cran: reshape2 | Projects | Ecosyste.ms: Papers

10.3389/fgene.2021.687778

Pan-Cancer Analysis of PIMREG as a Biomarker for the Prognostic and Immunological Role
Cited by: 16
Author(s): Hua Zhu, Xinyao Hu, Yingze Ye, Zhihong Jian, Yi Zhong, Lijuan Gu, Xiaoxing Xiong
Software Mentions: 12
Published: about 3 years ago

10.3389/fimmu.2016.00339

IMGT/StatClonotype for Pairwise Evaluation and Visualization of NGS IG and TR IMGT Clonotype (AA) Diversity or Expression from IMGT/HighV-QUEST
Cited by: 38
Author(s): Safa Aouinti, Véronique Giudicelli, Patrice Duroux, Dhafer Malouche, Sofia Kossida, Marie‐Paule Lefranc
Software Mentions: 11
Published: about 8 years ago

10.1186/s12575-021-00152-w

N6-Methyladenosine Related Long Non-Coding RNAs and Immune Cell Infiltration in the Tumor Microenvironment of Gastric Cancer
Cited by: 9
Author(s): Zhong Lin Yu, Zheng Zhu
Software Mentions: 11
Published: over 3 years ago

10.1098/rstb.2018.0303

Origin and evolution of papillomavirus (onco)genes and genomes
Cited by: 35
Author(s): Anouk Willemsen, Ignacio G. Bravo
Software Mentions: 11
Published: over 5 years ago

10.7717/peerj.1140

Composition, taxonomy and functional diversity of the oropharynx microbiome in individuals with schizophrenia and controls
Cited by: 190
Author(s): Eduardo Castro-Nallar, Matthew L. Bendall, Marcos Pérez‐Losada, Sarven Sabuncyan, Emily G. Severance, Faith Dickerson, Jennifer R. Schroeder, Robert H. Yolken, Keith A. Crandall
Software Mentions: 11
Published: about 9 years ago

10.12688/wellcomeopenres.15477.2

Feasibility of informing syndrome-level empiric antibiotic recommendations using publicly available antibiotic resistance datasets
Cited by: 5
Author(s): Quentin J. Leclerc, Nichola R. Naylor, Alexander M. Aiken, Francesc Español i Coll, Gwenan M. Knight
Software Mentions: 11
Published: over 4 years ago

10.1038/srep26929

High-throughput and Cost-effective Chicken Genotyping Using Next-Generation Sequencing
Cited by: 43
Author(s): Fábio Pértille, Carlos Guerrero-Bosagna, Vinícius da Silva, Clarissa Boschiero, José de Ribamar da Silva Nunes, Mônica Corrêa Ledur, Per Jensen, Luiz Lehmann Coutinho
Software Mentions: 11
Published: over 8 years ago

10.3389/fimmu.2018.03017

A Computational Approach Identifies Immunogenic Features of Prognosis in Human Cancers
Cited by: 8
Author(s): Malini Manoharan, Nitin Mandloi, Sushri Priyadarshini, Ashwini Patil, Rohit Gupta, Laxman Iyer, Ravi Gupta, Amitabha Chaudhuri
Software Mentions: 11
Published: almost 6 years ago

10.1371/journal.pone.0235283

Targeting the oral plaque microbiome with immobilized anti-biofilm peptides at tooth-restoration interfaces
Cited by: 18
Author(s): Dina G. Moussa, Conrado Aparicio
Software Mentions: 11
Published: over 4 years ago

10.1186/s12913-021-06509-x

Importance of patient bed pathways and length of stay differences in predicting COVID-19 hospital bed occupancy in England
Cited by: 20
Author(s): Quentin J. Leclerc, Naomi M. Fuller, Ruth H. Keogh, Karla Díaz-Ordaz, Richard Sekula, Malcolm G Semple, J Kenneth Baillie, Malcolm G Semple, Peter Openshaw, Gail Carson, Beatrice Alex, Benjamin Bach, Wendy S. Barclay, Debby Bogaert, Meera Chand, Graham Cooke, Annemarie B Docherty, Jake Dunning, Ana da Silva Filipe, Tom Fletcher, Christopher Green, Ewen M Harrison, Julian A. Hiscox, Antonia Ho, Peter Horby, Samreen Ijaz, Saye Khoo, Paul Klenerman, Andrew Law, Wei Shen Lim, Alexander J. Mentzer, Laura Merson, Alison Meynert, Mahdad Noursadeghi, Shona C. Moore, Massimo Palmarini, William A. Paxton, Georgios Pollakis, Nicholas Price, Andrew Rambaut, David L. Robertson, Clark D Russell, Vanessa Sancho‐Shimizu, Janet T. Scott, Thushan I. de Silva, Louise Sigfrid, Tom Solomon, Shiranee Sriskandan, D.I. Stuart, Charlotte Summers, Richard S. Tedder, Emma C. Thomson, A. A. Roger Thompson, Ryan S. Thwaites, Lance Turtle, Maria Zambon, Hayley Hardwick, Chloe Donohue, Ruth Lyons, Fiona Griffiths, Wilna Oosthuyzen, Lisa Norman, Riinu Pius, Tom Drake, Cameron J Fairfield, Stephen R Knight, Kenneth A McLean, Derek Murphy, Catherine Shaw, Jo Ann Dalton, James Lee, Daniel Plotkin, Michelle Girvan, Eglė Savičiūtė, Stephanie Roberts, Janet Harrison, Laura Marsh, Marie Connor, Sophie Halpin, Clare Jackson, Carrol Gamble, Claire Petersen, Scott Mullaney, Gary Leeming, Murray Wham, Sara Clohisey, Ross Hendry, James Scott-Brown, William Greenhalf, Victoria Shaw, Sarah E. McDonald, Seán Keating, Katie A. Ahmed, J. A. Armstrong, Milton Ashworth, Innocent G Asiimwe, Siddharth Bakshi, Samantha L. Barlow, Laura Booth, Benjamin Brennan, Katie Bullock, Benjamin W. A. Catterall, Jordan Clark, Emily Clarke, Sarah Cole, Louise Cooper, Helen Cox, Christopher Davis, Oslem Dincarslan, Chris Dunn, Philip Dyer, Angela Elliott, Anthony Evans, Lorna Finch, L. W. Fisher, Terry Foster, Isabel García-Dorival, Philip Gunning, Catherine Hartley, Antonia Ho, Rebecca L. Jensen, Christopher B. Jones, Trevor R. Jones, Shadia Khandaker, Katharine King, Robyn T. Kiy, Chrysa Koukorava, Annette Lake, Suzannah Lant, Diane Latawiec, Lara Lavelle-Langham, Daniella Lefteri, Lauren Lett, Lucia A Livoti, Maria Elisabetta Mancini, Sarah E. McDonald, Laurence McEvoy, John McLauchlan, Soeren Metelmann, Nahida S. Miah, Joanna Middleton, Joyce M. Mitchell, Ellen Murphy, Rebekah Penrice-Randal, Jack Pilgrim, Tessa Prince, Will Reynolds, Paul Ridley, Debby Sales, Victoria Shaw, Rebecca K. Shears, Benjamin Small, Krishanthi Subramaniam, Agnieska Szemiel, Aislynn Taggart, Jolanta Tanianis-Hughes, Jordan Thomas, Erwan Trochu, Libby van Tonder, Eve Wilcock, J. Eunice Zhang, Kayode Adeniji, Daniel Agranoff, Ken Agwuh, Dhiraj Ail, Ana Alegria, Brian Angus, Abdul Ashish, D. Atkinson, Shahedal Bari, Gavin Barlow, Stella Barnass, Nicholas Barrett, Christopher Bassford, David Baxter, Michael Beadsworth, Jolanta Bernatoniene, John C. Berridge, Nicola Best, Pieter Bothma, David Brealey, Robin Brittain-Long, Naomi Bulteel, Tom Burden, Andrew Burtenshaw, Vikki Caruth, David Chadwick, Duncan Chambler, Nigel Chee, Jenny Child, Srikanth Chukkambotla, Tom Clark, Paul Collini, Catherine Cosgrove, Jason Cupitt, Maria-Teresa Cutino-Moguel, Paul Dark, Chris Dawson, Samir Dervisevic, Phil Donnison, Sam Douthwaite, Ingrid DuRand, Ahilanadan Dushianthan, Tristan Dyer, Cariad Evans, Alice C Eziefula, Chrisopher Fegan, Adam Finn, Duncan Fullerton, Sanjeev Garg, Sanjeev Garg, Atul Garg, Effrossyni Gkrania‐Klotsas, Jo Godden, Arthur R. Goldsmith, Clive Graham, Elaine Hardy, Stuart Hartshorn, Daniel Harvey, Peter Havalda, Daniel B. Hawcutt, Maria Hobrok, Luke Hodgson, Anil Hormis, Michael Jacobs, Susan Jain, Paul Jennings, Agilan Kaliappan, Vidya Kasipandian, Stephen Kegg, M.C. Kelsey, Jason Kendall, Caroline Kerrison, Ian Kerslake, Oliver Koch, Gouri Koduri, George Koshy, Shondipon Laha, Steven Laird, Susan Larkin, Tamás Leiner, Patrick Lillie, James Limb, Vanessa Linnett, Jeff Little, Michael MacMahon, Emily Macnaughton, Ravish Mankregod, Huw Masson, Elijah Matovu, Katherine McCullough, Ruth McEwen, Manjula Meda, Gary L. Mills, Jane Minton, Mariyam Mirfenderesky, Kavya Mohandas, Quen Mok, James Moon, Elinoor Moore, Patrick Morgan, Craig C. Morris, Katherine Mortimore, Samuel Moses, Mbiye Mpenge, Rohinton Mulla, Michael V. Murphy, Megan Nagel, Thapas Nagarajan, Mark Nelson, Igor Otahal, Mark Pais, Selva Panchatsharam, Hassan Paraiso, Brij Patel, Natalie Pattison, Justin Pepperell, Mark Peters, Mandeep Phull, Stefania Pintus, Jagtur Singh Pooni, Frank A. Post, David J. Price, Rachel Prout, Nikolas Rae, Henrik Reschreiter, Tim Reynolds, Neil Richardson, Mark Roberts, Devender Roberts, Alistair Rose, Guy Rousseau, Brendan Ryan, Taranprit Saluja, Aarti Shah, Prad Shanmuga, Anil Sharma, Anna Shawcross, Jeremy Sizer, Manu Shankar-Hari, Richard Smith, Catherine Snelson, Nick Spittle, Nikki Staines, Tom Stambach, Richard Stewart, Pradeep Subudhi, Tamás Szakmány, Kate Tatham, Thomas Jo, Chris Thompson, Robert J. Thompson, Ascanio Tridente, Darell Tupper-Carey, Mary Twagira, Andrew Ustianowski, Nick Vallotton, Lisa Vincent-Smith, Shico Visuvanathan, Alan Vuylsteke, Sam Waddy, Rachel Wake, Andrew Walden, Ingeborg Welters, Tony Whitehouse, Paul Whittaker, Ashley Whittington, Meme Wijesinghe, Martin Williams, Lawrence A. Wilson, Sarah Wilson, Stephen Winchester, Martin Wiselka, Adam Wolverson, Daniel G. Wooton, Andrew Workman, Bryan Yates, Peter Young, Matthew Quaife, Christopher Jarvis, Sophie Meakin, Billy J Quilty, Kiesha Prem, C. Julian Villabona-Arenas, Fiona Yueqian Sun, Kaja Abbas, Megan Auzenbergs, Amy Gimma, Damien C. Tully, Katharine Sherratt, Alicia Roselló, Nicholas Davies, Yang Liu, Rachel Lowe, Hamish Gibbs, Naomi R. Waterlow, W. John Edmunds, David Simons, Graham Medley, James D. Munday, Stefan Flasche, Frank Sandmann, Alicia Showering, Rosalind M Eggo, Yung-Wai Desmond Chan, Carl A. B. Pearson, Adam J. Kucharski, Anna M Foss, Timothy Russell, Nikos I. Bosse, Mark Jit, Sam Abbott, Jack Williams, Akira Endo, Samuel Clifford, Georgia R. Gore-Langton, Petra Klepac, Oliver J. Brady, Joel Hellewell, Sebastian Funk, Kevin van Zandvoort, Rosanna C. Barnard, Emily Nightingale, Thibaut Jombart, Katherine E. Atkins, Simon R. Procter, Gwenan M. Knight
Software Mentions: 11
Published: over 3 years ago

10.18632/oncotarget.22928

Comparing the genomes of cutaneous melanoma tumors to commercially available cell lines
Cited by: 10
Author(s): Stephen A. Luebker, Weiwei Zhang, Scott A. Koepsell
Software Mentions: 11
Published: almost 7 years ago

10.3389/fimmu.2018.02191

Single Cell RNA Sequencing Identifies HSPG2 and APLNR as Markers of Endothelial Cell Injury in Systemic Sclerosis Skin
Cited by: 48
Author(s): Sokratis A. Apostolidis, Giuseppina Stifano, Tracy Tabib, Lisa Rice, Christina Morse, Bashar Kahaleh, Robert Lafyatis
Software Mentions: 11
Published: about 6 years ago

10.3389/fonc.2021.683582

Novel Prognostic Biomarkers in Gastric Cancer: CGB5, MKNK2, and PAPPA2
Cited by: 6
Author(s): Min Qin, Zhihai Liang, Hao Qin, Yifang Huo, Qing Yang Steve Wu, Huiying Yang, Guodu Tang
Software Mentions: 11
Published: over 3 years ago

10.3390/ijms21218148

Utilizing PacBio Iso-Seq for Novel Transcript and Gene Discovery of Abiotic Stress Responses in Oryza sativa L.
Cited by: 25
Author(s): Stephanie Schaarschmidt, Axel Fischer, Lovely Mae F Lawas, Rejbana Alam, Endang M. Septiningsih, Julia Bailey‐Serres, Krishna Jagadish, Bruno Huettel, Dirk K. Hincha, Ellen Zuther
Software Mentions: 11
Published: about 4 years ago

10.1371/journal.pone.0132783

Back to Basics – The Influence of DNA Extraction and Primer Choice on Phylogenetic Analysis of Activated Sludge Communities
Cited by: 388
Author(s): Mads Albertsen, Søren Michael Karst, Anja Ziegler, Rasmus Hansen Kirkegaard, Per Halkjær Nielsen
Software Mentions: 11
Published: over 9 years ago

10.1128/mSphere.00743-20

Whole-Genome Sequence Analysis of an Extensively Drug-Resistant Salmonella enterica Serovar Agona Isolate from an Australian Silver Gull ( Chroicocephalus novaehollandiae ) Reveals the Acquisition of Multidrug Resistance Plasmids
Cited by: 17
Author(s): Max L. Cummins, Martina L. Sanderson-Smith, Peter Newton, Nicholas Carlile, David N. Phalen, Kimberly Maute, Leigh G. Monahan, Bethany J. Hoye, Steven P. Djordjevic
Software Mentions: 10
Published: almost 4 years ago

10.1186/s12859-015-0613-1

tcR: an R package for T cell receptor repertoire advanced data analysis
Cited by: 199
Author(s): Vadim Nazarov, Mikhail V. Pogorelyy, Ekaterina A. Komech, Ivan V. Zvyagin, Dmitriy A. Bolotin, Mikhail Shugay, Dmitriy M. Chudakov, Yuri B. Lebedev, Ilgar Z. Mamedov
Software Mentions: 10
Published: over 9 years ago

10.3389/fgene.2020.00260

IntAssoPlot: An R Package for Integrated Visualization of Genome-Wide Association Study Results With Gene Structure and Linkage Disequilibrium Matrix
Cited by: 20
Author(s): Fengyu He, Shuangcheng Ding, Hongwei Wang, Feng Qin
Software Mentions: 10
Published: over 4 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

10.1128/mSystems.00571-21

Pathogenic Vibrio Species Are Associated with Distinct Environmental Niches and Planktonic Taxa in Southern California (USA) Aquatic Microbiomes
Cited by: 11
Author(s): Rachel E. Diner, Drishti Kaul, Ariel Rabines, Hong Zheng, Joshua A. Steele, John F. Griffith, Andrew E. Allen
Software Mentions: 10
Published: about 3 years ago

10.3390/cancers13133175

Transcript-Level Dysregulation of BCL2 Family Genes in Acute Myeloblastic Leukemia
Cited by: 7
Author(s): Luiza Handschuh, Paweł Wojciechowski, Maciej Kaźmierczak, K Lewandowski
Software Mentions: 10
Published: over 3 years ago

10.1038/s41598-021-84545-7

Quantitative molecular detection of larval Atlantic herring (Clupea harengus) in stomach contents of Atlantic mackerel (Scomber scombrus) marks regions of predation pressure
Cited by: 11
Author(s): Bridie J. M. Allan, Jessica L. Ray, Maik Tiedemann, Valeriya Komyakova, Frode Vikebø, Katrine Sandnes Skaar, Martina Stiasny, Arild Folkvord, Richard Nash, Erling Kåre Stenevik, Olav Sigurd Kjesbu
Software Mentions: 10
Published: over 3 years ago

10.3390/microorganisms8121887

A Multi-Omics Protocol for Swine Feces to Elucidate Longitudinal Dynamics in Microbiome Structure and Function
Cited by: 13
Author(s): Laurin Christopher Gierse, Alexander Meene, Daniel Schultz, Theresa Schwaiger, Claudia Karte, Charlotte Schröder, Haitao Wang, Christine Wünsche, Karen Methling, Bernd Kreikemeyer, Stephan Fuchs, Jörg Bernhardt, Dörte Becher, Michael Lalk, Tim Urich, Katharina Riedel
Software Mentions: 10
Published: almost 4 years ago

10.1186/s12864-019-6181-4

Dynamic transcriptome sequencing and analysis during early development in the bighead carp (Hypophthalmichthys nobilis)
Cited by: 12
Author(s): Jianjun Fu, Wenbin Zhu, Lanmei Wang, Ming Luo, Fei Song, Zaijie Dong
Software Mentions: 10
Published: about 5 years ago

10.1038/s41598-020-78228-y

Gastrointestinal adenocarcinoma analysis identifies promoter methylation-based cancer subtypes and signatures
Cited by: 7
Author(s): Renshen Xiang, Tao Fu
Software Mentions: 10
Published: almost 4 years ago

10.1155/2021/7404927

A Comprehensive Multiomics Analysis Identified Ubiquilin 4 as a Promising Prognostic Biomarker of Immune-Related Therapy in Pan-Cancer
Cited by: 4
Author(s): Jie Li, Ye Tong, Zhi Wang, Yi Liu, Xiaofeng Dai, Yubing Zhu
Software Mentions: 10
Published: about 3 years ago

10.1038/s41598-020-64095-0

Snapshots of human anatomy, locomotion, and behavior from Late Pleistocene footprints at Engare Sero, Tanzania
Cited by: 17
Author(s): Kevin G. Hatala, William E. H. Harcourt‐Smith, Adam D. Gordon, Brian W. Zimmer, Brian G. Richmond, Briana Pobiner, David J. Green, Adam Metallo, Vince Rossi, Cynthia M. Liutkus-Pierce
Software Mentions: 10
Published: over 4 years ago

10.1371/journal.pone.0208780

Clusters of high abundance of plants detected from local indicators of spatial association (LISA) in a semi-deciduous tropical forest
Cited by: 13
Author(s): José Ramón Martínez Batlle, Yntze van der Hoek
Software Mentions: 10
Published: almost 6 years ago

10.1371/journal.pone.0233242

Determining soil particle-size distribution from infrared spectra using machine learning predictions: Methodology and modeling
Cited by: 4
Author(s): Élizabeth Parent, Léon‐Étienne Parent, Léon E. Parent
Software Mentions: 10
Published: over 3 years ago

10.1038/s41598-019-46290-w

GeneHunt for rapid domain-specific annotation of glycoside hydrolases
Cited by: 14
Author(s): SC Nguyen, A. Flores, D. Talamantes, Furqan Dar, Adrian Roy L. Valdez, Jason P. Schwans, Renaud Berlemont
Software Mentions: 10
Published: over 5 years ago

10.1002/ece3.5599

Linking pollen foraging of megachilid bees to their nest bacterial microbiota
Cited by: 29
Author(s): Anna Voulgari‐Kokota, Markus J. Ankenbrand, Gudrun Grimmer, Ingolf Steffan‐Dewenter, Alexander Keller
Software Mentions: 10
Published: about 5 years ago

10.1038/s41598-019-42533-y

MeshMonk: Open-source large-scale intensive 3D phenotyping
Cited by: 78
Author(s): Julie D. White, Alejandra Ortega-Castrillón, Harold Matthews, Arslan Zaidi, Omid Ekrami, Jonatan Snyders, Yi Fan, Tony Penington, Stefan Van Dongen, Mark D. Shriver, Peter Claes
Software Mentions: 10
Published: over 5 years ago

10.1038/s41598-017-09303-0

The impact of immigration on microbial community composition in full-scale anaerobic digesters
Cited by: 111
Author(s): Rasmus Hansen Kirkegaard, Simon Jon McIlroy, Jannie Munk Kristensen, Marta Nierychlo, Søren Michael Karst, Morten Simonsen Dueholm, Mads Albertsen, Per Halkjær Nielsen
Software Mentions: 10
Published: about 7 years ago

10.3389/fmicb.2020.00037

FeGenie: A Comprehensive Tool for the Identification of Iron Genes and Iron Gene Neighborhoods in Genome and Metagenome Assemblies
Cited by: 164
Author(s): Arkadiy I. Garber, Kenneth H. Nealson, Akimitsu Okamoto, Sean M. McAllister, Clara S. Chan, Roman A. Barco, Nancy Merino
Software Mentions: 10
Published: almost 5 years ago

10.1002/bjs.10203

Multicentre prospective cohort study of body mass index and postoperative complications following gastrointestinal surgery
Cited by: 62
Author(s): T M Drake, Dmitri Nepogodiev, Stephen J. Chapman, James C Glasbey, Chetan Khatri, Chia Yew Kong, Henry Claireaux, M F Bath, Midhun Mohan, Lisa McNamee, Michael E. Kelly, Harriet Mitchell, J Edward Fitzgerald, Ewen M Harrison, Aneel Bhangu, Henry Claireaux, Irini M. Antoniou, Richard H. Dean, Natalie A. Davies, Shaun Trecarten, Ian Henderson, Charlotte Holmes, Joanne Wylie, R H Shuttleworth, Anurag Jindal, F Hughes, Pishoy Gouda, Lisa McNamee, Robert Fleck, Michael Hanrahan, Priyadarssini Karunakaran, J H Chen, Mark Sykes, Rajiv K. Sethi, S. Suresh, Panna Patel, M Patel, Rick Varma, Jameel Mushtaq, Buket Gundogan, William Bolton, Midhun Mohan, T Khan, Joshua Burke, R Morley, Nicolò Favero, R. Adams, Vanushia Thirumal, Ewan D. Kennedy, Kenneth Ong, Yulin Tan, Joseph Gabriel, Ali Bakhsh, Jillian Low, Ahmet Levent Yener, Vlad Paraoan, Ryan Preece, Thomas Tilston, Elspeth Cumber, S Dean, Talisa Ross, Eleanor McCance, H. Amin, L. Satterthwaite, Keiran Clement, Robert Gratton, Edward David Mills, Seehui Chiu, Guo Dung Hung, N M Rafiq, John D. Hayes, K Robertson, K Dynes, Han-Sheng Huang, Shershah Assadullah, Joseph W. Duncumb, Richard Moon, Stephanie Poo, J.K. Mehta, K Joshi, Rory Callan, Jonathan Norris, Nicholas Chilvers, Harry Keevil, P Jull, Shweta Mallick, D. Elf, L. M. Carr, C. Player, Ellen C Barton, Aurélie Martin, S.G. Ratu, Elizabeth Roberts, Philippe Phan, A Dyal, Joanne Rogers, Anne Henson, Neil Reid, Dermot Burke, G. Culleton, Sarah D. Lynne, Dermot Burke, Sufyan Mansoor, Caitlin W. Brennan, R. Blessed, Caroline L. Holloway, Arnold D. Hill, Thomas Goldsmith, Sharon Mackin, S Kim, Evelina Woin, Gregory A. Brent, Juli Coffin, Oliver J. Ziff, ZD Momoh, R. K. Debenham, Malik Irfan Ahmed, Cissy Yong, Jonathan Wan, Hannah Charlotte Copley, Pritish Raut, Faraz Chaudhry, R H Shuttleworth, G Nixon, Courtney Dorman, Ryan Choon Kiat Tan, S Kanabar, N. Canning, M. Dolaghan, Nicole S. Bell, Mary McMenamin, Ashok Chhabra, Kathryn Duke, Lindsay C. Turner, Tejal Patel, L S Chew, Mehdi Ali Mirza, Surabhika Lunawat, Babatunde Oremule, Nicholas T. Ward, M Khan, E. Tian Tan, David Roderick Maclennan, Richard McGregor, Elizabeth Chisholm, E J Griffin, Louise Bell, Belinda Hughes, J. Davies, Hafizul Haq, Hussien Ahmed, N. Ungcharoen, C. Whacha, R. Thethi, Rachel Markham, A H Y Lee, ER Batt, Nicholas Bullock, C.T. Francescon, J. Davies, Nusrat Shafiq, Jiashi Zhao, Sayinthen Vivekanantham, Ishani Barai, Jessica L. Allen, Dominic C Marshall, Charlotte McIntyre, Holly Wilson, Anita Ashton, C. Lek, Nebil Behar, M. Davis-Hall, N. Seneviratne, S Kim, Loïc Estève, Mert Sirakaya, S Ali, Scott D. Pope, Jaimo Ahn, Anna Craig-Mcquaide, W.A. Gatfield, Sharon E Leong, A.M. Demetri, Anne Kerr, Clare M. Rees, Jane Loveday, S Liu, Maheshi P C Wijesekera, Dipen M. Maru, Mark Attalla, Nicholas A. Smith, David Esteban Brown, P. Sritharan, Apar Shah, V. Charavanamuttu, G. Heppenstall-Harris, Kelvin K. Ng, T. Raghvani, Nick Rajan, K. Hulley, Nick Moody, Marli Williams, Arthur Cotton, Milad Sharifpour, Kaung Lwin, Melissa Bright, Abhishek Chitnis, Mohammed Abdel-Hadi, Akuilina Semana, Franklin G. Morgan, Rebecca Reid, Jane Dickson, Lorinda Anderson, Ronan McMullan, Jane Dickson, N Ahern, A Ahmad Asmadi, Lorinda Anderson, Jiabin Xuan, Lauren Crozier, Stephen McAleer, David Lees, AT Adebayo, Mautushi Das, Alexander Amphlett, A. Al-Robeye, Alice Valli, Jessi Khangura, A. Winarski, Ahmed Ali, Jessi Khangura, Helen Woodward, C Gouldthrope, Megan C. Turner, K Sasapu, Michael Tonkins, Jonathan Wild, Michael J. Robinson, J. Hardie, R. Heminway, Ruth Narramore, N. Ramjeeawon, A. D. Hibberd, Forrest Winslow, W Ho, Bradford Chong, Khong Hee Lim, Samuel B. Ho, J.A. Crewdson, S. Singagireson, Neeraj Kalra, Foteini Stefania Koumpa, H. I. Jhala, Wai Cheong Soon, Monil Karia, Michael Greshan Rasiah, Diamantis Xylas, Huburt Gilbert, M. Sundar-Singh, Jonathan Wills, Jameel Mushtaq, Sobia Akhtar, S. Patel, Liu Hu, Charlotte Brathwaite‐Shirley, H Nayee, Oreekha Amin, Tarun Rangan, E Turner, Catherine H McCrann, Rowan Forbes Shepherd, N Patel, J. Prest-Smith, Eric Y Auyoung, A. Murtaza, Amy Coates, O. Prys-Jones, Martin King, Stuart Gaffney, Charlotte Dewdney, I. Nehikhare, Jessica A. Lavery, John Bassett, Kirsty Davies, Kasim Ahmad, A Collins, Meghan Acres, Christine Egerton, T Khan, Ka Ho Cheng, X Chen, Nicholas Chan, A. Sheldon, S. Khan, J. Empey, Emily Ingram, Ali Raza Malik, Marianne Johnstone, R. Goodier, Jigar Shah, Julian Giles, Julie Sanders, Stewart McLure, Sridhar E. Pal, A. Rangedara, A Baker, C.A. Asbjoernsen, C. Girling, Lewis D Gray, L. Gauntlett, C Joyner, Sajid Qureshi, S Dean, Y.P. Mogan, James Ng, Aruna Kumar, J H Park, David Chi Hau Tan, K.P. Choo, Kausalya Raman, P. Buakuma, Chunhong Xiao, S. Govinden, Olof Thompson, M.A. Charalambos, Elliot John Brown, Rickesh Bharat Karsan, Tara Dogra, Laetitia Bullman, Pamela Dawson, Arthur L. Frank, Hèla Ben Abid, Li-Chen Tung, Umer Qureshi, A. Tahmina, Bruce Matthews, R. Harris, A. O'Connor, K. Mazan, Sundas Iqbal, Sophie Stanger, J. Thompson, Jacqueline A. Sullivan, E. Uppal, Ann Macaskill, F.A. Bamgbose, Christina Neophytou, Ashley Carroll, C.W. Rookes, Uttaran Datta, Amrita Dhutia, S Rashid, Nagm Eldin Abu Elnga Ahmed, Terence Lo, Shivam Bhanderi, Christopher Blore, S Ahmed, H. J. Shaheen, S Abburu, S. Majid, Zainab Fadhil Abbas, Sutopa Talukdar, S Ahmed, Laura Burney, Jamie Patel, O Al-Obaedi, Allison Roberts, O Al-Obaedi, Sophia Mahboob, Bhagwan D. Singh, Sangini S. Sheth, Priyesh Karia, A Prabhudesai, Kelvin Kow, Kantida Koysombat, S Wang, Paul J. Morrison, Y. Maheswaran, Philip Keane, Phillip Correia Copley, Oliver Brewster, Guan-Jie Xu, Phillip Harries, Carmel Wall, Alia Al-Mousawi, S. Bonsu, Pedro Cunha, Thomas Ward, Jerry Paul, K. Nadanakumaran, Salim Tayeh, Thomas Ward, H. Holyoak, Jéssica Remédios, K Theodoropoulou, Thomas Ward, A. Luhishi, Louis Jacob, Fang Long, Andrew Atayi, Safdar Sarwar, Olive Parker, Jessica Harvey, Heather Ross, Ritika Rampal, George Thomas, Piyush Vanmali, Catherine C. McGowan, John C. Stein, Vaila Robertson, L. Carthew, Vannesa Yue May Teng, J Fong, Anne Street, Clare Thakker, Derek O’Reilly, Mauro Bravo, Aline Cecília Pizzolato, Haseeb Anwar Khokhar, M. J. Ryan, Lindsay Cheskes, Richard D. Carr, Abdelmonim Salih, S. Bassiony, R. C. F. Yuen, David Chrastek, Hugh O׳Sullivan, Adaugo Amajuoyi, A Wang, O. Sitta, J. Wye, Mubasher A Qamar, C. Y. D. Major, Anjali Kaushal, Catrin Morgan, Maurizio Petrarca, R Allot, Kamlesh Verma, Shoma Dutt, R Allot, Chrissie Chilima, S Peroos, R Allot, Sumitro Kosasih, Hyung-Min Chin, L. Ashken, Rupert Pearse, Robert O'Loughlin, Arathi Menon, Kavindra Singh, Joel Norton, Rebecca Sagar, N. 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Brzyska, Kern Reid, Marli Williams, Nick Wetherall, Eilish McAleer, D. Thomas, R S Kiff, C Gouldthrope, Stephanie Milne, M Holmes, Samantha Stokes, J Bartlett, J L ucas Carvalho, T Bloomfield, F. Tongo, Ronald Bremner, Yong Ning, B.A. Atraszkiewicz, A. Mehdi, Muhammad Rizwan Tahir, G.X.J. Sherliker, Anne Tear, Amita Pandey, A. Broyd, Hisham Omer, Martine Raphaël, W.W. Chaudhry, Shayan Shahidi, Ahmed Jawad, Charn Gill, Ingo Fisher, I. Adeleja, Ian Clark, G. Aidoo-Micah, Philip W. Stather, Gazbar Salam, Thomas E. Glover, Gavin Deas, N K Sim, R.D. Obute, William Wynell-Mayow, M S Sait, N. Mitha, G Bernier, Muhammad Bilal Siddiqui, Raghav Shaunak, Anuj Wali, Gavin Cuthbert, Roshni Bhudia, Elizabeth M. Webb, Sanjay Shah, Nabila Ansari, M. Thamara P. R. Perera, Neil E. Kelly, Ross McAllister, Guy Stanley, Colm Keane, Veeranna Shatkar, C. Maxwell‐Armstrong, LM Henderson, Natalie Maple, Roberto R. Manson, R. Adams, Elliot John Brown, Elisabeth Semple, Marcos Mills, Ahmed Daoub, A. Marsh, A. 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Elangovan, Zehra Kazmi, Joanna Brecher, Shyam Sukumar, Adnan Mastan, Alice Mortimer, Jennifer Parker, J Boyle, M Elkawafi, Jeffrey M. Beckett, Ajay Mohite, Aditya Narain, Eshan Mazumdar, A. Sreh, Amy Hague, Daniel H. Weinberg, Laura Fletcher, Malcolm Steel, Hannah Shufflebotham, Mariam Masood, Yash Sinha, H. Amin, C Jenvey, H. Kitt, Ruth Slade, Ashley Craig, Ciara Deall, Yash Sinha, Joseph Gabriel, T. Reakes, Jordan V. Chervenkoff, E Strange, Moira K O’Bryan, Charlotte Murkin, D Joshi, E Strange, Tara Bergara, S. Naqib, D. Wylam, E Strange, S. Scotcher, Christopher Hewitt, Michael Stoddart, Ashwin Kerai, Adam Joseph Trist, S. Cole, Cathryn Knight, Samuel Stevens, Graham Cooper, Rory Ingham, Judith Dobson, Joanne Wylie, A O'Kane, Jalal Moradzadeh, Allyson Duffy, C. Henderson, S. Ashraf, C. McLaughin, Toby Hoskins, R Reehal, Lucy R. Bookless, Ross McLean, Emily Stone, E. Wright, H Abdikadir, Charlotte Roberts, Olivia Spence, Mukunthan Srikantharajah, M Patel, Eduardo Montero Ruiz, J. H. Matthews, Elizabeth C. Gardner, Charlotte Roberts, E. Kelly Hester, Prasheena Naran, R Simpson, Meenu Minhas, Emily F. Cornish, SH Semnani, Djamila Rojoa, A Radotra, John Eraifej, K. Eparh, Daniel Smith, Bhavin Mistry, Siobhan Hickling, Aneel Bhangu, W. Din, C Liu, Pryankaran Mithrakumar, V. Mirdavoudi, Madeeha Rashid, Clare McGenity, O. Hussain, M Kadicheeni, Hannah Gardner, N. Anim-Addo, Jack C.H. Pearce, Alec Aslanyan, Chara Ntala, T. Sorah, J. Parkin, mohamad alizadeh, Andrew A. White, F. Edozie, J.H. Johnston, A.G. Abdul Kahar, V. Navayogaarajah, Brij Patel, D Carter, Parisa Khonsari, Andrea Burgess, Brij Patel, Chia Kong, Arachchige Ponweera, A. Cody, Yulin Tan, AYKC Ng, A. Croall, Catherine K. Allan, S Ng, V Raghuvir, Richard J. Telfer, Arran Greenhalgh, Caroline McKerr, Marie Alexandra Edison, Bhavin Patel, K L Dear, Myra Hardy, P. Williams, Shamira Hassan, Uzma Sajjad, Eoghan O’Neill, Sofia Jarjour Tavares Starling Lopes, Laura Healy, Norhadziana Jamal, S Tan, D. Lazenby, S.B. Husnoo, Simon Beecroft, T. Sarvanandan, Christina G. Weston, N Bassam, S. Rabinthiran, Umar Hayat, Lauren C. Ng, D. G. Varma, Mohamad Sukkari, Ayesa Mian, Amy Coates, Al Fazir Omar, J W Kim, Amy Coates, Jenardan Sellathurai, Javed Iqbal Mahmood, Casey L. O’Connell, Ruma Bose, Helen Heneghan, Peter Lalor, Jesse Matheson, C C Doherty, Caroline Cullen, David J. Cooper, Sophia Angelov, C. Drislane, Andrew C. Smith, A. Kreibich, Ebrahim Palkhi, Andrya J. Durr, Andrew Lotfallah, David Gold, Erin L. McKean, Andrya J. Durr, Al-Rehan Dhanji, Anilkumar Av, Amitabh Thacoor, Andrya J. Durr, Zohaib Siddiqui, S. Lim, Amand Piquet, Shelly Anderson, Anurag Jindal, Darren McCormack, Jayati Gulati, Arwa Ibrahim, Anurag Jindal, Scott Murray, Stewart Walsh, Anika L. McGrath, Paul Ziprin, Eddy Chua, Chong-yang Lou, Joseph R. Bloomer, Heidi Paine, Denise Osei-Kuffour, Carla White, A Szczap, Shyam Gokani, Kiran Klaus Patel, M.K. Malys, Anthony Reed, G.E. Torlot, Elspeth Cumber, Amynah Charania, Siddique Ahmad, Niraj Varma, Haider R. Cheema, L. Austreng, H. Petra, Muhammad Hamid Chaudhary, Menen Zegeye, Frances K. Cheung, Douglas Coffey, R. Heer, Sweta Singh, Emilie Seager, S Cumming, Rishi Suresh, Saurabh Verma, Imogen Ptacek, Adam Gwozdz, Tianqin Yang, Ayush Khetarpal, Syed Shumon, Teresa Fung, William Chun-yin Leung, P. C. Kwang, L S Chew, Wayren Loke, Alan J. Curran, Carlos Chan, Christine McGarrigle, Kunal Mohan, Sean P. Cullen, Enoch Wong, Conor Toale, D. Collins, Niamh Keane, B P Traynor, D. Shanahan, Angela Yan, Daniyal J. Jafree, C Topham, Stefan Mitrasinovic, Sharif Omara, Buket Gundogan, Gordon Bingham, Panagis M. Lykoudis, B.H. Miranda, Katharine Whitehurst, Geev Kumaran, Yadsan Devabalan, Humaira Aziz, M. Shoa, Shiva Dindyal, Jonathan Yates, Isaac A. Bernstein, Gurender Rattan, Jonathan Yates, R. Coulson, S. Stezaker, A Isaac, Menatalla Salem, Angela McBride, A Isaac, H. McFarlane, L. Yow, Jonathan Macdonald, Richard D. Bartlett, Sanchit Turaga, Ursula White, Wan Jane Liew, Nicholas H. Yim, Andrew Ang, Andrew Simpson, Daniel F. McAuley, Elaine Craig, Lorna Murphy, Peter Shepherd, Jim Kee, A Abdulmajid, Arlene E. Chung, Hunter Warwick, Alana Livesey, Patrick Holton, Mark D Theodoreson, S.L. Jenkin, J. Turner, Jonathan Entwisle, Stéphane Marchal, S. O'Connor, Harry Blege, Joanna M S Aithie, Leh Sabine, G.E. Stewart, S. Jackson, A. Kishore, C.M. Lankage, F Acquaah, Holly Joyce, Anurag Jindal, Kevin McKevitt, Calvin Coffey, Ahmad Fawaz, Katelyn Dolbec, Donnchadh O’Sullivan, J Geraghty, Eric Lim, Linda Burnes Bolton, Deirdre Fitzpatrick, Caitlin Robinson, T. Ramtoola, Sophie Collinson, L Grundy, Paul McEnhill, Gurvinder Singh Harbhajan Singh, Dafydd Loughran, David Golding, R.E. Keeling, Robert P. Williams, Robert Whitham, Sangeetha Yoganathan, R. Nachiappan, Richard Egan, Raisah Owasil, Marilyn L. Kwan, Aina He, Ruth Goh, Rahul Bhome, Holly Wilson, Penelope J. Teoh, Kabiru A. Raji, Thomas Reeves, Nimeshi Jayakody, J. Matthams, Julien Chong, S Tan, CW Luk, Robert Greig, Matthew Trail, George Charalambous, Vanushia Thirumal, Alistair Rocke, N Gardiner, F. A. Bulley, Nicole Warren, Emma Brennan, P. Fergurson, Rebekah Wilson, Heather Whittingham, Elliot John Brown, Rashmi Khanijau, Kejal Gandhi, Steve Morris, A Boulton, Nakul Chandan, A.E. Barthorpe, Ricardo Maamari, Shahneen Sandhu, Michael McCann, Lawrence M. Higgs, V Balian, Craig B. Reeder, Charles Diaper, V Balian, T. A. Sale, Hosam Fathy Ali, V Balian, Carolyn Archer, Anne Clarke, Joseph Heskin, P Hurst, Joel D. Farmer, Lauren O’Flynn, Lan Ðoàn, B A Shuker, G. Stott, N.A. Vithanage, Katie Hoban, P.N. Nesargikar, Helen Kennedy, Cathleen Grossart, Eunicia Tan, Chloe Roy, Pei Yin Sim, Kate Leslie, D P Y Sim, Mehtap Haktanır Abul, Neil Md Cody, Andrea Tay, E Woon, Saretta Sng, Jin Jiun Mah, John Robson, Eathar Shakweh, Victoria C. Wing, Harriet L. Mills, M M Li, Tina Barrow, Sathyan Balaji, Helen Jordan, C. Phillips, Hania Naveed, Shashivadan P. Hirani, A. Tai, Raguprakash Ratnakumaran, A. Sahathevan, Ahmed Mohamed Abdel Shafì, M. A. Seedat, Rupert Weaver, A Batho, R. Punj, Haran Selvachandran, Neel K. Bhatt, S. Botchey, Z. Khonat, Kiva Brennan, Kenneth Ong, Clare Morrison, Eimar Devlin, Anna Linton, Elizabeth Galloway, Susan McGarvie, Norma K.C. Ramsay, H D McRobbie, Harriet Whewell, William H. Dean, S. Nelaj, Mazin Eragat, Aseem Mishra, Tajinder Kane, Mohamed Zuhair, M. Wells, David Wilkinson, N P Woodcock, Elizabeth Sun, Nora Abdul Aziz, Momin Ghaffar
Software Mentions: 10
Published: over 8 years ago

10.1038/s41416-020-0764-3

A common polymorphism in the retinoic acid pathway modifies adrenocortical carcinoma age-dependent incidence
Cited by: 7
Author(s): Mirvat Surakhy, Marsha D. Wallace, Elisabeth E. Bond, Lukasz F. Grochola, Husein Perez, Matteo Di Giovannantonio, Ping Zhang, David Malkin, Hannah Carter, Ivy Zortéa S Parise, Gerard P. Zambetti, Heloísa Komechen, Mariana M Paraizo, Meghana Pagadala, Emília M. Pinto, Enzo Lalli, Bonald C. Figueiredo, Gareth L. Bond
Software Mentions: 10
Published: over 4 years ago

10.1186/s12864-015-2356-9

QuickRNASeq lifts large-scale RNA-seq data analyses to the next level of automation and interactive visualization
Cited by: 33
Author(s): Shanrong Zhao, Li Xi, Jie Quan, Hualin Simon Xi, Ying Zhang, David von Schack, Michael S. Vincent, Baohong Zhang
Software Mentions: 10
Published: almost 9 years ago

10.1093/aje/kwaa127

Conditional Cash Transfer Program and Leprosy Incidence: Analysis of 12.9 Million Families From the 100 Million Brazilian Cohort
Cited by: 15
Author(s): Júlia Moreira Pescarini, Elizabeth Williamson, Maria Yury Ichihara, Rosemeire Leovigildo Fiaccone, Laura Forastiere, Anna Ramond, Joilda Silva Nery, Maria Lúcia Fernandes Penna, Agostino Strina, Sandra Reis, Liam Smeeth, Laura C. Rodrigues, Elizabeth B Brickley, Gerson Oliveira Penna, Marcos Barreto
Software Mentions: 10
Published: over 4 years ago

10.1186/s12885-019-6235-7

lionessR: single sample network inference in R
Cited by: 22
Author(s): Marieke L. Kuijjer, Ping-Han Hsieh, John Quackenbush, Kimberly Glass
Software Mentions: 9
Published: about 5 years ago

10.1186/s13062-021-00293-8

Common pathways and functional profiles reveal underlying patterns in Breast, Kidney and Lung cancers
Cited by: 7
Author(s): Sergio Romera-Giner, Zoraida Andreu Martínez, Francisco García‐García, Marta R. Hidalgo
Software Mentions: 9
Published: over 3 years ago

10.1128/mSystems.00081-18

Epstein-Barr Virus-Positive Cancers Show Altered B-Cell Clonality
Cited by: 16
Author(s): Sara R. Selitsky, David Marron, Lisle E. Mose, Joel S. Parker, Dirk P. Dittmer
Software Mentions: 9
Published: about 6 years ago

10.1128/mSphere.00097-18

Influential Parameters for the Analysis of Intracellular Parasite Metabolomics
Cited by: 11
Author(s): Maureen A. Carey, Vincent Covelli, Audrey C. Brown, Gregory L. Medlock, Mareike Haaren, Jessica G. Cooper, Jason A. Papin, Jennifer L. Guler
Software Mentions: 9
Published: over 6 years ago

10.3389/fcimb.2020.582187

Virome Sequencing of the Human Intestinal Mucosal–Luminal Interface
Cited by: 11
Author(s): Austin Yan, James Butcher, David Mack, Alain Stintzi
Software Mentions: 9
Published: about 4 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

10.1016/j.celrep.2020.107732

Variable Outcomes in Neural Differentiation of Human PSCs Arise from Intrinsic Differences in Developmental Signaling Pathways
Cited by: 43
Author(s): Alessio Strano, Eleanor J. Tuck, Victoria Stubbs, Frederick J. Livesey
Software Mentions: 9
Published: over 4 years ago

10.1186/s12967-018-1608-2

NPM1 alternative transcripts are upregulated in acute myeloid and lymphoblastic leukemia and their expression level affects patient outcome
Cited by: 13
Author(s): Luiza Handschuh, Paweł Wojciechowski, Maciej Kaźmierczak, Małgorzata Marcinkowska-Swojak, Magdalena Łuczak, Krzysztof Lewandowski, Mieczysław Komarnicki, Jacek Błażewicz, Marek Figlerowicz, Piotr Kozlowski
Software Mentions: 9
Published: over 6 years ago

10.1016/j.celrep.2020.108308

Developmental Gene Expression Differences between Humans and Mammalian Models
Cited by: 34
Author(s): Margarida Cardoso-Moreira, Ioannis Sarropoulos, Britta Velten, Matthew Mort, David Neil Cooper, Wolfgang Huber, Henrik Kaessmann
Software Mentions: 9
Published: about 4 years ago

10.3389/fmicb.2020.587972

DNA-Stable Isotope Probing Shotgun Metagenomics Reveals the Resilience of Active Microbial Communities to Biochar Amendment in Oxisol Soil
Cited by: 11
Author(s): Julian Yu, Michael J. Pavia, Lauren M. Deem, Susan E. Crow, Jonathan Deenik, C. Ryan Penton
Software Mentions: 9
Published: about 4 years ago

10.1186/s12859-016-1442-6

Unboxing cluster heatmaps
Cited by: 25
Author(s): Sophie Engle, Sean Whalen, Alark Joshi, Katherine S. Pollard
Software Mentions: 9
Published: almost 8 years ago

10.1038/s41598-021-93699-3

Analysing omics data sets with weighted nodes networks (WNNets)
Cited by: 1
Author(s): Gabriele Tosadori, Dario Di Silvestre, Fausto Spoto, Pierluigi Mauri, Carlo Laudanna, Giovanni Scardoni
Software Mentions: 9
Published: over 3 years ago

10.3390/microorganisms8050623

Framework as a Service, FaaS: Personalized Prebiotic Development for Infants with the Elements of Time and Parametric Modelling of In Vitro Fermentation
Cited by: 0
Author(s): Kwok Wai Lam, Wai‐Yin Cheng, Fan Yang, Shaoling Lin, Lijun You, Jiachi Chiou, Hoi Shan Kwan, Peter Chi Keung Cheung
Software Mentions: 9
Published: over 4 years ago

10.1371/journal.pone.0193164

Mosquito pornoscopy: Observation and interruption of Aedes aegypti copulation to determine female polyandric event and mixed progeny
Cited by: 10
Author(s): Danilo O. Carvalho, Samira Chuffi, Rafaella Sayuri Ioshino, I. C. S. Marques, Regina Fini, Maria Karina Costa, Helena Rocha Corrêa de Araújo, André Luis Costa-da-Silva, Bianca Burini Kojin, Margareth Lara Capurro
Software Mentions: 9
Published: over 6 years ago

10.2196/jmir.6815

Characterizing Awareness of Schizophrenia Among Facebook Users by Leveraging Facebook Advertisement Estimates
Cited by: 30
Author(s): Koustuv Saha, Ingmar Weber, Michael L. Birnbaum, Munmun De Choudhury
Software Mentions: 9
Published: over 7 years ago

10.1371/journal.pone.0242826

Can post-capture photographic identification as a wildlife marking technique be undermined by observer error? A case study using King Cobras in northeast Thailand
Cited by: 0
Author(s): Max Dolton Jones, Benjamin Michael Marshall, Samantha Nicole Smith, Jack Taylor Christie, Surachit Waengsothorn, Taksin Artchawakom, Pongthep Suwanwaree, Colin Thomas Strine
Software Mentions: 9
Published: almost 4 years ago

10.1186/s12864-016-2886-9

OGS2: genome re-annotation of the jewel wasp Nasonia vitripennis
Cited by: 32
Author(s): Alfredo Rago, Donald G. Gilbert, Jeong Hyeon Choi, Timothy B. Sackton, Xiaozhu Wang, Yogeshwar D. Kelkar, John H. Werren, John K. Colbourne
Software Mentions: 9
Published: about 8 years ago

10.1038/s41598-020-65087-w

Expression of genes of the Pho regulon is altered in Streptomyces coelicolor
Cited by: 22
Author(s): Aarón Millán-Oropeza, Céline Henry, Clara Lejeune, Michelle David, Marie‐Joëlle Virolle
Software Mentions: 9
Published: over 4 years ago

10.1099/mgen.0.000491

Translatability of WGS typing results can simplify data exchange for surveillance and control of Listeria monocytogenes
Cited by: 10
Author(s): Stefanie Lüth, Carlus Deneke, Sylvia Kleta, Sascha Al Dahouk
Software Mentions: 9
Published: almost 4 years ago

10.3389/fpsyg.2020.533593

Students’ Motivation and Affection Profiles and Their Relation to Mathematics Achievement, Persistence, and Behaviors
Cited by: 7
Author(s): Feiya Xiao, Li Sun
Software Mentions: 9
Published: almost 4 years ago

10.7554/eLife.34058

A transcriptomics resource reveals a transcriptional transition during ordered sarcomere morphogenesis in flight muscle
Cited by: 63
Author(s): Maria L. Spletter, Christiane Barz, Assa Yeroslaviz, Xu Zhang, Sandra B. Lemke, Adrien Bonnard, Erich Brunner, Giovanni Cardone, Konrad Basler, Bianca Habermann, Frank Schnorrer
Software Mentions: 9
Published: over 6 years ago

10.1002/cam4.4203

Comprehensive analysis of pan‐cancer reveals potential of ASF1B as a prognostic and immunological biomarker
Cited by: 25
Author(s): Xinyao Hu, Hua Zhu, Xiaoyu Zhang, Xueling He, Ximing Xu
Software Mentions: 9
Published: about 3 years ago

10.1038/srep46112

Large-scale SNP discovery and construction of a high-density genetic map of Colossoma macropomum through genotyping-by-sequencing
Cited by: 31
Author(s): José de Ribamar da Silva Nunes, Shikai Liu, Fábio Pértille, Caio Augusto Perazza, Priscilla Marqui Schmidt Villela, Vera Maria Fonseca de Almeida-Val, Alexandre Wagner Silva Hilsdorf, Zhanjiang Liu, Luiz Lehmann Coutinho
Software Mentions: 9
Published: over 7 years ago

10.1371/journal.pone.0192157

Tissue analyses reveal a potential immune-adjuvant function of FAP-1 positive fibroblasts in non-small cell lung cancer
Cited by: 30
Author(s): Thomas K. Kilvaer, Mehrdad Rakaee, Turid Hellevik, Arne Östman, Carina Strell, Roy M. Bremnes, Lill-Tove Busund, Tom Dønnem, Iñigo Martínez-Zubiaurre
Software Mentions: 9
Published: almost 7 years ago

10.1371/journal.pone.0220770

Characterizing the soil microbiome and quantifying antibiotic resistance gene dynamics in agricultural soil following swine CAFO manure application
Cited by: 40
Author(s): Edward Lopatto, Jinlyung Choi, Alfredo Colina, Lanying Ma, Adina Howe, Shannon M. Hinsa-Leasure
Software Mentions: 9
Published: over 5 years ago

10.1093/rheumatology/keab060

Do people with rheumatoid arthritis maintain their physical activity level at treatment onset over the first year of methotrexate therapy?
Cited by: 4
Author(s): James M Gwinnutt, Husain Alsafar, Kimme L Hyrich, Mark Lunt, Anne Barton, Suzanne Verstappen, Rams co-investigators
Software Mentions: 8
Published: almost 4 years ago

10.1128/mSphere.00176-18

High Rate of Infection by Only Oncogenic Human Papillomavirus in Amerindians
Cited by: 10
Author(s): Daniela Vargas-Robles, Magda Magris, Natalia Morales, Maurits N.C. de Koning, Iveth Rodríguez, Tahidid Nieves, Filipa Godoy-Vitorino, Gloria Inés Sánchez, Luis David Alcaraz, Larry J. Forney, María-Eglée Pérez, Luis García-Briceño, Leen–Jan van Doorn, Maria Gloria Domínguez-Bello
Software Mentions: 8
Published: over 6 years ago

10.3390/plants10081536

Variation in Gene Expression between Two Sorghum bicolor Lines Differing in Innate Immunity Response
Cited by: 2
Author(s): Yaya Cui, Dongqin Chen, Yuyong Jiang, Dong Xu, Peter Balint‐Kurti, Gary Stacey
Software Mentions: 8
Published: over 3 years ago

10.1186/s12864-020-6534-z

Genome-wide discovery, and computational and transcriptional characterization of an AIG gene family in the freshwater snail Biomphalaria glabrata, a vector for Schistosoma mansoni
Cited by: 17
Author(s): Lijun Lu, Eric S. Loker, Si-Ming Zhang, Sarah Kay Buddenborg, Lijing Bu
Software Mentions: 8
Published: over 4 years ago

10.3389/fgene.2019.00654

The Impact of cDNA Normalization on Long-Read Sequencing of a Complex Transcriptome
Cited by: 5
Author(s): Nam V. Hoang, Agnelo Furtado, Virginie Perlo, Frederik C. Botha, Robert J. Henry
Software Mentions: 8
Published: over 5 years ago

10.1128/mSphere.00488-17

Novel ITS1 Fungal Primers for Characterization of the Mycobiome
Cited by: 68
Author(s): Mykhaylo Usyk, Christine P. Zolnik, Hitesh D. Patel, Michael H. Levi, Robert D. Burk
Software Mentions: 8
Published: almost 7 years ago

10.1016/j.xcrm.2020.100073

Safety and COVID-19 Symptoms in Individuals Recently Vaccinated with BCG: a Retrospective Cohort Study
Cited by: 72
Author(s): Simone J.C.F.M. Moorlag, Rosanne C. van Deuren, Cornelis H. van Werkhoven, Martin Jaeger, Priya A. Debisarun, Esther Taks, Vera P. Mourits, Valerie A C M Koeken, L. Charlotte J. de Bree, Thijs ten Doesschate, Maartje C. P. Cleophas, Sanne P. Smeekens, Marije Oosting, Frank L. van de Veerdonk, Leo A. B. Joosten, Jaap ten Oever, J.W.M. van der Meer, Nigel Curtis, Péter Aaby, Christine Stabell-Benn, Evangelos J. Giamarellos‐Bourboulis, Marc J. M. Bonten, Reinout van Crevel, Mihai G. Netea
Software Mentions: 8
Published: over 4 years ago

10.3389/fmicb.2020.594928

Analysis of Indian SARS-CoV-2 Genomes Reveals Prevalence of D614G Mutation in Spike Protein Predicting an Increase in Interaction With TMPRSS2 and Virus Infectivity
Cited by: 45
Author(s): Sunil K. Raghav, Arup Ghosh, Jyotirmayee Turuk, Satish Kumar, Atimukta Jha, Swati Madhulika, Manasi Priyadarshini, Viplov Kumar Biswas, P. Sushree Shyamli, Balveer Singh, Neha Singh, Deepika Singh, Ankita Datey, Kiran Avula, Shuchi Smita, Jyotsnamayee Sabat, Debdutta Bhattacharya, Jaya Singh Kshatri, Dileep Vasudevan, Amol Ratnakar Suryawanshi, Rupesh Dash, Shantibhusan Senapati, Tushar Kant Beuria, Roy Swain, Soma Chattopadhyay, Gulam Hussain Syed, Anshuman Dixit, Punit Prasad, Sanghamitra Pati, Ajay Parida
Software Mentions: 8
Published: almost 4 years ago

10.1128/AEM.02601-17

Assessing Performance of Spore Samplers in Monitoring Aeromycobiota and Fungal Plant Pathogen Diversity in Canada
Cited by: 23
Author(s): Wen Chen, Sarah Hambleton, Keith A. Seifert, Odile Carisse, Moussa S. Diarra, R. D. Peters, Christine Lowe, Julie T. Chapados, C. André Lévesque
Software Mentions: 8
Published: over 6 years ago

10.18632/oncotarget.6793

Annexin A1 sustains tumor metabolism and cellular proliferation upon stable loss of HIF1A
Cited by: 12
Author(s): Nadine Rohwer, Fabian Bindel, Christina Grimm, Suling J. Lin, Jessica Wappler, Bertram Klinger, Nils Blüthgen, Ilona Du Bois, Bernd Schmeck, Hans Lehrach, Marjo de Graauw, Emanuel Gonçalvès, Julio Sáez-Rodríguez, Patrick Tan, Heike Grabsch, Alessandro Prigione, Stefan Kempa, Thorsten Cramer
Software Mentions: 8
Published: almost 9 years ago

10.1371/journal.pone.0143666

Pathogenesis of Primary Foot-and-Mouth Disease Virus Infection in the Nasopharynx of Vaccinated and Non-Vaccinated Cattle
Cited by: 44
Author(s): Carolina Stenfeldt, Michael Eschbaumer, Juan M. Pacheco, Steven I. Rekant, Luis L. Rodrı́guez, Jonathan Arzt
Software Mentions: 8
Published: almost 9 years ago

10.1186/s12877-021-02346-z

Development of a multivariable prognostic PREdiction model for 1-year risk of FALLing in a cohort of community-dwelling older adults aged 75 years and above (PREFALL)
Cited by: 6
Author(s): Gustav Valentin Gade, Martin Grønbech Jørgensen, Jesper Ryg, Tahir Masud, Lasse Jakobsen, Stig Andersen
Software Mentions: 8
Published: over 3 years ago

10.1186/s12859-016-1007-8

readat: An R package for reading and working with SomaLogic ADAT files
Cited by: 11
Author(s): Richard Cotton, Johannes Graumann
Software Mentions: 8
Published: over 8 years ago

10.3389/fpsyg.2021.601679

Computational Language Assessments of Harmony in Life — Not Satisfaction With Life or Rating Scales — Correlate With Cooperative Behaviors
Cited by: 7
Author(s): Oscar Kjell, Daiva Daukantaité, Sverker Sikström
Software Mentions: 8
Published: over 3 years ago

10.1038/s42003-020-1049-3

Perceptual metacognition of human faces is causally supported by function of the lateral prefrontal cortex
Cited by: 10
Author(s): Regina C. Lapate, Jason Samaha, Bas Rokers, Bradley R. Postle, Richard J. Davidson
Software Mentions: 8
Published: over 4 years ago

10.1371/journal.pone.0127163

Genetic Deletion of the Transcriptional Repressor NFIL3 Enhances Axon Growth In Vitro but Not Axonal Repair In Vivo
Cited by: 2
Author(s): L.R. van der Kallen, Ruben Eggers, Erich Ehlert, Joost Verhaagen, August B. Smit, Ronald E. van Kesteren
Software Mentions: 8
Published: over 9 years ago

10.3390/ani11071940

Prevalence of BRD-Related Viral Pathogens in the Upper Respiratory Tract of Swiss Veal Calves
Cited by: 12
Author(s): Edgar Studer, Lutz Schönecker, Mireille Meylan, Dimitri Stucki, Ronald Dijkman, Melle Holwerda, Anna N. Glaus, Jens Becker
Software Mentions: 8
Published: over 3 years ago

10.1093/plankt/fbz063

Environmental variables driving species and genus level changes in annual plankton biomass
Cited by: 5
Author(s): Louise Forsblom, Jonna Engström‐Öst, Sirpa Lehtinen, Inga Lips, Andreas Lindén
Software Mentions: 8
Published: about 5 years ago

10.3389/fpls.2018.00387

Functional and Taxonomic Differentiation of Macrophyte Assemblages Across the Yangtze River Floodplain Under Human Impacts
Cited by: 22
Author(s): Min Zhang, Jorge García Molinos, Xiaolin Zhang, Jun Xu
Software Mentions: 8
Published: over 6 years ago

10.1371/journal.pone.0220926

Gut microbiome shifts with urbanization and potentially facilitates a zoonotic pathogen in a wading bird
Cited by: 50
Author(s): Maureen H. Murray, Emily W. Lankau, Anjelika D. Kidd, Catharine N. Welch, Taylor Ellison, Henry Adams, Erin K. Lipp, Sonia M. Hernández
Software Mentions: 8
Published: over 4 years ago

10.1371/journal.pone.0203346

Feasibility of developing reliable gene expression modules from FFPE derived RNA profiled on Affymetrix arrays
Cited by: 3
Author(s): Vinu José, Debora Fumagalli, Françoise Rothé, Samira Majjaj, Sherene Loi, Stefan Michiels, Christos Sotiriou
Software Mentions: 8
Published: about 6 years ago

10.1038/s41396-018-0279-6

Bacterial contributions to delignification and lignocellulose degradation in forest soils with metagenomic and quantitative stable isotope probing
Cited by: 228
Author(s): Roland C. Wilhelm, Rahul Singh, Lindsay D. Eltis, William W. Mohn
Software Mentions: 8
Published: about 6 years ago

10.1371/journal.pone.0185528

tsiR: An R package for time-series Susceptible-Infected-Recovered models of epidemics
Cited by: 38
Author(s): Alexander D. Becker, Bryan T. Grenfell
Software Mentions: 8
Published: about 7 years ago

10.1038/s41598-018-36696-3

Immune cell characteristics and cytokine responses in adult HIV-negative tuberculous meningitis: an observational cohort study
Cited by: 23
Author(s): Arjan van Laarhoven, Sofiati Dian, Suzanne van Dorp, Feby Purnama, Valerie A C M Koeken, Emira Diandini, Fitria Utami, Resvi Livia, Lika Apriani, Edwin Ardiansyah, Rob ter Horst, Mihai G. Netea, Tri Hanggono Achmad, Philip C. Hill, Rovina Ruslami, Bachti Alisjahbana, James E. Ussher, Agnes Rengga Indrati, Ayesha Verrall, Ahmad Rizal Ganiem, Reinout van Crevel
Software Mentions: 8
Published: almost 6 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

10.1128/JVI.00388-16

The Foot-and-Mouth Disease Carrier State Divergence in Cattle
Cited by: 85
Author(s): Carolina Stenfeldt, Michael Eschbaumer, Steven I. Rekant, Juan M. Pacheco, George R. Smoliga, E. E. Hartwig, Luis L. Rodrı́guez, Jonathan Arzt
Software Mentions: 8
Published: over 8 years ago

10.1128/mSphere.00737-20

Comparative Genomics Analyses of Lifestyle Transitions at the Origin of an Invasive Fungal Pathogen in the Genus Cryphonectria
Cited by: 16
Author(s): Lea Stauber, Simone Prospero, Daniel Croll
Software Mentions: 7
Published: about 4 years ago

10.7717/peerj.5727

An automated, high-throughput method for standardizing image color profiles to improve image-based plant phenotyping
Cited by: 30
Author(s): Jeffrey C. Berry, Noah Fahlgren, Alexandria A Pokorny, Rebecca Bart, Kira M. Veley
Software Mentions: 7
Published: about 6 years ago

10.7717/peerj.8945

Choosing what is left: the spatial structure of a wild herbivore population within a livestock-dominated landscape
Cited by: 10
Author(s): Maria de Los Milagros Antun, Ricardo Baldi
Software Mentions: 7
Published: over 4 years ago

10.7717/peerj.2574

YUCCAauxin biosynthetic genes are required for Arabidopsis shade avoidance
Cited by: 60
Author(s): Patricia Müller-Moulé, Kazunari Nozue, Melissa L Pytlak, Christine M. Palmer, Michael F. Covington, Andreah D. Wallace, Stacey L. Harmer, Julin Maloof
Software Mentions: 7
Published: about 8 years ago

10.1074/jbc.RA119.008853

Transcriptional profiling of single fiber cells in a transgenic paradigm of an inherited childhood cataract reveals absence of molecular heterogeneity
Cited by: 4
Author(s): Suraj P. Bhat, Rajendra K. Gangalum, Dongjae Kim, Serghei Mangul, Raj K. Kashyap, Xinkai Zhou, David Elashoff
Software Mentions: 7
Published: about 5 years ago

10.7717/peerj.4626

Surface display for metabolic engineering of industrially important acetic acid bacteria
Cited by: 4
Author(s): Marshal Blank, Paul Schweiger
Software Mentions: 7
Published: over 6 years ago

10.1186/s12915-021-01134-w

Comparative analysis reveals within-population genome size variation in a rotifer is driven by large genomic elements with highly abundant satellite DNA repeat elements
Cited by: 7
Author(s): Claus‐Peter Stelzer, Julie Blommaert, Ann‐Marie Waldvogel, Maria Pichler, Bette Hecox-Lea, David Welch
Software Mentions: 7
Published: about 3 years ago

10.1038/s41398-020-01176-8

The placenta protects the fetal circulation from anxiety-driven elevations in maternal serum levels of brain-derived neurotrophic factor
Cited by: 7
Author(s): Hayley Dingsdale, Xinsheng Nan, Samantha M. Garay, Annett Mueller, Lorna Sumption, Pedro Chacón-Fernández, Isabel Martinez‐Garay, Cédric Ghevaert, Yves‐Alain Barde, John Roshan
Software Mentions: 7
Published: almost 4 years ago

Projects: cran: reshape2

Papers Mentioning reshape2 421