medaka by optimized anaesthesia, fluorescent protein selection and removal of pigmentation
Cited by: 24
Author(s): Colin Lischik, Leonie Adelmann, Joachim Wittbrodt
Software Mentions: 13
Published: over 5 years ago

10.7554/eLife.62587

Selfing is the safest sex for Caenorhabditis tropicalis
Cited by: 30
Author(s): Luke M. Noble, John G Yuen, Lewis Stevens, Nicolas Moya, Riaad Persaud, Marc Moscatelli, Jacqueline L. Jackson, Gaotian Zhang, Rojin Chitrakar, L. Ryan Baugh, Christian Braendle, Erik C. Andersen, Hannah S. Seidel, Matthew V. Rockman
Software Mentions: 13
Published: almost 4 years ago

10.7554/eLife.49064

Stepwise polarisation of developing bilayered epidermis is mediated by aPKC and E-cadherin in zebrafish
Cited by: 10
Author(s): Prateek Arora, Shivali Dongre, Renuka Raman, Mahendra Sonawane
Software Mentions: 11
Published: almost 5 years ago

10.7717/peerj.10264

MutRank: an R shiny web-application for exploratory targeted mutual rank-based coexpression analyses integrated with user-provided supporting information
Cited by: 6
Author(s): Elly Poretsky, Alisa Huffaker
Software Mentions: 10
Published: about 4 years ago

10.1371/journal.pone.0216723

A metadata approach to evaluate the state of ocean knowledge: Strengths, limitations, and application to Mexico
Cited by: 10
Author(s): Juliano Palacios‐Abrantes, Andrés M. Cisneros‐Montemayor, Miguel Á. Cisneros-Mata, Laura Rodríguez, Francisco Arreguı́n-Sánchez, Verónica Aguilar, Santiago Domínguez-Sánchez, Stuart Fulton, Raquel López-Sagástegui, Héctor Reyes‐Bonilla, Rocío Rivera-Campos, Silvia Salas, Nuno Simões, William W. L. Cheung
Software Mentions: 10
Published: over 5 years ago

10.1186/s12859-017-1651-7

Zipper plot: visualizing transcriptional activity of genomic regions
Cited by: 5
Author(s): Francisco Avila Cobos, Jasper Anckaert, Pieter-Jan Volders, Celine Everaert, Dries Rombaut, Jo Vandesompele, Katleen De Preter, Pieter Mestdagh
Software Mentions: 9
Published: over 7 years ago

10.3758/s13414-018-1538-3

Bottom-up attention capture with distractor and target singletons defined in the same (color) dimension is not a matter of feature uncertainty
Cited by: 11
Author(s): Hanna Weichselbaum, Ulrich Ansorge
Software Mentions: 9
Published: over 6 years ago

10.1371/journal.pcbi.1008126

Ten simple rules to power drug discovery with data science
Cited by: 10
Author(s): Enrico Ferrero, Sophie Brachat, Jeremy L. Jenkins, Philippe Marc, Peter Skewes-Cox, Robert C. Altshuler, Caroline Gubser Keller, Audrey Kauffmann, Erik K Sassaman, Jason M. Laramie, Birgit Schoeberl, Mark Borowsky, Nikolaus Stiefl
Software Mentions: 9
Published: about 4 years ago

10.1016/S2542-5196(21)00030-9

Identifying urban hotspots of dengue, chikungunya, and Zika transmission in Mexico to support risk stratification efforts: a spatial analysis
Cited by: 28
Author(s): Felipe Dzul-Manzanilla, Fabián Correa-Morales, Azael Che-Mendoza, Jorge Palacio-Vargas, Gustavo Sánchez-Tejeda, Jesús Felipe González-Roldán, Hugo López‐Gatell, Adriana E. Flores-Suárez, Héctor Gómez–Dantés, Giovanini Evelim Coelho, Haroldo Sergio da Silva Bezerra, Norma Pavía-Ruz, Audrey Lenhart, Pablo Manrique-Saide, Gonzalo M. Vázquez-Prokopec
Software Mentions: 8
Published: over 3 years ago

10.1371/journal.pone.0176663

Comparing multi-criteria decision analysis and integrated assessment to support long-term water supply planning
Cited by: 20
Author(s): Lisa Scholten, Max Maurer, Judit Lienert
Software Mentions: 8
Published: over 7 years ago

10.1371/journal.pone.0211692

The impact of bipedal mechanical loading history on longitudinal long bone growth
Cited by: 7
Author(s): A. D. Foster
Software Mentions: 7
Published: almost 6 years ago

10.1371/journal.pone.0255531

No effect of ‘watching eyes’: An attempted replication and extension investigating individual differences
Cited by: 5
Author(s): Amanda Rotella, Adam Maxwell Sparks, Sandeep Mishra, Pat Barclay
Software Mentions: 7
Published: about 3 years ago

10.1186/s13059-021-02321-2

Identification of X-chromosomal genes that drive sex differences in embryonic stem cells through a hierarchical CRISPR screening approach
Cited by: 23
Author(s): Oriana Genolet, Anna A. Monaco, Ilona Dunkel, Michael Boettcher, Edda G. Schulz
Software Mentions: 7
Published: over 3 years ago

10.1534/g3.115.023739

argyle: An R Package for Analysis of Illumina Genotyping Arrays
Cited by: 34
Author(s): Andrew P. Morgan
Software Mentions: 7
Published: almost 9 years ago

10.1186/s13148-020-0821-z

DNA methylation-driven EMT is a common mechanism of resistance to various therapeutic agents in cancer
Cited by: 49
Author(s): Eva Galle, Bernard Thienpont, Sarah Cappuyns, Tom Venken, Pieter Busschaert, Matthias Van Haele, Éric Van Cutsem, Tania Roskams, Jos van Pelt, Chris Verslype, Jeroen Dekervel, Diether Lambrechts
Software Mentions: 7
Published: almost 5 years ago

10.3389/fmicb.2019.01637

Characterization of Distinct CyanoHABs-Related Modules in Microbial Recurrent Association Network
Cited by: 30
Author(s): Seong-Jun Chun, Yingshun Cui, Chang‐Soo Lee, A Ra Cho, Kiwoon Baek, Jae‐Suk Choi, So-Ra Ko, Hyung-Gwan Lee, Seungwoo Hwang, Hee‐Mock Oh, Chi‐Yong Ahn
Software Mentions: 6
Published: over 5 years ago

10.1371/journal.pone.0237881

Identification of key odorants in honeysuckle by headspace-solid phase microextraction and solvent-assisted flavour evaporation with gas chromatography-mass spectrometry and gas chromatograph-olfactometry in combination with chemometrics
Cited by: 6
Author(s): Keran Su, Xin Zhang, Shao-Quan Liu, LiHui Jia, Benjamin Lassabliere, Kim Huey Ee, Aileen Pua, Rui Min Vivian Goh, Jingcan Sun, Bin Yu, XiaoXue Hu
Software Mentions: 6
Published: over 4 years ago

10.1038/s41419-020-02971-3

CDK9 activity is critical for maintaining MDM4 overexpression in tumor cells
Cited by: 20
Author(s): Monika Štětková, Kateřina Growková, Petr Fojtík, Barbora Valčíková, Veronika Palušová, Amandine Verlande, Radek Jorda, Vladimı́r Kryštof, Václav Hejret, Panagiotis Alexiou, Vladimír Rotrekl, Stjepan Uldrijan
Software Mentions: 5
Published: about 4 years ago

10.3390/cells9020387

Separated Siamese Twins: Intronic Small Nucleolar RNAs and Matched Host Genes May be Altered in Conjunction or Separately in Multiple Cancer Types
Cited by: 7
Author(s): Marianna Penzo, Rosanna Clima, Davide Treré, Lorenzo Montanaro
Software Mentions: 4
Published: almost 5 years ago

10.3390/cancers13153680

PlasmiR: A Manual Collection of Circulating microRNAs of Prognostic and Diagnostic Value
Cited by: 5
Author(s): Spyros Tastsoglou, Marios Miliotis, Ioannis Kavakiotis, Αθανάσιος Αλεξίου, Eleni C. Gkotsi, Anastasia Lambropoulou, Vasileios Lygnos, Vasiliki Kotsira, Vasileios Maroulis, Dimitrios Zisis, Giorgos Skoufos, Artemis G. Hatzigeorgiou
Software Mentions: 4
Published: over 3 years ago

10.1038/s42003-019-0442-2

TRAV1-2+ CD8+ T-cells including oligoconal expansions of MAIT cells are enriched in the airways in human tuberculosis
Cited by: 54
Author(s): Emily Wong, Marielle C. Gold, Erin W. Meermeier, Bongiwe Z. Xulu, Sharon Khuzwayo, Zuri A. Sullivan, Eisa Mahyari, Zoe Rogers, Henrik N. Kløverpris, Prabhat Kumar Sharma, Aneta Worley, Umesh Lalloo, Prinita Baijnath, Anish Ambaram, Leon Naidoo, Moosa Suleman, Rajhmun Madansein, James E. McLaren, Kristin Ladell, Kelly L. Miners, David A. Price, Samuel M. Behar, Morten Nielsen, Victoria Kasprowicz, Alasdair Leslie, William R. Bishai, Thumbi Ndung’u, David Lewinsohn
Software Mentions: 4
Published: over 5 years ago

10.1038/s41598-018-37269-0

Efficient curation of genebanks using next generation sequencing reveals substantial duplication of germplasm accessions
Cited by: 67
Author(s): Narinder Singh, Shuangye Wu, W. J. Raupp, Sunish K. Sehgal, Sanu Arora, Vijay K. Tiwari, Prashant Vikram, Sukhwinder Singh, Parveen Chhuneja, Bikram S. Gill, Jesse Poland
Software Mentions: 4
Published: almost 6 years ago

10.2196/19149

Teleconsultation Between Patients and Health Care Professionals in the Catalan Primary Care Service: Message Annotation Analysis in a Retrospective Cross-Sectional Study
Cited by: 19
Author(s): Francesc López Seguí, Sandra M. Walsh, Óscar Solans, Cristina Adroher Mas, Gabriela Ferraro, Anna García‐Altés, Francesc García Cuyàs, Luis Salvador‐Carulla, Marta Sagarra Castro, Josep Vidal-Alaball
Software Mentions: 3
Published: about 4 years ago

10.3390/biology10080790

agReg-SNPdb: A Database of Regulatory SNPs for Agricultural Animal Species
Cited by: 5
Author(s): Selina Klees, Felix Heinrich, Armin O. Schmitt, Mehmet Gültaş
Software Mentions: 3
Published: over 3 years ago

10.3390/v12070708

Early Phase of the COVID-19 Outbreak in Hungary and Post-Lockdown Scenarios
Cited by: 45
Author(s): Gergely Röst, F. Bartha, Norbert Bogya, Péter Boldog, Attila Dénes, Tamás Ferenci, Krisztina Horváth, Attila Juhász, Csilla Nagy, Tamás Tekeli, Zsolt Vizi, Beatrix Oroszi
Software Mentions: 3
Published: over 4 years ago

10.1111/pbi.13092

Activity‐based proteomics reveals nine target proteases for the recombinant protein‐stabilizing inhibitor Sl <scp>CYS</scp> 8 in Nicotiana benthamiana
Cited by: 12
Author(s): Philippe V. Jutras, Friederike Grosse‐Holz, Farnusch Kaschani, Markus Kaiser, Dominique Michaud, Renier A. L. van der Hoorn
Software Mentions: 3
Published: over 5 years ago

10.1111/pbi.12916

Three unrelated protease inhibitors enhance accumulation of pharmaceutical recombinant proteins in Nicotiana benthamiana
Cited by: 53
Author(s): Friederike Grosse‐Holz, Luisa Madeira, Muhammad Awais Zahid, Molly Songer, Jiorgos Kourelis, Mary Fesenko, Sabrina Ninck, Farnusch Kaschani, Markus Kaiser, Renier A. L. van der Hoorn
Software Mentions: 3
Published: over 6 years ago

10.1002/ece3.2885

Watershed characteristics shape the landscape genetics of brook stickleback (Culaea inconstans) in shallow prairie lakes
Cited by: 2
Author(s): Cory S. Kremer, Steven M. Vamosi, Sean M. Rogers
Software Mentions: 3
Published: over 7 years ago

10.1128/mSystems.01255-20

Evaluation of CRISPR Diversity in the Human Skin Microbiome for Personal Identification
Cited by: 11
Author(s): Kochi Toyomane, Ryo Yokota, Ken Watanabe, Tomoko Akutsu, Ai Asahi, Satoshi Kubota
Software Mentions: 3
Published: over 3 years ago

10.3390/biomedicines9080866

Synergistic AHR Binding Pathway with EMT Effects on Serous Ovarian Tumors Recognized by Multidisciplinary Integrated Analysis
Cited by: 4
Author(s): Kuo-Min Su, Hong‐Wei Gao, Chia‐Ming Chang, Kai-Hsi Lu, Mu-Hsien Yu, Yi-Hsin Lin, Li-Chun Liu, Chen‐Ming Chang, Yao‐Feng Li
Software Mentions: 2
Published: over 3 years ago

10.1007/s10096-019-03804-8

Low antimicrobial resistance in general practice patients in Rotterdam, the city with the largest proportion of immigrants in the Netherlands
Cited by: 4
Author(s): Maaike Honsbeek, Aimée Tjon-A-Tsien, Ellen E. Stobberingh, Jurriaan de Steenwinkel, Damian C. Melles∗, Jan J. Lous, Jan Hendrik Richardus, Hélène Voeten
Software Mentions: 2
Published: almost 5 years ago

10.3390/genes10121027

The Genetic Basis of Scale-Loss Phenotype in the Rapid Radiation of Takifugu Fishes
Cited by: 7
Author(s): Dong In Kim, Kai Wang, S. Hosoya, Mana Sato, Akiko Nozawa, Miwa Kuroyanagi, Yuka Jo, Satoshi Tasumi, Hiroaki Suetake, Yuzuru Suzuki, Kiyoshi Kikuchi
Software Mentions: 2
Published: almost 5 years ago

10.3389/fimmu.2020.00866

Immune Cells in the Placental Villi Contribute to Intra-amniotic Inflammation
Cited by: 12
Author(s): Jessica Toothaker, Pietro Presicce, Monica Cappelletti, Stephanie Stras, Collin C. McCourt, Claire Chougnet, Suhas G. Kallapur, Liza Konnikova
Software Mentions: 2
Published: over 4 years ago

10.1371/journal.pone.0170906

Visual Data Exploration for Balance Quantification in Real-Time During Exergaming
Cited by: 5
Author(s): Venustiano Soancatl Aguilar, Jasper J. van de Gronde, Claudine J. C. Lamoth, Mike van Diest, Natasha M. Maurits, Jos B. T. M. Roerdink
Software Mentions: 1
Published: almost 8 years ago

10.1007/s13205-016-0533-4

Transformation of Lactuca sativa L. with rol C gene results in increased antioxidant potential and enhanced analgesic, anti-inflammatory and antidepressant activities in vivo
Cited by: 28
Author(s): Hammad Ismail, Erum Dilshad, Mohammad Tahir Waheed, M. Sajid, Waqas Khan Kayani, Bushra Mirza
Software Mentions: 1
Published: about 8 years ago

10.1186/s13104-015-1385-4

Challenges in exome analysis by LifeScope and its alternative computational pipelines
Cited by: 5
Author(s): Erinija Pranckevičienė, Tautvydas Rančelis, Aidas Pranculis, Vaidutis Kučinskas
Software Mentions: 1
Published: about 9 years ago

Projects: pypi: table

Papers Mentioning table 48