10.3389/fphar.2018.00305

Frequency of CYP2D6 Alleles Including Structural Variants in the United States
Cited by: 81
Author(s): Andria L. Del Tredici, Alka Malhotra, Matthew Dedek, Frank G. Espin, Daniel E. Roach, Guang dan Zhu, Joseph R. Voland, Tanya A. Moreno
Software Mentions: 5
Published: over 8 years ago

10.1186/s40168-018-0555-8

The gut of the finch: uniqueness of the gut microbiome of the Galápagos vampire finch
Cited by: 54
Author(s): Alice Michel, Lewis M. Ward, Shana K. Goffredi, Katherine S. Dawson, Daniel T. Baldassarre, Alec Brenner, Kiyoko M. Gotanda, John E. McCormack, Sean W. Mullin, Ariel O’Neill, Gabrielle S. Tender, J. Albert C. Uy, Kristie Yu, Victoria J. Orphan, Jaime A. Chaves
Software Mentions: 5
Published: almost 8 years ago

10.1093/molbev/msz099

Return to the Sea, Get Huge, Beat Cancer: An Analysis of Cetacean Genomes Including an Assembly for the Humpback Whale (Megaptera novaeangliae)
Cited by: 72
Author(s): Marc Tollis, Jooke Robbins, Andrew E. Webb, Lukas F. K. Kuderna, Aleah F. Caulin, Jacinda D Garcia, Martine Bérubé, Nader Pourmand, Tomàs Marquès-Bonet, Mary J. O’Connell, Per Palsbøll, Carlo C. Maley
Software Mentions: 5
Published: about 7 years ago

10.3389/fmicb.2018.00922

Enrichment of Bacteria From Eastern Mediterranean Sea Involved in Lignin Degradation via the Phenylacetyl-CoA Pathway
Cited by: 20
Author(s): Hyun-Joo Woo, Terry C. Hazen
Software Mentions: 5
Published: about 8 years ago

10.7554/eLife.27159

Development of Bag-1L as a therapeutic target in androgen receptor-dependent prostate cancer
Cited by: 29
Author(s): Laura Cato, Antje Neeb, Adam Sharp, Víctor Buzón, Scott B. Ficarro, Linxiao Yang, Claudia Muhle‐Goll, Nane C. Kuznik, Ruth Riisnaes, Daniel Nava Rodrigues, Olivier Armant, Victor Gourain, Guillaume Adelmant, Emmanuel Amankwah Ntim, Thomas Westerling, David Dolling, Pasquale Rescigno, Ines Figueiredo, Friedrich Fauser, Jiansheng Wu, Jaice T. Rottenberg, L. Shatkina, Claudia Ester, Burkhard Luy, Holger Puchta, Jakob Troppmair, Nicole Jung, Stefan Bräse, Uwe Strähle, Jarrod A. Marto, G. Ulrich Nienhaus, Bissan Al‐Lazikani, Xavier Salvatella, Johann S. de Bono, Andrew C. B. Cato, Myles Brown
Software Mentions: 5
Published: almost 9 years ago

10.3390/genes12010048

Probably Correct: Rescuing Repeats with Short and Long Reads
Cited by: 3
Author(s): Monika Čechová
Software Mentions: 5
Published: over 5 years ago

10.1016/j.stem.2020.09.001

Loss of Extreme Long-Range Enhancers in Human Neural Crest Drives a Craniofacial Disorder
Cited by: 86
Author(s): Hannah K. Long, Marco Osterwalder, Ian Welsh, Karissa Hansen, James O. J. Davies, Yiran E. Liu, Mervenaz Koska, Alexander T. Adams, Robert Aho, Neiha Arora, Kazuya Ikeda, Ruth M. Williams, Tatjana Sauka‐Spengler, Matthew H. Porteus, Tim Mohun, Diane E. Dickel, Tomek Swigut, Jim R. Hughes, Douglas R. Higgs, Axel Visel, Licia Selleri, Joanna Wysocka
Software Mentions: 5
Published: over 5 years ago

10.1371/journal.pone.0024351

Molecular Insights into Reprogramming-Initiation Events Mediated by the OSKM Gene Regulatory Network
Cited by: 63
Author(s): Nancy Mah, Ying Wang, Mei-Chih Liao, Alessandro Prigione, Justyna Józefczuk, Björn Lichtner, Katharina Wolfrum, Manuela Haltmeier, Max Flöttmann, Martin H. Schaefer, Alexander Hahn, Ralf Mrowka, Edda Klipp, Miguel A. Andrade‐Navarro, James Adjaye
Software Mentions: 5
Published: almost 15 years ago

10.1186/1756-0500-6-358

Identifying technical aliases in SELDI mass spectra of complex mixtures of proteins
Cited by: 1
Author(s): John C. Whitin, Srinivasa Rangan, Harvey J. Cohen
Software Mentions: 5
Published: almost 13 years ago

10.1186/s13073-016-0319-7

Extracting a low-dimensional description of multiple gene expression datasets reveals a potential driver for tumor-associated stroma in ovarian cancer
Cited by: 20
Author(s): Safiye Çelik, Benjamin A. Logsdon, Stephanie L. Battle, Charles W. Drescher, Mara H. Rendi, R. David Hawkins, Su-In Lee
Software Mentions: 5
Published: about 10 years ago

10.1186/s12864-015-2188-7

Integrative enrichment analysis: a new computational method to detect dysregulated pathways in heterogeneous samples
Cited by: 16
Author(s): Xiangtian Yu, Tao Zeng, Guojun Li
Software Mentions: 5
Published: over 10 years ago

10.3390/s21051853

Comparing Kriging Estimators Using Weather Station Data and Local Greenhouse Sensors
Cited by: 9
Author(s): Pei Fen Kuo, Tzu En Huang, I. Gede Brawiswa Putra
Software Mentions: 5
Published: over 5 years ago

10.1371/journal.pone.0254514

Reaching to inhibit a prepotent response: A wearable 3-axis accelerometer kinematic analysis
Cited by: 2
Author(s): Alessia Angeli, Irene Valori, Teresa Farroni, Gustavo Marfia
Software Mentions: 5
Published: about 5 years ago

10.1007/s43926-021-00016-5

Social media analytics of the Internet of Things
Cited by: 4
Author(s): Jim Scheibmeir, Yashwant K. Malaiya
Software Mentions: 5
Published: almost 5 years ago

10.1038/s41598-020-66028-3

Sward type alters the relative abundance of members of the rumen microbial ecosystem in dairy cows
Cited by: 7
Author(s): Pamela M. Smith, Daniel Enríquez-Hidalgo, Deirdre Hennessy, Matthew S. McCabe, David A. Kenny, A. K. Kelly, Sinéad M. Waters
Software Mentions: 5
Published: about 6 years ago

10.1002/bimj.201800222

Multiple imputation for discrete data: Evaluation of the joint latent normal model
Cited by: 17
Author(s): Matteo Quartagno, James Carpenter
Software Mentions: 5
Published: over 7 years ago

10.3389/fmicb.2019.00717

Disentangling the Influence of Environment, Host Specificity and Thallus Differentiation on Bacterial Communities in Siphonous Green Seaweeds
Cited by: 23
Author(s): Kathryn Lee Morrissey, Levent Çavaş, Anne Willems, Olivier De Clerck
Software Mentions: 5
Published: over 7 years ago

10.3389/fnhum.2019.00119

Neural Correlates of Liberalism and Conservatism in a Post-communist Country
Cited by: 1
Author(s): Jan Kremláček, Daniel Musil, J. Langrová, Martin Paleček
Software Mentions: 5
Published: over 7 years ago

10.3390/cancers12030628

tRNA Queuosine Modification Enzyme Modulates the Growth and Microbiome Recruitment to Breast Tumors
Cited by: 35
Author(s): Jilei Zhang, Rong Lü, Yongguo Zhang, Żaneta Matuszek, Wen Zhang, Yinglin Xia, Tao Pan, Jun Sun
Software Mentions: 5
Published: over 6 years ago

10.1371/journal.pone.0109715

Genome-Wide Identification and Tissue-Specific Expression Analysis of UDP-Glycosyltransferases Genes Confirm Their Abundance in Cicer arietinum (Chickpea) Genome
Cited by: 33
Author(s): Ranu Sharma, Vimal Rawat, C.G. Suresh
Software Mentions: 5
Published: almost 12 years ago

10.1007/s11111-019-00329-2

Missing millions: undercounting urbanization in India
Cited by: 17
Author(s): Kyle Onda, Parmanand Sinha, Andrea E. Gaughan, Forrest R. Stevens, Nikhil Kaza
Software Mentions: 5
Published: over 6 years ago

10.1186/s12866-021-02129-x

The infant gut resistome is associated with E. coli and early-life exposures
Cited by: 23
Author(s): Rebecca M. Lebeaux, Modupe Coker, Erika Dade, Thomas J. Palys, Hilary G. Morrison, Benjamin D. Ross, Emily Baker, Margaret R. Karagas, Juliette C. Madan, Anne G. Hoen
Software Mentions: 5
Published: about 5 years ago

10.1186/s42523-021-00115-2

Environmentally enriched housing conditions affect pig welfare, immune system and gut microbiota in early life
Cited by: 21
Author(s): Caifang Wen, I.D.E. van Dixhoorn, Dirkjan Schokker, H. Woelders, Norbert Stockhofe-Zurwieden, Johanna M.J. Rebel, Hauke Smidt
Software Mentions: 5
Published: almost 5 years ago

10.7554/eLife.43627

Flura-seq identifies organ-specific metabolic adaptations during early metastatic colonization
Cited by: 42
Author(s): Harihar Basnet, Lin Tian, Karuna Ganesh, Yun-Han Huang, Danilo G. Macalinao, Edi Brogi, Lydia W.S. Finley, Joan Massagué
Software Mentions: 5
Published: over 7 years ago

10.1093/ajcn/nqab077

Associations of healthy food choices with gut microbiota profiles
Cited by: 33
Author(s): Kari K. Koponen, Aaro Salosensaari, Matti O. Ruuskanen, Aki S. Havulinna, Satu Männistö, Pekka Jousilahti, Joonatan Palmu, Rodolfo A. Salido, Karenina Sanders, Caitriona Brennan, Gregory Humphrey, Jon G. Sanders, Guillaume Méric, Susan Cheng, Michael Inouye, Mohit Jain, Teemu J. Niiranen, Liisa Valsta, Rob Knight, Veikko Salomaa
Software Mentions: 5
Published: almost 5 years ago

10.1371/journal.pone.0086272

Robust Regression Analysis of Copy Number Variation Data based on a Univariate Score
Cited by: 4
Author(s): Glen A. Satten, Andrew S. Allen, Morna Ikeda, Jennifer G. Mullé, Stephen T. Warren
Software Mentions: 5
Published: over 12 years ago

10.7554/eLife.63450

Temporal evolution of single-cell transcriptomes of Drosophila olfactory projection neurons
Cited by: 28
Author(s): Qijing Xie, Maria Brbić, Felix Horns, Sai Saroja Kolluru, Robert C. Jones, Jiefu Li, Anay R Reddy, Anthony Xie, Sayeh Kohani, Zhuoran Li, Colleen N. McLaughlin, Tongchao Li, Chuanyun Xu, David Vacek, David J. Luginbuhl, Jure Leskovec, Stephen R. Quake, Liqun Luo, Hongjie Li
Software Mentions: 5
Published: over 5 years ago

10.1371/journal.pone.0172977

Implications of high species turnover on the south-western Australian sandplains
Cited by: 20
Author(s): Neil Gibson, Suzanne M. Prober, R. Meissner, Stephen van Leeuwen
Software Mentions: 5
Published: over 9 years ago

10.1186/s12898-017-0141-0

Environmental drivers of Ixodes ricinus abundance in forest fragments of rural European landscapes
Cited by: 42
Author(s): Steffen Ehrmann, Jaan Liira, Stefanie Gärtner, Karin Hansen, Jörg Brunet, Sara A. O. Cousins, Marc Deconchat, Guillaume Decocq, Pieter De Frenne, Pallieter De Smedt, Martin Diekmann, Emilie Gallet‐Moron, Annette Kolb, Jonathan Lenoir, Jessica Lindgren, Tobias Naaf, Taavi Paal, Alicia Valdés, Kris Verheyen, Monika Wulf, Michael Scherer‐Lorenzen
Software Mentions: 5
Published: almost 9 years ago

10.1186/s12885-020-07689-1

Prognostic implications of alcohol dehydrogenases in hepatocellular carcinoma
Cited by: 25
Author(s): Xiangye Liu, Tingting Li, Delong Kong, Hua You, Fanyun Kong, Renxian Tang
Software Mentions: 5
Published: over 5 years ago

10.3389/fmicb.2019.01116

Dynamic Alterations in Yak Rumen Bacteria Community and Metabolome Characteristics in Response to Feed Type
Cited by: 116
Author(s): Chang Liu, Hao Wu, Shujie Liu, Shatuo Chai, Qingxiang Meng, Zhenming Zhou
Software Mentions: 5
Published: about 7 years ago

10.1002/ece3.7946

Restored and remnant Banksia woodlands elicit different foraging behavior in avian pollinators
Cited by: 2
Author(s): Alison Ritchie, Catherine Elliott, Elizabeth A. Sinclair, Siegfried L. Krauss
Software Mentions: 5
Published: almost 5 years ago

10.1371/journal.pone.0213066

HIV-related posts from a Chinese internet discussion forum: An exploratory study
Cited by: 7
Author(s): Yuan Dong, Xin Zhou, Yi‐Han Lin, Qichao Pan, Ying Wang
Software Mentions: 5
Published: over 7 years ago

10.3389/fgene.2019.00371

High-Order Correlation Integration for Single-Cell or Bulk RNA-seq Data Analysis
Cited by: 9
Author(s): Hui Tang, Tao Zeng, Luonan Chen
Software Mentions: 5
Published: about 7 years ago

10.1186/s12862-019-1572-3

The transcriptional correlates of divergent electric organ discharges in Paramormyrops electric fish
Cited by: 4
Author(s): Mauricio Losilla, David Luecke, Jason R. Gallant
Software Mentions: 5
Published: over 6 years ago

10.1021/acs.jcim.0c01382

Use of the Complementarity Principle in Docking Procedures: A New Approach for Evaluating the Correctness of Binding Poses
Cited by: 12
Author(s): Hrvoje Rimac, Maria Grishina, В. А. Потемкин
Software Mentions: 5
Published: over 5 years ago

10.1186/s13321-020-00420-z

COVER: conformational oversampling as data augmentation for molecules
Cited by: 19
Author(s): Jennifer Hemmerich, E. Asilar, Gerhard F. Ecker
Software Mentions: 5
Published: over 6 years ago

10.1371/journal.pgen.1008917

Genome wide distribution of G-quadruplexes and their impact on gene expression in malaria parasites
Cited by: 23
Author(s): Élodie Gazanion, Laurent Lacroix, Patrizia Alberti, Pratima Gurung, Sharon Wein, Ming Cheng, Jean‐Louis Mergny, Ana Gomes, José-Juan Lopez-Rubio
Software Mentions: 5
Published: about 6 years ago

10.1371/journal.pone.0097277

GPU-BSM: A GPU-Based Tool to Map Bisulfite-Treated Reads
Cited by: 6
Author(s): Andrea Manconi, Alessandro Orro, Elias Manca, Giuliano Armano, Luciano Milanesi
Software Mentions: 5
Published: about 12 years ago

10.3389/fmicb.2020.00052

sraX: A Novel Comprehensive Resistome Analysis Tool
Cited by: 14
Author(s): Leonardo G. Panunzi
Software Mentions: 5
Published: over 6 years ago

10.1371/journal.ppat.1009441

Viral infection of human neurons triggers strain-specific differences in host neuronal and viral transcriptomes
Cited by: 8
Author(s): Colleen A. Mangold, Molly M. Rathbun, Daniel W. Renner, Chad V. Kuny, Moriah L. Szpara
Software Mentions: 5
Published: over 5 years ago

10.3389/fmicb.2018.02227

Analysis of the Rumen Microbiome and Metabolome to Study the Effect of an Antimethanogenic Treatment Applied in Early Life of Kid Goats
Cited by: 19
Author(s): Leticia Abecia, Gonzalo Martínez Fernández, Kate Waddams, A. I. Martin-García, Eric Pinloche, Christopher J. Creevey, Stuart E. Denman, C. J. Newbold, D. R. Yáñez-Ruíz
Software Mentions: 5
Published: almost 8 years ago

10.7717/peerj.5129

Assessing population changes of historically overexploited black corals (Order: Antipatharia) in Cozumel, Mexico
Cited by: 10
Author(s): Erika Gress, Dominic A. Andradi‐Brown
Software Mentions: 5
Published: about 8 years ago

10.7554/eLife.51796

A MAC2-positive progenitor-like microglial population is resistant to CSF1R inhibition in adult mouse brain
Cited by: 44
Author(s): Lihong Zhan, Li Fan, Lay Kodama, Peter Sohn, Man Ying Wong, Gergey Alzaem Mousa, Yungui Zhou, Yaqiao Li, Li Gan
Software Mentions: 5
Published: almost 6 years ago

10.3390/e23040433

Change Point Test for the Conditional Mean of Time Series of Counts Based on Support Vector Regression
Cited by: 2
Author(s): Sangyeol Lee, Sangjo Lee
Software Mentions: 5
Published: over 5 years ago

10.1371/journal.pone.0165815

The Impact of Tree Diversity on Different Aspects of Insect Herbivory along a Global Temperature Gradient - A Meta-Analysis
Cited by: 40
Author(s): Stephan Kambach, Ingolf Kühn, Bastien Castagneyrol, Helge Bruelheide
Software Mentions: 5
Published: over 9 years ago

10.1186/s12935-020-01243-6

Identification of a competing endogenous RNA network associated with prognosis of pancreatic adenocarcinoma
Cited by: 24
Author(s): Wanqing Weng, Zhongjing Zhang, Weiguo Huang, Xiangxiang Xu, Boda Wu, Tingbo Ye, Yunfeng Shan, Ke–Qing Shi, Zhuo Lin
Software Mentions: 5
Published: about 6 years ago

10.1038/srep21234

Are we failing to protect threatened mangroves in the Sundarbans world heritage ecosystem?
Cited by: 73
Author(s): Swapan Kumar Sarker, Richard Reeve, Jill Thompson, Nirmal K. Paul, Jason Matthiopoulos
Software Mentions: 5
Published: over 10 years ago

10.1186/s12943-017-0653-4

Human germ/stem cell-specific gene TEX19 influences cancer cell proliferation and cancer prognosis
Cited by: 18
Author(s): Vicente Planells-Palop, Ali Hazazi, Julia Feichtinger, Jana Jezkova, Gerhard G. Thallinger, Naif Alsiwiehri, Mikhlid H. Almutairi, Lee Parry, Jane A. Wakeman, Ramsay J. McFarlane
Software Mentions: 5
Published: about 9 years ago

10.1099/mgen.0.000190

Genetic analysis of invasive Escherichia coli in Scotland reveals determinants of healthcare-associated versus community-acquired infections
Cited by: 32
Author(s): Cosmika Goswami, Stephen Fox, Matthew T. G. Holden, Martin Connor, Alistair Leanord, Thomas J. Evans
Software Mentions: 5
Published: about 8 years ago

10.1002/1878-0261.12070

Synergistic activity of everolimus and 5-aza-2′-deoxycytidine in medullary thyroid carcinoma cell lines
Cited by: 23
Author(s): Giovanna Mantovani, Alessandra Dicitore, Daniele Pepe, Davide Gentilini, Elisa Grassi, Maria Orietta Borghi, Giulia Gelmini, Maria Celeste Cantone, Germano Gaudenzi, Gabriella Misso, Anna Maria Di Blasio, Leo J. Hofland, Michele Caraglia, Luca Persani
Software Mentions: 5
Published: about 9 years ago

10.1186/s12864-016-2819-7

An evaluation of processing methods for HumanMethylation450 BeadChip data
Cited by: 52
Author(s): Jie Liu, Kimberly D. Siegmund
Software Mentions: 5
Published: about 10 years ago

10.1371/journal.pone.0159182

LPEseq: Local-Pooled-Error Test for RNA Sequencing Experiments with a Small Number of Replicates
Cited by: 6
Author(s): Jungsoo Gim, Sungho Won, Taesung Park
Software Mentions: 5
Published: almost 10 years ago

10.1371/journal.pone.0222690

A method of back-calculating the log odds ratio and standard error of the log odds ratio from the reported group-level risk of disease
Cited by: 2
Author(s): Dapeng Hu, Chong Wang, Annette M. O’Connor
Software Mentions: 5
Published: over 6 years ago

10.7717/peerj.6192

Climatic niche evolution in the viviparous<i>Sceloporus torquatus</i>group (Squamata: Phrynosomatidae)
Cited by: 8
Author(s): Norberto Martínez‐Méndez, Omar Mejía, Jorge Ortega, Fausto R. Méndez–de la Cruz
Software Mentions: 5
Published: over 7 years ago

10.1371/journal.pone.0134509

A Social Network Approach Reveals Associations between Mouse Social Dominance and Brain Gene Expression
Cited by: 103
Author(s): Nina L. T. So, Becca Franks, Sean C. Lim, James P. Curley
Software Mentions: 5
Published: almost 11 years ago

10.1186/s12935-020-01294-9

A robust twelve-gene signature for prognosis prediction of hepatocellular carcinoma
Cited by: 46
Author(s): Guoqing Ouyang, Bin Yi, Guangdong Pan, Xiang Chen
Software Mentions: 5
Published: about 6 years ago

10.1186/s12863-018-0660-5

Skeletal muscle in aged mice reveals extensive transformation of muscle gene expression
Cited by: 45
Author(s): I‐Hsuan Lin, Junn-Liang Chang, Kate Hua, Wan-Chen Huang, Ming Hsu, Yifan Chen
Software Mentions: 5
Published: almost 8 years ago

10.3390/ijerph18062832

Impact of Covid-19 Lockdown on Availability of Drinking Water in the Arsenic-Affected Ganges River Basin
Cited by: 17
Author(s): Srimanti Duttagupta, Soumendra N. Bhanja, Avishek Dutta, S. Sarkar, M. Chakraborty, Ashok Ghosh, Debapriya Mondal, Abhijit Mukherjee
Software Mentions: 5
Published: over 5 years ago

10.1002/ece3.1203

Life history variation in <scp>B</scp> arents <scp>S</scp> ea fish: implications for sensitivity to fishing in a changing environment
Cited by: 35
Author(s): Magnus Aune Wiedmann, Raul Primicerio, Andrey V. Dolgov, Camilla A. Meyer Ottesen, Michaela Aschan
Software Mentions: 5
Published: almost 12 years ago

10.1186/1748-7188-8-25

Data compression for sequencing data
Cited by: 84
Author(s): Sebastian Deorowicz, Szymon Grabowski
Software Mentions: 5
Published: over 13 years ago

10.1128/mSystems.00087-17

Tree Leaf Bacterial Community Structure and Diversity Differ along a Gradient of Urban Intensity
Cited by: 43
Author(s): Isabelle Laforest‐Lapointe, Christian Messier, Steven W. Kembel
Software Mentions: 5
Published: over 8 years ago

10.1371/journal.pone.0215497

Gut microbiota features associated with Clostridioides difficile colonization in puppies
Cited by: 15
Author(s): Alexander S. F. Berry, Brendan J Kelly, Denise Barnhart, Douglas G. Kelly, Daniel P. Beiting, Robert N. Baldassano, Laurel E. Redding
Software Mentions: 5
Published: almost 7 years ago

10.1002/ece3.7141

Limited heat tolerance in an Arctic passerine: Thermoregulatory implications for cold‐specialized birds in a rapidly warming world
Cited by: 15
Author(s): Ryan S. O’Connor, Audrey Le Pogam, Kevin G. Young, Francis Robitaille, Emily S. Choy, Oliver P. Love, Kyle H. Elliott, Anna L. Hargreaves, Dominique Berteaux, Andrew Tam, François Vézina
Software Mentions: 5
Published: over 5 years ago

10.3390/jcm9092930

Proteomic Profiles of Exosomes of Septic Patients Presenting to the Emergency Department Compared to Healthy Controls
Cited by: 8
Author(s): Daniel C. Morris, Anja Kathrin Jaehne, Michael Chopp, Zhanggang Zhang, Laila Poisson, Yalei Chen, Indrani Datta, Emanuel P. Rivers
Software Mentions: 5
Published: almost 6 years ago

10.7554/eLife.09347

A pH-driven transition of the cytoplasm from a fluid- to a solid-like state promotes entry into dormancy
Cited by: 332
Author(s): Matthias C. Munder, Daniel Midtvedt, Titus M. Franzmann, Elisabeth Nüske, Oliver Otto, Maik Herbig, Elke Ulbricht, Paul Müller, Anna Taubenberger, Shovamayee Maharana, Liliana Malinovska, Doris Richter, Jochen Guck, Vasily Zaburdaev, Simon Alberti
Software Mentions: 5
Published: over 10 years ago

10.1038/s41598-020-57968-x

Prognostic Nomogram For Locoregionally Advanced Nasopharyngeal Carcinoma
Cited by: 15
Author(s): Yanming Jiang, Song Qu, Xin-Bin Pan, Shan Huang, Xiaodong Zhu
Software Mentions: 5
Published: over 6 years ago

10.1038/s41598-021-83030-5

Big trees drive forest structure patterns across a lowland Amazon regrowth gradient
Cited by: 9
Author(s): Tassiana Maylla Fontoura Caron, Victor Juan Ulises Rodriguez Chuma, Alexander Arévalo Sandi, D. Ryan Norris
Software Mentions: 5
Published: over 5 years ago

10.1371/journal.pcbi.1000815

NeuroML: A Language for Describing Data Driven Models of Neurons and Networks with a High Degree of Biological Detail
Cited by: 284
Author(s): Padraig Gleeson, Sharon Crook, Robert C. Cannon, Michael L. Hines, Guy O Billings, Matteo Farinella, Thomas M. Morse, Andrew P. Davison, Subhasis Ray, Upinder S. Bhalla, Simon R Barnes, Yoana D Dimitrova, R. Angus Silver
Software Mentions: 5
Published: about 16 years ago

10.1371/journal.pone.0066856

The PyRosetta Toolkit: A Graphical User Interface for the Rosetta Software Suite
Cited by: 23
Author(s): Jared Adolf-Bryfogle, Roland L. Dunbrack
Software Mentions: 5
Published: about 13 years ago

10.1038/s41396-020-0606-6

Genetic variation and evolutionary history of a mycorrhizal fungus regulate the currency of exchange in symbiosis with the food security crop cassava
Cited by: 12
Author(s): Romain Savary, Cindy Dupuis, Frédéric G. Masclaux, Ivan D. Mateus, Edward C. Rojas, Ian R. Sanders
Software Mentions: 5
Published: over 6 years ago

10.3389/fmicb.2020.00749

Tree Root Zone Microbiome: Exploring the Magnitude of Environmental Conditions and Host Tree Impact
Cited by: 16
Author(s): Jean de Dieu Habiyaremye, Kezia Goldmann, Thomas Reitz, Sylvie Herrmann, François Buscot
Software Mentions: 5
Published: about 6 years ago

10.1186/1751-0473-8-14

GenePattern flow cytometry suite
Cited by: 16
Author(s): Josef Špidlen, Aaron Barsky, Karin Breuer, Peter A. Carr, Marc‐Danie Nazaire, Barbara Hill, Qian Yu, Ted Liefeld, Michael Reich, Jill P. Mesirov, Peter Wilkinson, Richard H. Scheuermann, Rafick‐Pierre Sékaly, Ryan R. Brinkman
Software Mentions: 5
Published: about 13 years ago

10.1111/jcmm.15205

Characterization of the relationship between FLI1 and immune infiltrate level in tumour immune microenvironment for breast cancer
Cited by: 14
Author(s): Shiyuan Wang, Yakun Wang, Changhong Yu, Yiyin Cao, Yao Yu, Yi Pan, Dongqing Su, Qianzi Lu, Weihao Yang, Yongchun Zuo, Lei Yang
Software Mentions: 5
Published: over 6 years ago

10.1093/femsyr/foab011

Transcriptomic response of Saccharomyces cerevisiae to octanoic acid production
Cited by: 2
Author(s): Leonie Baumann, Tyler W. Doughty, Verena Siewers, Jens Nielsen, Eckhard Boles, Mislav Oreb
Software Mentions: 5
Published: over 5 years ago

10.1186/1471-2105-10-106

flowCore: a Bioconductor package for high throughput flow cytometry
Cited by: 421
Author(s): Florian Hahne, Nolwenn Le Meur, Ryan R. Brinkman, Byron Ellis, Perry D. Haaland, Deepayan Sarkar, Josef Špidlen, Errol Strain, Robert Gentleman
Software Mentions: 5
Published: over 17 years ago

10.1038/s41598-019-57110-6

Single-cell transcriptional profiles in human skeletal muscle
Cited by: 160
Author(s): Aliza Rubenstein, Gregory R. Smith, Ulrika Raue, Gwénaëlle Begue, Kiril Minchev, Frederique Ruf-Zamojski, Venugopalan D. Nair, Xingyu Wang, Lan Zhou, Elena Zaslavsky, Todd A. Trappe, Scott Trappe, Stuart C. Sealfon
Software Mentions: 5
Published: over 6 years ago

10.1038/s41598-021-90797-0

Targeting of the CD80/86 proinflammatory axis as a therapeutic strategy to prevent severe COVID-19
Cited by: 9
Author(s): Antonio Julià, Irene Bonafonte-Pardàs, Antonio Gómez, María López-Lasanta, Mireia López-Corbeto, Sergio H Martínez-Mateu, Jordi Lladós, Iván Rodríguez-Nunez, R Myers, Sara Marsal
Software Mentions: 5
Published: about 5 years ago

10.3389/fendo.2021.632492

Decreased Treg Cell and TCR Expansion Are Involved in Long-Lasting Graves’ Disease
Cited by: 7
Author(s): Ziyi Chen, Yufeng Liu, Shiqian Hu, Meng Zhang, Bingyin Shi, Yue Wang
Software Mentions: 5
Published: over 5 years ago

10.1111/tpj.14202

Gene networks orchestrated by <i>Me<scp>GI</scp></i>: a single‐factor mechanism underlying sex determination in persimmon
Cited by: 43
Author(s): Ho Wen Yang, Takashi Akagi, Taiji Kawakatsu, Ryutaro Tao
Software Mentions: 5
Published: over 7 years ago

10.3389/fgene.2021.644516

G2S: A New Deep Learning Tool for Predicting Stool Microbiome Structure From Oral Microbiome Data
Cited by: 5
Author(s): Simone Rampelli, Marco Fabbrini, Marco Candela, Elena Biagi, Patrizia Brigidi, Silvia Turroni
Software Mentions: 5
Published: over 5 years ago

10.3390/genes11121512

You Had Me at “MAGIC”!: Four Barley MAGIC Populations Reveal Novel Resistance QTL for Powdery Mildew
Cited by: 13
Author(s): Fluturë Novakazi, Lene Krusell, J. Jensen, Jihad Orabi, A. Jahoor, Tommy Bengtsson
Software Mentions: 5
Published: over 5 years ago

10.3390/insects12070584

Intrasexual Vibrational Behavior of Philaenus spumarius in Semi-Field Conditions
Cited by: 5
Author(s): Imane Akassou, Sabina Avosani, Valentina Zaffaroni Caorsi, Vincenzo Verrastro, Marco Ciolli, Valerio Mazzoni
Software Mentions: 5
Published: about 5 years ago

10.3389/fbioe.2020.00808

Riboflow: Using Deep Learning to Classify Riboswitches With ∼99% Accuracy
Cited by: 6
Author(s): Keshav Aditya R Premkumar, Ramit Bharanikumar, Ashok Palaniappan
Software Mentions: 5
Published: about 6 years ago

10.1186/s12864-016-3135-y

A comparative study of ChIP-seq sequencing library preparation methods
Cited by: 21
Author(s): Arvind Sundaram, Timothy R. Hughes, Shea Biondi, Nathalie Bolduc, Sarah K. Bowman, Andrew Camilli, Yap Ching Chew, Catherine Couture, Andrew Farmer, John P. Jerome, David W. Lazinski, Andrew McUsic, Peng Xu, Kamran Shazand, Feng Xu, Robert Lyle, Gregor D. Gilfillan
Software Mentions: 5
Published: over 9 years ago

10.3389/fmicb.2021.616828

Soil Texture, Sampling Depth and Root Hairs Shape the Structure of ACC Deaminase Bacterial Community Composition in Maize Rhizosphere
Cited by: 19
Author(s): Lucie Gebauer, Marie-Lara Bouffaud, Minh Ganther, Bunlong Yim, Doris Vetterlein, Kornelia Smalla, François Buscot, Anna Heintz‐Buschart, Mika Tarkka
Software Mentions: 5
Published: over 5 years ago

10.7554/eLife.36967

Topography of cancer-associated immune cells in human solid tumors
Cited by: 187
Author(s): Jakob Nikolas Kather, Meggy Suarez-Carmona, Pornpimol Charoentong, Cleo–Aron Weis, Daniela Hirsch, Peter Bankhead, Marcel Horning, Dyke Ferber, Ivan Kel, Esther Herpel, Sarah Schott, Inka Zörnig, Jochen Utikal, Alexander Marx, Timo Gaiser, Hermann Brenner, Jenny Chang‐Claude, Michael Hoffmeister, Dirk Jäger, Niels Halama
Software Mentions: 5
Published: almost 8 years ago

10.7150/thno.53229

Neoantigen landscape in metastatic nasopharyngeal carcinoma
Cited by: 13
Author(s): Lin Mei, Xiaolong Zhang, Rui You, Qi Yang, Xiong Zou, Kai Yu, You‐Ping Liu, Ruhai Zou, Yi-Jun Hua, Pei‐Yu Huang, Jin Wang, Qi Zhao, Xiaobing Jiang, Jun Tang, Yeunhwa Gu, Tao Yu, Guangcun He, YuLong Xie, Zhi‐Qiang Wang, Ting Liu, Siyuan Chen, Zhixiang Zuo, Ming‐Yuan Chen
Software Mentions: 5
Published: over 5 years ago

10.1038/s41598-020-66178-4

Comparison of lung microbiota between antineutrophil cytoplasmic antibody-associated vasculitis and sarcoidosis
Cited by: 5
Author(s): Shoichi Fukui, Shimpei Morimoto, Kunihiro Ichinose, Shota Nakashima, Hiroshi Ishimoto, Atsuko Hara, Tomoyuki Kakugawa, Noriho Sakamoto, Yoshika Tsuji, Toshiyuki Aramaki, Tomohiro Koga, Shin‐ya Kawashiri, Naoki Iwamoto, Mami Tamai, Hideki Nakamura, Tomoki Origuchi, Yukitaka Ueki, Shino Suzuki, Hiroshi Mukae, Atsushi Kawakami
Software Mentions: 5
Published: about 6 years ago

10.1038/s41598-018-29320-x

Endocervical and vaginal microbiota in South African adolescents with asymptomatic Chlamydia trachomatis infection
Cited by: 35
Author(s): Christina Balle, Katie Lennard, Smritee Dabee, Shaun Barnabas, Shameem Z. Jaumdally, Melanie A. Gasper, Venessa Maseko, Zizipho Z. A. Mbulawa, Anna‐Lise Williamson, Linda‐Gail Bekker, David A. Lewis, Jo‐Ann S. Passmore, Heather B. Jaspan
Software Mentions: 5
Published: almost 8 years ago

10.1126/sciadv.aau4578

Fungal diversity regulates plant-soil feedbacks in temperate grassland
Cited by: 134
Author(s): Marina Semchenko, Jonathan W. Leff, Yudi M. Lozano, Sirgi Saar, John Davison, Anna Wilkinson, Benjamin G. Jackson, William J. Pritchard, Jonathan R. De Long, Simon Oakley, Kelly E. Mason, Nicholas J. Ostle, Elizabeth M. Baggs, David Johnson, Noah Fierer, Richard D. Bardgett
Software Mentions: 5
Published: over 7 years ago

10.1186/s12864-020-6665-2

The effect of antibiotics on the gut microbiome: a metagenomics analysis of microbial shift and gut antibiotic resistance in antibiotic treated mice
Cited by: 37
Author(s): Lei Xu, Anil Surathu, Isaac Raplee, Ashok Chockalingam, Sharron Stewart, Lacey Walker, Leonard Sacks, Vikram Patel, Zhihua Li, Rodney Rouse
Software Mentions: 5
Published: over 6 years ago

10.1186/s40104-020-00542-2

Linkage between the intestinal microbiota and residual feed intake in broiler chickens
Cited by: 26
Author(s): Jing Liu, Sydney Stewart, Kelsy Robinson, Qing Yang, Wentao Lyu, Melanie A. Whitmore, Guolong Zhang
Software Mentions: 5
Published: over 5 years ago

10.18632/aging.101341

Central role of the p53 pathway in the noncoding-RNA response to oxidative stress
Cited by: 45
Author(s): Paola Fuschi, Matteo Carrara, Christine Voellenkle, José Manuel García-Manteiga, Paolo Righini, Biagina Maimone, Elena Sangalli, Francesco Villa, Claudia Specchia, Mario Picozza, Giovanni Nano, Carlo Gaetano, Gaia Spinetti, Annibale Alessandro Puca, Alessandra Magenta, Fabio Martelli
Software Mentions: 5
Published: over 8 years ago

10.3389/fonc.2020.00081

A 6 lncRNA-Based Risk Score System for Predicting the Recurrence of Colon Adenocarcinoma Patients
Cited by: 18
Author(s): Haojie Yang, Hong-Cheng Lin, Lun Hua, Dan Gan, Wei Jin, Can Cui, Yixin Yan, Yiming Qian, Changpeng Han, Zhenyi Wang
Software Mentions: 5
Published: over 6 years ago

10.1371/journal.ppat.1004856

An Ultrasensitive Mechanism Regulates Influenza Virus-Induced Inflammation
Cited by: 27
Author(s): Jason E. Shoemaker, Satoru Fukuyama, Amie J. Eisfeld, Dongming Zhao, Eiryo Kawakami, Saori Sakabe, Tadashi Maemura, Takeo Gorai, Hiroaki Katsura, Yukiko Muramoto, Shinji Watanabe, Tokiko Watanabe, Ken Fuji, Yoshikazu Matsuoka, Hiroaki Kitano, Yoshihiro Kawaoka
Software Mentions: 5
Published: about 11 years ago

10.1371/journal.pone.0204920

Predicting acute kidney injury at hospital re-entry using high-dimensional electronic health record data
Cited by: 8
Author(s): Samuel J. Weisenthal, Caroline M. Quill, Samir A. Farooq, Henry Kautz, Martin S. Zand
Software Mentions: 5
Published: over 7 years ago

10.1371/journal.pone.0120117

The Level of Residual Dispersion Variation and the Power of Differential Expression Tests for RNA-Seq Data
Cited by: 1
Author(s): Gu Mi, Yanming Di
Software Mentions: 5
Published: over 11 years ago

10.3389/fonc.2020.01119

Identification of RNA: 5-Methylcytosine Methyltransferases-Related Signature for Predicting Prognosis in Glioma
Cited by: 23
Author(s): Peng Wang, Minxian Wu, Zewei Tu, Chuming Tao, Qing Hu, Kuangxun Li, Xingen Zhu, Kai Huang
Software Mentions: 5
Published: almost 6 years ago

10.3389/fonc.2020.566183

Comprehensive Analysis of CDCAs Methylation and Immune Infiltrates in Hepatocellular Carcinoma
Cited by: 8
Author(s): Yongkang Wang, Yinfeng Yang, Honglei Gao, Ting Ouyang, Luyao Zhang, Jili Hu, Hu Sheng, Hongxing Kan
Software Mentions: 5
Published: over 5 years ago