10.1371/journal.pone.0238285

Increased risk of adverse events in non-cancer patients with chronic and high-dose opioid use—A health insurance claims analysis
Cited by: 6
Author(s): Jakob M Burgstaller, Ulrike Held, Andri Signorell, Eva Blozik, Johann Steurer, Maria M. Wertli
Software Mentions: 5
Published: almost 6 years ago

10.1186/s12864-018-4541-0

Genetic mapping and comparative genomics to inform restoration enhancement and culture of southern flounder, Paralichthys lethostigma
Cited by: 8
Author(s): Shannon J. O’Leary, Christopher M. Hollenbeck, Robert R. Vega, John R. Gold, David S. Portnoy
Software Mentions: 5
Published: over 8 years ago

10.1186/1752-0509-7-12

Identification of ovarian cancer associated genes using an integrated approach in a Boolean framework
Cited by: 12
Author(s): Gaurav Kumar, Edmond J. Breen, Shoba Ranganathan
Software Mentions: 5
Published: over 13 years ago

10.1186/s12918-015-0174-y

SEEK: a systems biology data and model management platform
Cited by: 79
Author(s): Katy Wolstencroft, Stuart Owen, Olga Krebs, Quyen Le Hoang Thuy To Nguyen, Natalie J. Stanford, Martin Golebiewski, Andreas Weidemann, Meik Bittkowski, Lin An, David Shockley, Jacky L. Snoep, Wolfgang Mueller, Carole Goble
Software Mentions: 5
Published: about 11 years ago

10.3390/ijms22179228

SARS-CoV-2 Impairs Dendritic Cells and Regulates DC-SIGN Gene Expression in Tissues
Cited by: 13
Author(s): Guoshuai Cai, Mulong Du, Yohan Bossé, Helmut Albrecht, Fei Qin, Xizhi Luo, X Michelle Androulakis, Chao Cheng, Mitzi Nagarkatti, Mitzi Nagarkatti, David C. Christiani, Michael L. Whitfield, Christopher I. Amos, Feifei Xiao
Software Mentions: 5
Published: almost 5 years ago

10.1038/s41598-017-16739-x

Scene grammar shapes the way we interact with objects, strengthens memories, and speeds search
Cited by: 59
Author(s): Dejan Draschkow, Melissa L.-H. Võ
Software Mentions: 5
Published: over 8 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

10.1038/s41598-021-85669-6

Transcriptome of rhesus macaque (Macaca mulatta) exposed to total-body irradiation
Cited by: 12
Author(s): Yaoxiang Li, Jatinder Singh, Rency S. Varghese, Yubo Zhang, Oluseyi O. Fatanmi, Amrita K. Cheema, Vijay K. Singh
Software Mentions: 5
Published: over 5 years ago

10.3389/fimmu.2021.669920

Myeloid ATP Citrate Lyase Regulates Macrophage Inflammatory Responses In Vitro Without Altering Inflammatory Disease Outcomes
Cited by: 6
Author(s): Sanne G.S. Verberk, Hendrik J. P. van der Zande, Jeroen Baardman, Kyra E. de Goede, Karl J. Harber, Eelco D. Keuning, Joost M. Lambooij, Frank Otto, Anna Zawistowska-Deniziak, Helga E. de Vries, Menno P.J. de Winther, Bruno Guigas, Jan Van den Bossche
Software Mentions: 5
Published: about 5 years ago

10.1038/s41598-021-84497-y

Gut microbiota resilience in horse athletes following holidays out to pasture
Cited by: 15
Author(s): Núria Mach, Léa Lansade, David Bars-Cortina, Sophie Dhorne–Pollet, Aline Foury, Marie‐Pierre Moisan, Alice Ruet
Software Mentions: 5
Published: over 5 years ago

10.1371/journal.ppat.1007926

Trickle infection and immunity to Trichuris muris
Cited by: 33
Author(s): Maya Glover, Stefano A. P. Colombo, David J. Thornton, Richard K. Grencis
Software Mentions: 5
Published: over 6 years ago

10.1371/journal.pone.0138726

The Relationship of Immune Cell Signatures to Patient Survival Varies within and between Tumor Types
Cited by: 24
Author(s): Peter S. Linsley, Damien Chaussabel, Cate Speake
Software Mentions: 5
Published: almost 11 years ago

10.1016/j.celrep.2021.109423

RHOX10 drives mouse spermatogonial stem cell establishment through a transcription factor signaling cascade
Cited by: 11
Author(s): Kun Tan, H. C. Song, Miles Wilkinson
Software Mentions: 5
Published: about 5 years ago

10.1186/s13059-014-0579-8

Pancancer analysis of DNA methylation-driven genes using MethylMix
Cited by: 102
Author(s): Olivier Gevaert, Robert Tibshirani, Sylvia K. Plevritis
Software Mentions: 5
Published: over 11 years ago

10.3389/fcvm.2021.694238

AKR1C3 and Its Transcription Factor HOXB4 Are Promising Diagnostic Biomarkers for Acute Myocardial Infarction
Cited by: 7
Author(s): Jingjing Liang, Yue Cao, Minqiang He, Weiwen Li, Guan‐Jiang Huang, Tianyi Ma, Meijun Li, Yuli Huang, Xiaohui Huang, Yunzhao Hu
Software Mentions: 5
Published: almost 5 years ago

10.7554/eLife.53839

Cancer systems immunology
Cited by: 12
Author(s): Nathan E. Reticker-Flynn, Edgar G. Engleman
Software Mentions: 5
Published: about 6 years ago

10.1371/journal.pone.0228880

Spatio-temporal variation of Cerambycidae-host tree interaction networks
Cited by: 8
Author(s): Michelle Ramos‐Robles, Orthon Ricardo Vargas‐Cardoso, Angélica María Corona‐López, Alejandro Flores‐Palacios, Víctor Hugo Toledo‐Hernández
Software Mentions: 5
Published: over 6 years ago

10.1186/1471-2229-8-99

Regulon organization of Arabidopsis
Cited by: 95
Author(s): Wieslawa I. Mentzen, Eve Syrkin Wurtele
Software Mentions: 5
Published: over 18 years ago

10.1186/s13059-015-0685-2

Distinct roles of DNMT1-dependent and DNMT1-independent methylation patterns in the genome of mouse embryonic stem cells
Cited by: 64
Author(s): Chi Kong Li, Hongzheng Dai, Suzanne N. Martos, Beisi Xu, Yang Gao, Li Teng, Guangjing Zhu, Dustin E. Schones, Zhibin Wang
Software Mentions: 5
Published: about 11 years ago

10.1186/s13059-016-0930-3

Beyond comparisons of means: understanding changes in gene expression at the single-cell level
Cited by: 89
Author(s): Catalina A. Vallejos, Sylvia Richardson, John C. Marioni
Software Mentions: 5
Published: over 10 years ago

10.1038/srep24362

Perceptual drifts of real and artificial limbs in the rubber hand illusion
Cited by: 43
Author(s): Xaver Fuchs, Martin Riemer, Martin Diers, Herta Flor, Jörg Trojan
Software Mentions: 5
Published: about 10 years ago

10.3389/fimmu.2021.716661

The Metabolic Landscape of Thymic T Cell Development In Vivo and In Vitro
Cited by: 10
Author(s): Victoria Sun, Mark S. Sharpley, Karolina Elżbieta Kaczor‐Urbanowicz, Peter Chang, Amélie Montel‐Hagen, S. R. Lopez, Alexandre Zampieri, Yuhua Zhu, Stéphanie C. de Barros, Chintan Parekh, David Casero, Utpal Banerjee, Gay M. Crooks
Software Mentions: 5
Published: almost 5 years ago

10.1186/s40478-017-0414-z

Serum microRNA miR-501-3p as a potential biomarker related to the progression of Alzheimer’s disease
Cited by: 118
Author(s): Norikazu Hara, Masataka Kikuchi, Akinori Miyashita, Hiroyuki Hatsuta, Yuko Saito, Kensaku Kasuga, Shigeo Murayama, Takeshi Ikeuchi, Ryozo Kuwano
Software Mentions: 5
Published: over 9 years ago

10.1371/journal.pgen.1007981

Disruption of the Caenorhabditis elegans Integrator complex triggers a non-conventional transcriptional mechanism beyond snRNA genes
Cited by: 29
Author(s): Eva Gómez-Orte, Beatriz Sáenz-Narciso, Angelina Zheleva, Begoña Ezcurra, María de Toro, Rosa López, Irene Gastaca, Hilde Nilsen, María P. Sacristán, Ralf Schnabel, Juan Cabello
Software Mentions: 5
Published: over 7 years ago

10.1098/rsfs.2020.0007

Rapid, accurate, precise and reproducible ligand–protein binding free energy prediction
Cited by: 71
Author(s): Shunzhou Wan, Agastya P. Bhati, Stefan J. Zasada, Peter V. Coveney
Software Mentions: 5
Published: over 5 years ago

10.1172/JCI133187

Mesenchymal niche remodeling impairs hematopoiesis via stanniocalcin 1 in acute myeloid leukemia
Cited by: 45
Author(s): Alexander Waclawiczek, Ashley Hamilton, Kevin Rouault-Pierre, Ander Abarrategi, Manuel Garcia-Albornoz, Farideh Miraki-Moud, Nourdine Bah, John G. Gribben, Jude Fitzgibbon, David Taussig, Dominique Bonnet
Software Mentions: 5
Published: about 6 years ago

10.1371/journal.pcbi.1008473

A joint modeling approach for longitudinal microbiome data improves ability to detect microbiome associations with disease
Cited by: 7
Author(s): Pamela N. Luna, Jonathan M. Mansbach, Chad A. Shaw
Software Mentions: 5
Published: over 5 years ago

10.3389/fmolb.2021.633299

Identification of Lymph Node Metastasis–Related Key Genes and Prognostic Risk Model in Bladder Cancer by Co-Expression Analysis
Cited by: 8
Author(s): Cheng Luo, Bin Huang, Yukun Wu, Yadong Xu, Wei Ou, Junxing Chen, Lingwu Chen
Software Mentions: 5
Published: almost 5 years ago

10.1186/s13059-019-1906-x

scRNA-seq assessment of the human lung, spleen, and esophagus tissue stability after cold preservation
Cited by: 257
Author(s): Elo Madissoon, Anna Wilbrey-Clark, Ricardo J. Miragaia, Kourosh Saeb‐Parsy, Krishnaa Mahbubani, Nikitas Georgakopoulos, Philippa Harding, Krzysztof Polański, Ni Huang, Karol Nowicki-Osuch, Rebecca C. Fitzgerald, Kevin Loudon, John R. Ferdinand, Menna R. Clatworthy, Anthi Tsingene, Stijn van Dongen, Monika Dąbrowska, Minal Patel, Michael J T Stubbington, Sarah A. Teichmann, Oliver Stegle, Kerstin B. Meyer
Software Mentions: 5
Published: over 6 years ago

10.1038/s41598-021-88452-9

Understanding the role of aerobic fitness, spatial learning, and hippocampal subfields in adolescent males
Cited by: 5
Author(s): Sandhya Prathap, Bonnie J. Nagel, Megan M. Herting
Software Mentions: 5
Published: about 5 years ago

10.1038/srep17084

Increased diversity of egg-associated bacteria on brown trout (Salmo trutta) at elevated temperatures
Cited by: 22
Author(s): Laetitia G. E. Wilkins, Aude Rogivue, Frédéric Schütz, Luca Fumagalli, Claus Wedekind
Software Mentions: 5
Published: over 10 years ago

10.1038/s41598-021-81332-2

Low serum total CO2 and its association with mortality in patients being followed up in the nephrology outpatients clinic
Cited by: 0
Author(s): Kyung Don Yoo, Jung Nam An, Yong Chul Kim, Jeonghwan Lee, Kwon Wook Joo, Yun Kyu Oh, Yon Su Kim, Chun Soo Lim, Sohee Oh, Jung Pyo Lee
Software Mentions: 5
Published: over 5 years ago

10.1186/s12920-016-0201-x

Single and multi-subject clustering of flow cytometry data for cell-type identification and anomaly detection
Cited by: 7
Author(s): Maziyar Baran Pouyan, Vasu Jindal, Javad Birjandtalab, Mehrdad Nourani
Software Mentions: 5
Published: almost 10 years ago

10.1186/1471-2105-11-403

Data reduction for spectral clustering to analyze high throughput flow cytometry data
Cited by: 142
Author(s): Habil Zare, Parisa Shooshtari, Arvind Gupta, Ryan R. Brinkman
Software Mentions: 5
Published: almost 16 years ago

10.1111/eva.12708

The genetic legacy of 50 years of desert bighorn sheep translocations
Cited by: 27
Author(s): Joshua P. Jahner, Marjorie D. Matocq, Jason L. Malaney, Mike Cox, Peregrine L. Wolff, Mitchell A. Gritts, Thomas L. Parchman
Software Mentions: 5
Published: over 7 years ago

10.1002/ece3.5795

Climatic and vegetational drivers of insect beta diversity at the continental scale
Cited by: 10
Author(s): Douglas Chesters, Philip Beckschäfer, Michael C. Orr, Sarah J. Adamowicz, Kwok Pan Chun, Chao Zhu
Software Mentions: 5
Published: over 6 years ago

10.1371/journal.pcbi.0030116

Machine Learning and Its Applications to Biology
Cited by: 482
Author(s): Adi L. Tarca, Vincent J. Carey, Xuewen Chen, Roberto Romero, Sorin Drăghici
Software Mentions: 5
Published: about 19 years ago

10.1371/journal.pone.0158691

Single-Locus versus Multilocus Patterns of Local Adaptation to Climate in Eastern White Pine (Pinus strobus, Pinaceae)
Cited by: 28
Author(s): Om P. Rajora, Andrew J. Eckert, John W. R. Zinck
Software Mentions: 5
Published: about 10 years ago

10.1371/journal.pone.0092725

ss3sim: An R Package for Fisheries Stock Assessment Simulation with Stock Synthesis
Cited by: 19
Author(s): Sean C. Anderson, Cole C. Monnahan, Kelli F. Johnson, Kotaro Ono, Juan L. Valero
Software Mentions: 5
Published: over 12 years ago

10.1186/s40246-020-00291-3

Aldh1l2 knockout mouse metabolomics links the loss of the mitochondrial folate enzyme to deregulation of a lipid metabolism observed in rare human disorder
Cited by: 9
Author(s): Natalia I. Krupenko, Jaspreet Sharma, Peter Pediaditakis, Kristi L. Helke, Madeline S. Hall, Xiuxia Du, Susan Sumner, Sergey A. Krupenko
Software Mentions: 5
Published: over 5 years ago

10.1186/s40168-015-0146-x

Metatranscriptomic analysis of diverse microbial communities reveals core metabolic pathways and microbiome-specific functionality
Cited by: 91
Author(s): Yue Jiang, Xuejian Xiong, Jayne S. Danska, John Parkinson
Software Mentions: 5
Published: over 10 years ago

10.1126/sciimmunol.abc3582

TMPRSS2 and TMPRSS4 promote SARS-CoV-2 infection of human small intestinal enterocytes
Cited by: 754
Author(s): Ruochen Zang, María Florencia Gómez Castro, Broc T. McCune, Qiru Zeng, Paul W. Rothlauf, Naomi Sonnek, Zhuoming Liu, Kevin Brulois, Xin Wang, Harry B. Greenberg, Michael S. Diamond, Matthew A. Ciorba, Sean P. J. Whelan, Siyuan Ding
Software Mentions: 5
Published: about 6 years ago

10.1128/mSystems.00132-17

Direct PCR Offers a Fast and Reliable Alternative to Conventional DNA Isolation Methods for Gut Microbiomes
Cited by: 18
Author(s): Elin Videvall, Maria Strandh, Anel Engelbrecht, S.W.P. Cloete, Charlie K. Cornwallis
Software Mentions: 5
Published: over 8 years ago

10.1016/j.chom.2020.01.004

Bacteriophages Isolated from Stunted Children Can Regulate Gut Bacterial Communities in an Age-Specific Manner
Cited by: 79
Author(s): Mohammadali Khan Mirzaei, Anik Ashfaq Khan, Prakash Ghosh, Zofia E. Taranu, Mariia Taguer, Jinlong Ru, Rajashree Chowdhury, Md. Mamun Kabir, Li Deng, Dinesh Mondal, Corinne F. Maurice
Software Mentions: 5
Published: over 6 years ago

10.1038/s41598-018-21988-5

Continental-scale animal tracking reveals functional movement classes across marine taxa
Cited by: 39
Author(s): Stephanie Brodie, Elodie J. I. Lédée, Michelle R. Heupel, Russell C. Babcock, Hamish A. Campbell, Daniel C. Gledhill, Xavier Hoenner, Charlie Huveneers, Fabrice R. A. Jaine, Colin A. Simpfendorfer, Matthew D. Taylor, Vinay Udyawer, Robert Harcourt
Software Mentions: 5
Published: over 8 years ago

10.1038/s41598-020-80151-1

Dispersal and competitive release affect the management of native and invasive tephritid fruit flies in large and smallholder farms in Ethiopia
Cited by: 3
Author(s): Tibebe Dejene Biasazin, Tadiwos W. Wondimu, Sebastian Larsson Herrera, Mattias C. Larsson, Agenor Mafra‐Neto, Yitbarek W. Gessese, Teun Dekker
Software Mentions: 5
Published: over 5 years ago

10.1590/1678-4685-GMB-2019-0270

Methodological differences can affect sequencing depth with a possible impact on the accuracy of genetic diagnosis
Cited by: 2
Author(s): Murilo Guimarães Borges, Cristiane S. Rocha, Benilton Carvalho, Íscia Lopes‐Cendes
Software Mentions: 5
Published: over 6 years ago

10.18632/aging.102983

Survival-associated alternative splicing signatures in non-small cell lung cancer
Cited by: 21
Author(s): Delong Zhao, Chuantao Zhang, Man Jiang, Yongjie Wang, Liang Yu, Li Wang, Kang Qin, Faisal Rehman
Software Mentions: 5
Published: over 6 years ago

10.1371/journal.pone.0205427

Identification of gene expression predictors of occupational benzene exposure
Cited by: 11
Author(s): Courtney Schiffman, Cliona M. McHale, Alan Hubbard, Luoping Zhang, Reuben Thomas, Roel Vermeulen, Guilan Li, Min Shen, Stephen M. Rappaport, Shu Yin, Qing Lan, Martyn T. Smith, Nathaniel Rothman
Software Mentions: 5
Published: almost 8 years ago

10.1186/s12872-021-01961-3

Distinguishing cardiac myxomas from cardiac thrombi by a radiomics signature based on cardiovascular contrast-enhanced computed tomography images
Cited by: 3
Author(s): Wen-Lei Qian, Jiang Yu, Xi Liu, Yingkun Guo, Yuan Li, Xin Tang, Zhigang Yang
Software Mentions: 5
Published: over 5 years ago

10.3390/ijms21051894

The Polymorphic PolyQ Tail Protein of the Mediator Complex, Med15, Regulates the Variable Response to Diverse Stresses
Cited by: 7
Author(s): Gallagher Jeg, Ser Sl, Michael C. Ayers, C Nassif, Amaury Pupo
Software Mentions: 5
Published: over 6 years ago

10.1186/s13578-020-00517-w

Identification of predictors based on drug targets highlights accurate treatment of goserelin in breast and prostate cancer
Cited by: 6
Author(s): Yue Zhao, Huimin Sun, Jianzhong Zheng, Chen Shao, Dongwei Zhang
Software Mentions: 5
Published: over 5 years ago

10.1038/s41422-020-0385-7

Stabilization of heterochromatin by CLOCK promotes stem cell rejuvenation and cartilage regeneration
Cited by: 51
Author(s): Chuqian Liang, Zunpeng Liu, Moshi Song, Wei Li, Zeming Wu, Zehua Wang, Qiaoran Wang, Si Wang, Yan Ke, Liang Sun, Tomoaki Hishida, Yanning Cai, Juan Carlos Izpisúa Belmonte, Pedro Guillén, Piu Chan, Qi Zhou, Weiqi Zhang, Jing Qu, Guanghui Liu
Software Mentions: 5
Published: almost 6 years ago

10.1186/s40168-020-00893-y

Antimicrobial drug use in the first decade of life influences saliva microbiota diversity and composition
Cited by: 16
Author(s): Sajan C. Raju, Heli Viljakainen, Rejane Augusta de Oliveira Figueiredo, Pertti J. Neuvonen, Johan G. Eriksson, Elisabete Weiderpass, Trine B. Rounge
Software Mentions: 5
Published: almost 6 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: over 5 years ago

10.3389/fpls.2021.636652

Non-target Site Herbicide Resistance Is Conferred by Two Distinct Mechanisms in Black-Grass (Alopecurus myosuroides)
Cited by: 25
Author(s): S. Franco Ortega, Alina Goldberg-Cavalleri, Andrew Walker, Melissa Brazier‐Hicks, Nawaporn Onkokesung, Robert Edwards
Software Mentions: 5
Published: over 5 years ago

10.1186/s12859-016-1440-8

TTCA: an R package for the identification of differentially expressed genes in time course microarray data
Cited by: 15
Author(s): Marco Albrecht, Damian Stichel, Bettina Müller, Ruth Merkle, Carsten Sticht, Norbert Gretz, Ursula Klingmüller, Kai Breuhahn, Franziska Matthäus
Software Mentions: 5
Published: over 9 years ago

10.1016/j.cmet.2020.03.003

Microbiota-Derived Metabolites Suppress Arthritis by Amplifying Aryl-Hydrocarbon Receptor Activation in Regulatory B Cells
Cited by: 247
Author(s): Elizabeth C. Rosser, Christopher Piper, Diana E. Matei, Paul A. Blair, André F. Rendeiro, Michael Orford, Dagmar Alber, Thomas Krausgruber, Diego Catalán, Nigel Klein, Jessica Manson, Ignat Drozdov, Christoph Bock, Lucy R. Wedderburn, Simon Eaton, Claudia Mauri
Software Mentions: 5
Published: over 6 years ago

10.3389/fbioe.2021.701778

Towards the Experimentally-Informed In Silico Nozzle Design Optimization for Extrusion-Based Bioprinting of Shear-Thinning Hydrogels
Cited by: 24
Author(s): Esther Reina-Romo, Sourav Mandal, Paulo Alexandre Amorim, Veerle Bloemen, Eleonora Ferraris, Liesbet Geris
Software Mentions: 5
Published: almost 5 years ago

10.1186/s12863-015-0179-y

ALDsuite: Dense marker MALD using principal components of ancestral linkage disequilibrium
Cited by: 3
Author(s): Randall C. Johnson, George W. Nelson, Jean‐François Zagury, Cheryl A. Winkler
Software Mentions: 5
Published: over 11 years ago

10.3389/fmed.2021.637885

Acid pH Increases SARS-CoV-2 Infection and the Risk of Death by COVID-19
Cited by: 19
Author(s): Leandro Jimenez, Ana Campos Codo, Vanderson de Souza Sampaio, Antônio Edson Rocha Oliveira, Lucas Kaoru Kobo Ferreira, Gustavo Gastão Davanzo, Lauar de Brito Monteiro, João Victor Virgílio-da-Silva, Mayla Gabriela Silva Borba, Gabriela Fabiano de Souza, Nathalia Zini, F Gandolfi, Stéfanie Primon Muraro, José Luiz Proença-Módena, Fernando Almeida Val, Gisely Cardoso de Melo, Wuelton Marcelo Monteiro, Maurício Lacerda Nogueira, Marcus Vinícius Guimarães Lacerda, Pedro M. Moraes‐Vieira, Helder I. Nakaya
Software Mentions: 5
Published: almost 5 years ago

10.3389/fnut.2019.00058

Integrated Analysis of Human Milk Microbiota With Oligosaccharides and Fatty Acids in the CHILD Cohort
Cited by: 66
Author(s): Shirin Moossavi, Faisal Atakora, Kozeta Miliku, Shadi Sepehri, Bianca Robertson, Qing Duan, Allan B. Becker, Piushkumar J. Mandhane, Stuart E. Turvey, Theo J. Moraes, Diana L. Lefebvre, Malcolm R. Sears, Padmaja Subbarao, Catherine J. Field, Lars Bode, Ehsan Khafipour, Meghan B. Azad
Software Mentions: 5
Published: about 7 years ago

10.3390/v12121424

NCBI’s Virus Discovery Codeathon: Building “FIVE” —The Federated Index of Viral Experiments API Index
Cited by: 3
Author(s): Joan Martí-Carreras, Alejandro Rafael Gener, Sierra Miller, Anderson F. Brito, Christiam Camacho, Ryan Connor, Ward Deboutte, Cody Glickman, David M. Kristensen, Wynn K. Meyer, Sejal Modha, Alexis L. Norris, Surya Saha, Anna K. Belford, Evan Biederstedt, J. Rodney Brister, Jan P. Buchmann, Nicholas P. Cooley, Robert A. Edwards, Kiran Javkar, Michael Muchow, Harihara Subrahmaniam Muralidharan, Charles Pepe-Ranney, Nidhi Shah, Migun Shakya, Michael J. Tisza, Benjamin J. Tully, Bert Vanmechelen, Valerie Christine Virta, Jake L. Weissman, Vadim Zalunin, Alexandre Efremov, Ben Busby
Software Mentions: 5
Published: over 5 years ago

10.1007/s13353-020-00569-1

Differential expression of lung adenocarcinoma transcriptome with signature of tobacco exposure
Cited by: 11
Author(s): Raneem Y Hammouz, Joanna Kostanek, Aleksandra Dudzisz, Piotr J Witas, Magdalena Orzechowska, Andrzej K. Bednarek
Software Mentions: 5
Published: about 6 years ago

10.3390/ijms20092202

Dynamic Transcriptome Changes Related to Oil Accumulation in Developing Soybean Seeds
Cited by: 22
Author(s): Songnan Yang, Long Miao, Jianbo He, Kai Zhang, Yan Li, Junyi Gai
Software Mentions: 5
Published: about 7 years ago

10.1172/jci.insight.148694

Natural mucosal barriers and COVID-19 in children
Cited by: 113
Author(s): Carl A. Pierce, Sharlene Sy, Benjamin T. Galen, D. Yitzchak Goldstein, Erika P. Orner, Marla J. Keller, Kevan C. Herold, Betsy C. Herold
Software Mentions: 5
Published: about 5 years ago

10.1186/s13058-019-1158-4

Machine learning techniques for personalized breast cancer risk prediction: comparison with the BCRAT and BOADICEA models
Cited by: 68
Author(s): Chang Ming, Valeria Viassolo, Nicole Probst‐Hensch, Pierre O. Chappuis, Ivo D. Dinov, Maria C. Katapodi
Software Mentions: 5
Published: about 7 years ago

10.7717/peerj.8549

Invasive vegetation affects amphibian skin microbiota and body condition
Cited by: 7
Author(s): Obed Hernández‐Gómez, Allison Q. Byrne, Alex R. Gunderson, Thomas S. Jenkinson, Clay F. Noss, Andrew P. Rothstein, Molly C. Womack, Erica Bree Rosenblum
Software Mentions: 5
Published: over 6 years ago

10.3389/fonc.2021.668595

Prognostic and Predicted Significance of FENDRR in Colon and Rectum Adenocarcinoma
Cited by: 2
Author(s): Fan Yang, Siyu Sun, Fei Yang
Software Mentions: 5
Published: almost 5 years ago

10.3389/fgene.2019.01386

Alveolar Macrophage Chromatin Is Modified to Orchestrate Host Response to Mycobacterium bovis Infection
Cited by: 17
Author(s): Thomas J. Hall, Douglas Vernimmen, John Andrew Browne, Michael P. Mullen, Stephen V. Gordon, David E. MacHugh, Alan M. O’Doherty
Software Mentions: 5
Published: over 6 years ago

10.7150/jca.37637

Tumour-Infiltrating Immune Cell-Based Subtyping and Signature Gene Analysis in Breast Cancer Based on Gene Expression Profiles
Cited by: 15
Author(s): Jingxin Jiang, Weiwei Pan, Yazhang Xu, Chao Ni, Dan Xue, Zhigang Chen, Wuzhen Chen, Jian Huang
Software Mentions: 5
Published: over 6 years ago

10.3390/jpm11010011

Pharmacogenomics at the Point of Care: A Community Pharmacy Project in British Columbia
Cited by: 12
Author(s): Samantha Breaux, Francis Arthur Derek Desrosiers, Mauricio Neira, Sunita Sinha, Corey Nislow
Software Mentions: 5
Published: over 5 years ago

10.1371/journal.pone.0217363

The geographical configuration of a language area influences linguistic diversity
Cited by: 12
Author(s): John L. A. Huisman, Asifa Majid, R.W.N.M. van Hout
Software Mentions: 5
Published: about 7 years ago

10.1186/s40168-021-01009-w

Age and sex-associated variation in the multi-site microbiome of an entire social group of free-ranging rhesus macaques
Cited by: 35
Author(s): Mareike C. Janiak, Michael J. Montague, Catalina I. Villamil, Michala K. Stock, Amber E. Trujillo, Allegra N. DePasquale, Joseph D. Orkin, Samuel E. Bauman Surratt, Olga González, Michael L. Platt, Melween I. Martínez, Susan C. Antón, Maria Gloria Domínguez-Bello, Amanda D. Melin, James P. Higham
Software Mentions: 5
Published: over 5 years ago

10.1016/j.celrep.2019.04.098

The Genomic and Immune Landscapes of Lethal Metastatic Breast Cancer
Cited by: 85
Author(s): Leticia De Mattos-Arruda, Stephen‐John Sammut, Edith Ross, Rachael Bashford-Rogers, Erez Greenstein, Havell Markus, Sandro Morganella, Yvonne H. F. Teng, Yosef E. Maruvka, Bernard Pereira, Oscar M. Rueda, Suet-Feung Chin, Tania Contente-Cuomo, Regina Mayor, Alexandra Arias, H. Raza Ali, Wei Cope, Daniel Guimarães Tiezzi, Aliakbar Dariush, Tauanne Dias Amarante, Dan Reshef, Nikaoly Ciriaco, Elena Martinez-Saez, Vicente Peg, Santiago Ramón y Cajal, Javier Cortés, George S. Vassiliou, Gad Getz, Serena Nik-Zainal, Muhammed Murtaza, Nir Friedman, Florian Markowetz, Joan Seoane, Carlos Caldas
Software Mentions: 5
Published: about 7 years ago

10.3389/fimmu.2018.01286

seq-ImmuCC: Cell-Centric View of Tissue Transcriptome Measuring Cellular Compositions of Immune Microenvironment From Mouse RNA-Seq Data
Cited by: 61
Author(s): Ziyi Chen, Lijun Quan, Anfei Huang, Qiang Zhao, Yuan Yao, Xuye Yuan, Qin Shen, Jingzhe Shang, Yinyin Ben, F. Xiao-Feng Qin, Aiping Wu
Software Mentions: 5
Published: about 8 years ago

10.1186/s12864-017-3660-3

Highly localized divergence within supergenes in Atlantic cod (Gadus morhua) within the Gulf of Maine
Cited by: 37
Author(s): Bryan T. Barney, Christiane Munkholm, David R. Walt, Stephen R. Palumbi
Software Mentions: 5
Published: over 9 years ago

10.7554/eLife.64977

Unique integrated stress response sensors regulate cancer cell susceptibility when Hsp70 activity is compromised
Cited by: 11
Author(s): Sara Sannino, Megan E. Yates, Mark E. Schurdak, Steffi Oesterreich, Adrian V. Lee, Peter Wipf, Jeffrey L. Brodsky
Software Mentions: 5
Published: about 5 years ago

10.1038/s41598-019-40375-2

Transcriptome analysis of rumen epithelium and meta-transcriptome analysis of rumen epimural microbial community in young calves with feed induced acidosis
Cited by: 21
Author(s): Wenli Li, S.L. Gelsinger, Andrea Edwards, Christina Riehle, Daniel C. Koch
Software Mentions: 5
Published: over 7 years ago

10.1371/journal.pone.0235758

Development and validation of risk prediction models for multiple cardiovascular diseases and Type 2 diabetes
Cited by: 16
Author(s): Mehrdad Rezaee, Igor Putrenko, Arsia Takeh, Andrea Ganna, Erik Ingelsson
Software Mentions: 5
Published: almost 6 years ago

10.1038/s41598-018-36840-z

Identification of candidate neoantigens produced by fusion transcripts in human osteosarcomas
Cited by: 28
Author(s): Susan K. Rathe, Flavia E. Popescu, James E. Johnson, Adrienne L. Watson, Tracy A. Marko, Branden S. Moriarity, John R. Ohlfest, David A. Largaespada
Software Mentions: 5
Published: over 7 years ago

10.3389/fonc.2019.01212

Stromal-Immune Score-Based Gene Signature: A Prognosis Stratification Tool in Gastric Cancer
Cited by: 114
Author(s): Hao Wang, Xiaosheng Wu, Yiming Chen
Software Mentions: 5
Published: over 6 years ago

10.3389/fgene.2018.00112

Sequence Analysis of APOA5 Among the Kuwaiti Population Identifies Association of rs2072560, rs2266788, and rs662799 With TG and VLDL Levels
Cited by: 11
Author(s): Anfal A. Jasim, Suzanne A. Al-Bustan, Wafa Y. Al-Kandari, Ahmad Al-Serri, Huda Alaskar
Software Mentions: 5
Published: over 8 years ago

10.26508/lsa.202000709

Myeloid transformation by <i>MLL</i>-<i>ENL</i> depends strictly on C/EBP
Cited by: 4
Author(s): Radosław Wesołowski, Elisabeth Kowenz‐Leutz, Karin Zimmermann, Dorothea Dörr, Maria Hofstätter, Robert K. Slany, Alexander Mildner, Achim Leutz
Software Mentions: 5
Published: over 5 years ago

10.1038/s41419-019-1821-9

C-Jun drives melanoma progression in PTEN wild type melanoma cells
Cited by: 21
Author(s): Melanie Kappelmann‐Fenzl, Claudia Gebhard, Alexander Matthies, Silke Kuphal, Michael Rehli, Anja Boßerhoff
Software Mentions: 5
Published: almost 7 years ago

10.3389/fmicb.2016.01335

Visual Comparative Omics of Fungi for Plant Biomass Deconstruction
Cited by: 31
Author(s): Shingo Miyauchi, David Navarro, Igor V. Grigoriev, Anna Lipzen, Robert Riley, Didier Chevret, Sacha Grisel, Jean‐Guy Berrin, Bernard Henrissat, Marie‐Noëlle Rosso
Software Mentions: 5
Published: almost 10 years ago

10.3389/fpsyg.2021.649867

Psychometric Properties of the German Version of the Self-Regulation of Eating Behavior Questionnaire
Cited by: 2
Author(s): Ileana Schmalbach, Bjarne Schmalbach, Markus Zenger, Katja Petrowski, Manfred E. Beutel, Anja Hilbert, Elmar Brähler
Software Mentions: 5
Published: over 5 years ago

10.3389/fcell.2021.707677

The Identification of the Metabolism Subtypes of Skin Cutaneous Melanoma Associated With the Tumor Microenvironment and the Immunotherapy
Cited by: 8
Author(s): Ronghua Yang, Zhengguang Wang, Jiehua Li, Xiaobing Pi, Gao Run-xing, Jun Ma, Yi Qu, Sitong Zhou
Software Mentions: 5
Published: almost 5 years ago

10.1371/journal.pone.0048565

Ecological Succession, Hydrology and Carbon Acquisition of Biological Soil Crusts Measured at the Micro-Scale
Cited by: 14
Author(s): Matthew Tighe, Rebecca E. Haling, Richard J. Flavel, Iain M. Young
Software Mentions: 5
Published: over 13 years ago

10.3390/ijms21031067

Full-Length Transcriptome Assembly of Italian Ryegrass Root Integrated with RNA-Seq to Identify Genes in Response to Plant Cadmium Stress
Cited by: 32
Author(s): Zhaoyang Hu, Yufei Zhang, Yue Ping He, Qingqing Cao, Ting Zhang, Laiqing Lou, Qingqing Cai
Software Mentions: 5
Published: over 6 years ago

10.3390/cells9020323

Painting of Fourth and the X-Linked 1.688 Satellite in D. melanogaster Is Involved in Chromosome-Wide Gene Regulation
Cited by: 6
Author(s): Samaneh Ekhteraei-Tousi, Jacob Lewerentz, Jonas Larsson
Software Mentions: 5
Published: over 6 years ago

10.7717/peerj.10539

Composition and distribution of fish environmental DNA in an Adirondack watershed
Cited by: 2
Author(s): Robert S. Cornman, James E. McKenna, Jennifer A. Fike
Software Mentions: 5
Published: over 5 years ago

10.3389/fmicb.2018.02121

Antibiotic Effects on Microbial Communities Responsible for Denitrification and N2O Production in Grassland Soils
Cited by: 48
Author(s): Miguel Semedo, Bongkeun Song, Tavis Sparrer, R. Phillips
Software Mentions: 5
Published: almost 8 years ago

10.1002/2211-5463.13085

<i>IGLL5</i> is correlated with tumor‐infiltrating immune cells in clear cell renal cell carcinoma
Cited by: 11
Author(s): Zian Xia, Xingyuan Wang, Licheng Cai, Wengang Jian, Cheng Zhang
Software Mentions: 5
Published: over 5 years ago

10.3389/fonc.2020.01195

Multi-Omics Characterization of the 4T1 Murine Mammary Gland Tumor Model
Cited by: 82
Author(s): Barbara Schrörs, Sebastian Boegel, Christian Albrecht, Thomas Bukur, Valesca Bukur, Christoph Holtsträter, Christoph Ritzel, Katja Manninen, Arbel D. Tadmor, Mathias Vormehr, Uğur Şahin, Martin Löwer
Software Mentions: 5
Published: almost 6 years ago

10.1098/rspb.2018.2697

Beyond the visual: using metabarcoding to characterize the hidden reef cryptobiome
Cited by: 38
Author(s): Susana Carvalho, Eva Aylagas, Rodrigo Villalobos, Yasser Kattan, Michael L. Berumen, John K. Pearman
Software Mentions: 5
Published: over 7 years ago

10.1038/s41396-020-0669-4

Genome diversification in globally distributed novel marine Proteobacteria is linked to environmental adaptation
Cited by: 96
Author(s): Zhichao Zhou, Patricia Q. Tran, Kristopher Kieft, Karthik Anantharaman
Software Mentions: 5
Published: about 6 years ago

10.1093/gbe/evx269

A Genome Resequencing-Based Genetic Map Reveals the Recombination Landscape of an Outbred Parasitic Nematode in the Presence of Polyploidy and Polyandry
Cited by: 53
Author(s): Stephen R. Doyle, Roz Laing, David J. Bartley, Collette Britton, Umer Chaudhry, John S. Gilleard, Nancy Holroyd, Barbara K. Mable, Kirsty Maitland, Alison A. Morrison, Andy Tait, Alan S. Tracey, Matthew Berriman, Eileen Devaney, James A. Cotton, Neil Sargison
Software Mentions: 5
Published: over 8 years ago

10.1371/journal.pone.0100163

The Roles of Standing Genetic Variation and Evolutionary History in Determining the Evolvability of Anti-Predator Strategies
Cited by: 14
Author(s): Daniel R. O'Donnell, Abhijna Parigi, Jordan A. Fish, Ian Dworkin, A. Wagner
Software Mentions: 5
Published: about 12 years ago

10.1371/journal.pcbi.1008195

VALERIE: Visual-based inspection of alternative splicing events at single-cell resolution
Cited by: 9
Author(s): Wei Wen, Adam J. Mead, Supat Thongjuea
Software Mentions: 5
Published: almost 6 years ago