10.18632/aging.102706

Elevated lymphocyte specific protein 1 expression is involved in the regulation of leukocyte migration and immunosuppressive microenvironment in glioblastoma
Cited by: 16
Author(s): Ji Cao, Qing Guo, Gefei Guan, Chen Zhu, Cunyi Zou, Luyang Zhang, Wen Cheng, Guoli Wang, Cheng Peng, Anhua Wu, Guangyu Li
Software Mentions: 5
Published: over 6 years ago

10.1002/ece3.3447

Intraspecific trait variation can weaken interspecific trait correlations when assessing the whole‐plant economic spectrum
Cited by: 36
Author(s): Daniel C. Laughlin, Christopher H. Lusk, Peter J. Bellingham, David F. R. P. Burslem, A. H. R. W. Simpson, Kris Rushton Kramer-Walter
Software Mentions: 5
Published: almost 9 years ago

10.1371/journal.pcbi.1007764

StanDep: Capturing transcriptomic variability improves context-specific metabolic models
Cited by: 19
Author(s): Chintan Joshi, Song‐Min Schinn, Anne Richelle, Isaac Shamie, Eyleen J. O’Rourke, Nathan E. Lewis
Software Mentions: 5
Published: about 6 years ago

10.1002/eap.2019

Disturbance regulates the density–body‐mass relationship of soil fauna
Cited by: 1
Author(s): Frank van Langevelde, Vincent Comor, S. de Bie, Herbert H. T. Prins, Madhav P. Thakur
Software Mentions: 5
Published: over 6 years ago

10.1371/journal.pone.0254556

Simple mapping-based quantification of a mock microbial community using total RNA-seq data
Cited by: 4
Author(s): Shigeharu Moriya
Software Mentions: 5
Published: about 5 years ago

10.1186/s13104-018-3221-0

Proteome-wide comparison between the amino acid composition of domains and linkers
Cited by: 19
Author(s): Daniel C. Brune, Miguel A. Andrade‐Navarro, Pablo Mier
Software Mentions: 5
Published: over 8 years ago

10.1186/s13073-020-00783-w

The murine Microenvironment Cell Population counter method to estimate abundance of tissue-infiltrating immune and stromal cell populations in murine samples using gene expression
Cited by: 50
Author(s): Florent Petitprez, Sacha Lévy, Chengming Sun, Maxime Meylan, Christophe Linhard, Étienne Becht, Nabila Elarouci, David Tavel, Lubka T. Roumenina, Mira Ayadi, Catheriné Sautès-Fridman, Aurélien de Reyniès
Software Mentions: 5
Published: almost 6 years ago

10.3390/ijms21072403

Novel Autoantibody Signatures in Sera of Patients with Pancreatic Cancer, Chronic Pancreatitis and Autoimmune Pancreatitis: A Protein Microarray Profiling Approach
Cited by: 8
Author(s): Sahar Ghassem-Zadeh, Katrin Hufnagel, Andrea S. Bauer, Jean Louis Frossard, Masaru Yoshida, Hiromu Kutsumi, Hans Acha‐Orbea, Matthias Neulinger-Muñoz, Johannes A Vey, Christoph Eckert, Oliver Strobel, Jörg D. Hoheisel, Klaus Felix
Software Mentions: 5
Published: over 6 years ago

10.1186/s40560-021-00538-8

Predictors of failure with high-flow nasal oxygen therapy in COVID-19 patients with acute respiratory failure: a multicenter observational study
Cited by: 34
Author(s): Ricard Mellado Artigas, Luis Eduardo Mujica, Magda Ruiz, Bruno L. Ferreyro, Federico Angriman, Egoitz Arruti, Antoni Torres, Enric Barbeta, Jesús Villar, Carlos Ferrando
Software Mentions: 5
Published: over 5 years ago

10.1371/journal.pone.0222995

Single session high definition transcranial direct current stimulation to the cerebellum does not impact higher cognitive function
Cited by: 7
Author(s): Ted Maldonado, James R. M. Goen, Michael J. Imburgio, Sydney M. Eakin, Bernard Ja
Software Mentions: 5
Published: almost 7 years ago

10.3389/fimmu.2019.01716

Enhanced Immunomodulation in Inflammatory Environments Favors Human Cardiac Mesenchymal Stromal-Like Cells for Allogeneic Cell Therapies
Cited by: 3
Author(s): Falk Diedrichs, Meaghan Stolk, Karsten Jürchott, Marion Haag, Michael Sittinger, Martina Seifert
Software Mentions: 5
Published: almost 7 years ago

10.1371/journal.pntd.0008699

Development of a multiplex microsphere immunoassay for the detection of antibodies against highly pathogenic viruses in human and animal serum samples
Cited by: 2
Author(s): Rebecca Surtees, Daniel Stern, Katharina Ahrens, Nicole Kromarek, Angelika Lander, Petra Kreher, Sabrina Weiß, Roger Hewson, Emma K. Punch, John N. Barr, Peter T. Witkowski, Emmanuel Couacy‐Hymann, Andrea Marzi, Brigitte G. Dorner, Andreas Kurth
Software Mentions: 5
Published: over 5 years ago

10.3389/fimmu.2021.695865

Prognosis and Characterization of Immune Microenvironment in Acute Myeloid Leukemia Through Identification of an Autophagy-Related Signature
Cited by: 19
Author(s): Denggang Fu, Biyu Zhang, Shiyong Wu, Yinghua Zhang, Jingwu Xie, Wangbin Ning, Hua Jiang
Software Mentions: 5
Published: about 5 years ago

10.1093/gbe/evab145

High-Quality Genome Assembly and Comprehensive Transcriptome of the Painted Lady Butterfly<i>Vanessa cardui</i>
Cited by: 7
Author(s): Linlin Zhang, Rachel Steward, Christopher W. Wheat, Robert D. Reed
Software Mentions: 5
Published: about 5 years ago

10.3389/fimmu.2021.657162

Host Transcriptome and Microbiota Signatures Prior to Immunization Profile Vaccine Humoral Responsiveness
Cited by: 3
Author(s): Eléna Gonçalves, Yolanda Guillén, Javier R. Lama, Jorge Sánchez, Christian Berthou, Roger Paredes, Béhazine Combadière
Software Mentions: 5
Published: about 5 years ago

10.1002/ece3.6094

Neighboring trees regulate the root‐associated pathogenic fungi on the host plant in a subtropical forest
Cited by: 6
Author(s): Ke-Ke Cheng, Shixiao Yu
Software Mentions: 5
Published: about 6 years ago

10.1093/gigascience/giy052

Optimized distributed systems achieve significant performance improvement on sorted merging of massive VCF files
Cited by: 3
Author(s): Xiaobo Sun, Jingjing Gao, Peng Jin, Celeste Eng, Esteban G. Burchard, Terri H. Beaty, Ingo Ruczinski, Rasika A. Mathias, Kathleen C. Barnes, Fusheng Wang, Zhaohui S. Qin
Software Mentions: 5
Published: about 8 years ago

10.3390/ijerph17186449

Comparison of Support Vector Machine, Naïve Bayes and Logistic Regression for Assessing the Necessity for Coronary Angiography
Cited by: 18
Author(s): Parastoo Golpour, Majid Ghayour‐Mobarhan, Azadeh Saki, Habibollah Esmaily, Ali Taghipour, Mohammad Tajfard, Hamideh Ghazizadeh, Mohsen Moohebati, Gordon A. Ferns
Software Mentions: 5
Published: almost 6 years ago

10.1155/2020/3264079

Nomogram for Predicting Long-Term Survival after Synchronous Resection for Hepatocellular Carcinoma and Inferior Vena Cava Tumor Thrombosis: A Multicenter Retrospective Study
Cited by: 6
Author(s): Yan Bai, Jiayi Wu, Yong Zeng, Jie Chen, Shuangjia Wang, Shi Chen, Funan Qiu, Songqiang Zhou, San–Lin You, Yuan Tian, Yaodong Wang, Mao-Lin Yan
Software Mentions: 5
Published: over 6 years ago

10.1371/journal.pone.0048990

A Phylogenomic Approach to Vertebrate Phylogeny Supports a Turtle-Archosaur Affinity and a Possible Paraphyletic Lissamphibia
Cited by: 58
Author(s): Jonathan J. Fong, Jeremy M. Brown, Matthew K. Fujita, Bastien Boussau
Software Mentions: 5
Published: over 13 years ago

10.1371/journal.pone.0187228

A continuous morphological approach to study the evolution of pollen in a phylogenetic context: An example with the order Myrtales
Cited by: 26
Author(s): Ricardo Kriebel, Mohammad Khabbazian, Kenneth J. Sytsma
Software Mentions: 5
Published: over 8 years ago

10.3389/fimmu.2021.711980

Characterization of Organ-Specific Regulatory B Cells Using Single-Cell RNA Sequencing
Cited by: 7
Author(s): Si Yu Yang, Jie Long, Meng Huang, Pan Luo, Zhen Bian, Ya Xu, Chengbo Wang, Shu Yang, Li Liang, Carlo Selmi, M. Eric Gershwin, Zhi Bin Zhao, Zhe Xiong Lian
Software Mentions: 5
Published: almost 5 years ago

10.1093/infdis/jiy591

Transmission and Age Impact the Risk of Developing Febrile Malaria in Children with Asymptomatic Plasmodium falciparum Parasitemia
Cited by: 18
Author(s): Kevin Wamae, Juliana Wambua, George Nyangweso, Gabriel Mwambingu, Faith Osier, Francis M. Ndungu, Philip Bejon, Lynette Isabella Ochola‐Oyier
Software Mentions: 5
Published: almost 8 years ago

10.1111/jam.14914

Occurrence of <i>Campylobacter</i> spp. in Swedish calves, common sequence types and antibiotic resistance patterns
Cited by: 7
Author(s): Ingrid Hansson, Lena-Mari Tamminen, Sara Frosth, Lise-Lotte Fernström, Ulf Emanuelson, Sofia Boqvist
Software Mentions: 5
Published: over 5 years ago

10.1186/s12890-021-01391-z

Development and validation of a nomogram to predict pulmonary function and the presence of chronic obstructive pulmonary disease in a Korean population
Cited by: 2
Author(s): Sang Chul Lee, Chansik An, Jongha Yoo, Sungho Park, Donggyo Shin, Chang Hoon Han
Software Mentions: 5
Published: over 5 years ago

10.1186/s12889-020-09791-2

Burden of prediabetes, undiagnosed, and poorly or potentially sub-controlled diabetes: Lolland-Falster health study
Cited by: 7
Author(s): Neda Esmailzadeh Bruun-Rasmussen, George Napolitano, Allan Kofoed‐Enevoldsen, Stig E. Bojesen, Christina Ellervik, Knud Rasmussen, Randi Jepsen
Software Mentions: 5
Published: over 5 years ago

10.1186/s13620-021-00182-6

Prediction of lameness using automatically recorded activity, behavior and production data in post-parturient Irish dairy cows
Cited by: 9
Author(s): G. M. Borghart, Luke O’Grady, Joris R Somers
Software Mentions: 5
Published: over 5 years ago

10.3390/genes12060824

Comparison of Selection Signatures between Korean Native and Commercial Chickens Using 600K SNP Array Data
Cited by: 4
Author(s): Sunghyun Cho, Prabuddha Manjula, Minjun Kim, Eunjin Cho, Dooho Lee, Seung Hwan Lee, Jun Heon Lee, Dongwon Seo
Software Mentions: 5
Published: about 5 years ago

10.1002/ece3.6417

Honey bees and wild pollinators differ in their preference for and use of introduced floral resources
Cited by: 26
Author(s): Christine Urbanowicz, Paige A. Muñiz, Scott H. McArt
Software Mentions: 5
Published: about 6 years ago

10.1093/bib/bbaa072

Scoring functions for drug-effect similarity
Cited by: 13
Author(s): Stephan Struckmann, Markus Ernst, Sarah Fischer, Nancy Mah, Georg Fuellen, Steffen Möller
Software Mentions: 5
Published: about 6 years ago

10.1093/femsec/fiy225

Highly competitive fungi manipulate bacterial communities in decomposing beech wood (<i>Fagus sylvatica</i>)
Cited by: 29
Author(s): Sarah Johnston, Jennifer Hiscox, Melanie Savoury, Lynne Boddy, Andrew J. Weightman
Software Mentions: 5
Published: over 7 years ago

10.1038/srep36055

Dual-species transcriptional profiling during systemic candidiasis reveals organ-specific host-pathogen interactions
Cited by: 28
Author(s): Betty Hebecker, Sebastian Vlaic, Theresia Conrad, Michael Bauer, Sascha Brunke, Mario Kapitan, Jörg Linde, Bernhard Hube, Ilse D. Jacobsen
Software Mentions: 5
Published: over 9 years ago

10.1128/mBio.02882-20

Comprehensive Genomic Investigation of Adaptive Mutations Driving the Low-Level Oxacillin Resistance Phenotype in Staphylococcus aureus
Cited by: 23
Author(s): Stefano Giulieri, Romain Guérillot, Jason C Kwong, Ian R. Monk, Ashleigh S Hayes, Diane Daniel, Sarah L. Baines, Norelle L Sherry, Natasha E Holmes, Peter Ward, Wei Gao, Torsten Seemann, Timothy P. Stinear, Benjamin P Howden
Software Mentions: 5
Published: over 5 years ago

10.1371/journal.pcbi.1006646

Epithelial stratification shapes infection dynamics
Cited by: 11
Author(s): Carmen Lía Murall, Robert Jackson, Ingeborg Zehbe, Nathalie Boulle, Michel Segondy, Samuel Alizon
Software Mentions: 5
Published: over 7 years ago

10.1186/1471-2105-9-88

Comparison of normalisation methods for surface-enhanced laser desorption and ionisation (SELDI) time-of-flight (TOF) mass spectrometry data
Cited by: 43
Author(s): Wouter Meuleman, Judith Y. M. N. Engwegen, Marie-Christine W. Gast, Jos H. Beijnen, Marcel J. T. Reinders, Lodewyk Wessels
Software Mentions: 5
Published: over 18 years ago

10.3390/microarrays3040212

The Robustness of Pathway Analysis in Identifying Potential Drug Targets in Non-Small Cell Lung Carcinoma
Cited by: 1
Author(s): Andrew R. Dalby, Ian Bailey
Software Mentions: 5
Published: over 11 years ago

10.1038/s41598-021-98300-5

Quantifying and predicting antimicrobials and antimicrobial resistance genes in waterbodies through a holistic approach: a study in Minnesota, United States
Cited by: 4
Author(s): Irene Bueno, Amanda Beaudoin, William A. Arnold, Taegyu Kim, Lara Frankson, Timothy M. LaPara, Kaushi S. T. Kanankege, Kristine H. Wammer, Randall S. Singer
Software Mentions: 5
Published: almost 5 years ago

10.1371/journal.pone.0058572

Small Hydrophobic Protein of Human Metapneumovirus Does Not Affect Virus Replication and Host Gene Expression In Vitro
Cited by: 19
Author(s): Miranda de Graaf, Sander Herfst, Jamil Aarbiou, Peter C. Burgers, Fatiha Zaaraoui-Boutahar, M Bijl, Wilfred F. J. van IJcken, Eefje J. A. Schrauwen, Albert D. M. E. Osterhaus, Theo M. Luider, Bob J. Scholte, Ron A. M. Fouchier, Arno C. Andeweg
Software Mentions: 5
Published: over 13 years ago

10.1371/journal.pone.0070433

Genome-Wide Expression of Transcriptomes and Their Co-Expression Pattern in Subtropical Maize (Zea mays L.) under Waterlogging Stress
Cited by: 54
Author(s): Nepolean Thirunavukkarasu, Firoz Hossain, Sweta Mohan, Kaliyugam Shiriga, Swati Mittal, R.C. Sharma, Rita Singh, H. S. Gupta
Software Mentions: 5
Published: almost 13 years ago

10.1242/dev.183855

Aging induces aberrant state transition kinetics in murine muscle stem cells
Cited by: 50
Author(s): Jacob C. Kimmel, Ara B. Hwang, Annarita Scaramozza, Wallace F. Marshall, Andrew S. Brack
Software Mentions: 5
Published: over 6 years ago

10.1128/mSphere.00982-20

Decreased Ecological Resistance of the Gut Microbiota in Response to Clindamycin Challenge in Mice Colonized with the Fungus Candida albicans
Cited by: 2
Author(s): Laura Markey, Antonia Pugliese, Theresa Tian, Farrah Roy, Kyongbum Lee, Carol A. Kumamoto
Software Mentions: 5
Published: over 5 years ago

10.1371/journal.pone.0203751

Seasonal association between ambient ozone and hospital admission for respiratory diseases in Hanoi, Vietnam
Cited by: 28
Author(s): Ly M. T. Luong, Dung Phung, Trần Ngọc Đăng, Peter D. Sly, Lidia Morawska, Phong K. Thai
Software Mentions: 5
Published: almost 8 years ago

10.1186/s12862-021-01856-z

Positive selection on the MHC class II DLA-DQA1 gene in golden jackals (Canis aureus) from their recent expansion range in Europe and its effect on their body mass index
Cited by: 6
Author(s): Milomir Stefanović, Duško Ćirović, Neda Bogdanović, Felix Knauer, Miklós Heltai, László Szabó, József Lanszki, Chavdar Zhelev, Helmut Schaschl, Franz Suchentrunk
Software Mentions: 5
Published: about 5 years ago

10.1371/journal.pone.0065267

Zinc Finger Nuclease Mediated Knockout of ADP-Dependent Glucokinase in Cancer Cell Lines: Effects on Cell Survival and Mitochondrial Oxidative Metabolism
Cited by: 14
Author(s): Susan Richter, Shona Morrison, Timothy Connor, Jiechuang Su, Cristin G. Print, Ron S. Ronimus, Sean L. McGee, William R. Wilson
Software Mentions: 5
Published: about 13 years ago

10.1007/s00701-018-3681-y

Impaired cerebral compensatory reserve is associated with admission imaging characteristics of diffuse insult in traumatic brain injury
Cited by: 20
Author(s): Frederick A. Zeiler, Dong-Joo Kim, Manuel Cabeleira, Leanne Calviello, Peter Smielewski, Marek Czosnyka
Software Mentions: 5
Published: almost 8 years ago

10.1007/s11306-015-0879-3

Data standards can boost metabolomics research, and if there is a will, there is a way
Cited by: 89
Author(s): Philippe Rocca-Serra, Reza M. Salek, Masanori Arita, Elon Correa, Saravanan Dayalan, Alejandra González-Beltrán, Timothy M. D. Ebbels, Royston Goodacre, Janna Hastings, Kenneth Haug, Albert Koulman, Macha Nikolski, Matej Orešič, Susanna-Assunta Sansone, Daniel Schober, James M. Smith, Christoph Steinbeck, Mark R. Viant, Steffen Neumann
Software Mentions: 5
Published: over 10 years ago

10.1371/journal.pone.0241446

Associations between daily ambient temperature and sedentary time among children 4–6 years old in Mexico City
Cited by: 4
Author(s): Sandy Wong, Alejandra Cantoral, Martha María Téllez‐Rojo, Ivan Pantic, Emily Oken, Katherine Svensson, Michael Dorman, Iván Gutiérrez-Ávila, Johnathan Rush, Nia McRae, Robert O. Wright, Andrea A. Baccarelli, Itai Kloog, Allan C. Just
Software Mentions: 5
Published: over 5 years ago

10.1128/mBio.00765-21

Markers of Polyfunctional SARS-CoV-2 Antibodies in Convalescent Plasma
Cited by: 51
Author(s): Harini Natarajan, Andrew R. Crowley, Savannah E. Butler, Shiwei Xu, Joshua A. Weiner, Evan M. Bloch, Kirsten Littlefield, Wendy Wieland-Alter, Ruth I. Connor, Peter F. Wright, Sarah E. Benner, Tania S. Bonny, Oliver Laeyendecker, David J. Sullivan, Shmuel Shoham, Thomas C. Quinn, H. Benjamin Larman, Arturo Casadevall, Andrew Pekosz, Andrew D. Redd, Aaron A.R. Tobian, Margaret E. Ackerman
Software Mentions: 5
Published: about 5 years ago

10.3389/fgene.2020.00214

The Identification of Metal Ion Ligand-Binding Residues by Adding the Reclassified Relative Solvent Accessibility
Cited by: 5
Author(s): Xiuzhen Hu, Zhenxing Feng, Xiaojin Zhang, Liu Liu, Shan Wang
Software Mentions: 5
Published: over 6 years ago

10.1371/journal.pone.0041066

Transcriptional Response of Peripheral Blood Mononuclear Cells from Cattle Infected with Mycobacterium bovis
Cited by: 25
Author(s): Federico Carlos Blanco, Marcelo Soria, María Verónica Bianco, Fabiana Bigi
Software Mentions: 5
Published: about 14 years ago

10.1371/journal.pone.0156594

Removing Batch Effects from Longitudinal Gene Expression - Quantile Normalization Plus ComBat as Best Approach for Microarray Transcriptome Data
Cited by: 94
Author(s): Christian Müller, Arne Schillert, Caroline Röthemeier, David‐Alexandre Trégouët, Carole Proust, Harald Binder, Norbert Pfeiffer, Manfred E. Beutel, Karl J. Lackner, Renate B. Schnabel, Laurence Tiret, Philipp S. Wild, Stefan Blankenberg, Tanja Zeller, Andreas Ziegler
Software Mentions: 5
Published: about 10 years ago

10.1186/s12864-019-5504-9

Streamlined computational pipeline for genetic background characterization of genetically engineered mice based on next generation sequencing data
Cited by: 5
Author(s): Carlos Farkas, Francisco Fuentes-Villalobos, Boris Rebolledo‐Jaramillo, Fernando Benavides, Ariel F. Castro, Roxana Pincheira
Software Mentions: 5
Published: over 7 years ago

10.1177/0379572120973908

Changes in Retinol Binding Protein 4 Level in Undernourished Children After a Nutrition Intervention Are Positively Associated With Mother’s Weight but Negatively With Mother’s Height, Intake of Whole Milk, and Markers of Systemic Inflammation: Results From a Community-Based Intervention Study
Cited by: 0
Author(s): Subhasish Das, Amran Gazi, Mehedi Hasan, Shah Mohammad Fahim, Ashraful Alam, Md. Shabab Hossain, Mustafa Mahfuz, Tahmeed Ahmed
Software Mentions: 5
Published: over 5 years ago

10.1186/s12889-020-10131-7

The association between ambient temperature and mortality of the coronavirus disease 2019 (COVID-19) in Wuhan, China: a time-series analysis
Cited by: 25
Author(s): Gaopei Zhu, Yuhang Zhu, Zhongli Wang, Weijing Meng, Xiaoxuan Wang, Jianing Feng, Juan Li, Yufei Xiao, Fuyan Shi, Shuzhen Wang
Software Mentions: 5
Published: over 5 years ago

10.1371/journal.pone.0194642

Mental distress and perceived wealth, justice and freedom across eight countries: The invisible power of the macrosystem
Cited by: 12
Author(s): Saskia Scholten, Julia Velten, Jürgen Margraf
Software Mentions: 5
Published: about 8 years ago

10.1101/2020.09.16.20196154

SARS-CoV-2 antibody signatures robustly predict diverse antiviral functions relevant for convalescent plasma therapy
Cited by: 20
Author(s): Harini Natarajan, Andrew R. Crowley, Savannah E. Butler, Shiwei Xu, Joshua A. Weiner, Evan M. Bloch, Kirsten Littlefield, Wendy Wieland-Alter, Ruth I. Connor, Peter F. Wright, Sarah E. Benner, Tania S. Bonny, Oliver Laeyendecker, David J. Sullivan, Shmuel Shoham, Thomas C. Quinn, H. Benjamin Larman, Arturo Casadevall, Andrew Pekosz, Andrew D. Redd, Aaron A.R. Tobian, Margaret E. Ackerman
Software Mentions: 5
Published: almost 6 years ago

10.1371/journal.pbio.3000435

Single-cell in vivo imaging of cellular circadian oscillators in zebrafish
Cited by: 13
Author(s): Haifang Wang, Zeyong Yang, Xingxing Li, Di Huang, Shuguang Yu, Jie He, Yuanhai Li, Jun Yan
Software Mentions: 5
Published: over 6 years ago

10.3390/ijerph17072406

Side Streams of Broccoli Leaves: A Climate Smart and Healthy Food Ingredient
Cited by: 19
Author(s): Emilia Berndtsson, Roger Andersson, Eva Johansson, Marie Olsson
Software Mentions: 5
Published: over 6 years ago

10.1186/s12863-015-0313-x

Filtering genetic variants and placing informative priors based on putative biological function
Cited by: 4
Author(s): Stefanie Friedrichs, Dörthe Malzahn, Elizabeth Pugh, Marcio Almeida, Xiao Qing Liu, Julia N. Bailey
Software Mentions: 5
Published: over 10 years ago

10.1186/s12864-021-07517-1

Transcriptomic analysis of the trade-off between endurance and burst-performance in the frog Xenopus allofraseri
Cited by: 1
Author(s): Valérie Ducret, Adam Richards, Mathieu Videlier, Thibault Scalvenzi, Karen Moore, Konrad Paszkiewicz, Camille Bonneaud, Nicolas Pollet, Anthony Herrel
Software Mentions: 5
Published: over 5 years ago

10.3390/ijerph16203969

Socio-Economic and Environmental Factors Related to Spatial Differences in Human Non-Tuberculous Mycobacterial Diseases in the Czech Republic
Cited by: 15
Author(s): Helena Modrá, Vít Ulmann, Jan Caha, Dana Hübelová, Ondřej Konečný, Jana Svobodová, Ross Tim Weston, Ivo Pavlík
Software Mentions: 5
Published: almost 7 years ago

10.1371/journal.pone.0195221

Delineation and mapping of coastal shark habitat within a shallow lagoonal estuary
Cited by: 10
Author(s): Charles W. Bangley, Lee M. Paramore, Simon Dedman, Roger A. Rulifson
Software Mentions: 5
Published: over 8 years ago

10.1155/2020/9493256

Identification of CPT1A as a Prognostic Biomarker and Potential Therapeutic Target for Kidney Renal Clear Cell Carcinoma and Establishment of a Risk Signature of CPT1A-Related Genes
Cited by: 5
Author(s): Yingkun Xu, Guangzhen Wu, Xue Ma, Jianyi Li, Ningke Ruan, Zhe Zhang, Yalei Cao, Yougen Chen, Qi Zhang, Qinghua Xia
Software Mentions: 5
Published: over 6 years ago

10.1186/1471-2105-14-75

virtualArray: a R/bioconductor package to merge raw data from different microarray platforms
Cited by: 51
Author(s): Andreas Heider, Rüdiger Alt
Software Mentions: 5
Published: over 13 years ago

10.2196/16077

Personalized Web-Based Cognitive Rehabilitation Treatments for Patients with Traumatic Brain Injury: Cluster Analysis
Cited by: 11
Author(s): Alejandro García-Rudolph, Alberto García-Molina, Eloy Opisso, Jose Maria Tormos Muñoz
Software Mentions: 5
Published: almost 6 years ago

10.1093/gigascience/giz083

iMicrobe: Tools and data-driven discovery platform for the microbiome sciences
Cited by: 24
Author(s): Ken Youens‐Clark, Matt Bomhoff, Alise J. Ponsero, Elisha M. Wood‐Charlson, Joshua Lynch, Illyoung Choi, John H. Hartman, Bonnie Hurwitz
Software Mentions: 5
Published: about 7 years ago

10.3390/insects11070417

Environmental Display Can Buffer the Effect of Pesticides on Solitary Bees
Cited by: 6
Author(s): Samuel Boff, Josué Raizer, D. Lupi
Software Mentions: 5
Published: about 6 years ago

10.18632/oncotarget.23748

Use of deep neural network ensembles to identify embryonic-fetal transition markers: repression of <i>COX7A1</i> in embryonic and cancer cells
Cited by: 27
Author(s): Michael West, Ivan Labat, Hal Sternberg, Dana Larocca, Igor O. Nasonkin, Karen Chapman, Ratnesh Singh, Eugene Makarev, Alex Aliper, Andrey Kazennov, Andrey Alekseenko, Nikolai Shuvalov, Evgenia Cheskidova, Aleksandr Alekseev, Artemov Av, Evgeny Putin, Polina Mamoshina, Nikita Pryanichnikov, Jacob Larocca, Karen A. F. Copeland, Evgeny Izumchenko, Mikhail Korzinkin, Alex Zhavoronkov
Software Mentions: 5
Published: over 8 years ago

10.1371/journal.pone.0210317

A simple method to estimate the number of doses to include in a bank of vaccines. The case of Lumpy Skin Disease in France
Cited by: 4
Author(s): Jordi Domènech Casal, Claude Saegerman, Stéphane Bertagnoli, Gilles Meyer, Jean‐Pierre Ganière, Philippe Caufour, Kris De Clercq, Philippe Jacquiet, Claire Hautefeuille, Florence Etoré, Sebastián Napp
Software Mentions: 5
Published: over 7 years ago

10.3389/fonc.2020.00444

Multi-Omics Integration Reveals a Competitive Endogenous RNAs Network for the Identification of Progression Biomarkers and the Stratification of Patients Diagnosed With Nephroblastoma
Cited by: 2
Author(s): Jingbo Wang, Yuan Wang, Han Liang, Mohamed Shahen, Chaofeng Hu, Furong Li
Software Mentions: 5
Published: over 6 years ago

10.1371/journal.pone.0216758

An integrated insight into the response of bacterial communities to anthropogenic contaminants in a river: A case study of the Wonderfonteinspruit catchment area, South Africa
Cited by: 20
Author(s): Karen Jordaan, A. Comeau, Damase P. Khasa, Cornelius Carlos Bezuidenhout
Software Mentions: 5
Published: about 7 years ago

10.1186/s12885-020-07493-x

Identification of ALDH3A2 as a novel prognostic biomarker in gastric adenocarcinoma using integrated bioinformatics analysis
Cited by: 24
Author(s): Zhenhua Yin, Danni Wu, Jianping Shi, Xiao‐Hong Wei, Nuyun Jin, Xiaolan Lu, Xiaohan Ren
Software Mentions: 5
Published: over 5 years ago

10.1038/s41598-020-77846-w

Differential proteomic analysis by SWATH-MS unravels the most dominant mechanisms underlying yeast adaptation to non-optimal temperatures under anaerobic conditions
Cited by: 20
Author(s): Tânia Pinheiro, Ka Ying Florence Lip, Estéfani García‐Ríos, Amparo Querol, J. A. Teixeira, Walter van Gulik, José Manuel Guillamón, Lucı́lia Domingues
Software Mentions: 5
Published: over 5 years ago

10.18632/aging.202635

Transcriptome profiling reveals target in primary myelofibrosis together with structural biology study on novel natural inhibitors regarding JAK2
Cited by: 7
Author(s): Weihang Li, Bin Yuan, Yingjing Zhao, Tianxing Lu, Shilei Zhang, Ziyi Ding, Dong Wang, Sheng Zhong, Guangxun Gao, Ming Yan
Software Mentions: 5
Published: over 5 years ago

10.1038/srep10361

Interactions between tick and transmitted pathogens evolved to minimise competition through nested and coherent networks
Cited by: 57
Author(s): Agustı́n Estrada-Peña, José de la Fuente, Richard S. Ostfeld, Alejandro Cabezas-Cruz
Software Mentions: 5
Published: about 11 years ago

10.7554/eLife.62236

Identification of human glucocorticoid response markers using integrated multi-omic analysis from a randomized crossover trial
Cited by: 21
Author(s): Dimitrios Chantzichristos, Peder Svensson, Terence Garner, Camilla A M Glad, Brian R. Walker, Ragnhildur Bergthorsdottir, Oskar Ragnarsson, Penelope Trimpou, Roland H Stimson, Stina Willemoes Borresen, Ulla Feldt‐Rasmussen, Per‐Anders Jansson, Stanko Skrtic, Adam Stevens, Gudmundur Johannsson
Software Mentions: 5
Published: over 5 years ago

10.1128/mBio.02635-19

Time after Time: Temporal Variation in the Effects of Grass and Forb Species on Soil Bacterial and Fungal Communities
Cited by: 53
Author(s): S. Emilia Hannula, Anna M. Kielak, Katja Steinauer, Martine Huberty, Renske Jongen, Jonathan R. De Long, Robin Heinen, T. Martijn Bezemer
Software Mentions: 5
Published: over 6 years ago

10.1371/journal.pone.0208982

Cholinergic Receptor Nicotinic Alpha 5 (CHRNA5) RNAi is associated with cell cycle inhibition, apoptosis, DNA damage response and drug sensitivity in breast cancer
Cited by: 11
Author(s): Şahika Cıngır Köker, Ermira Jahja, Huma Shehwana, Ayşe Gökçe Keşküş, Özlen Konu
Software Mentions: 5
Published: over 7 years ago

10.1186/s12859-019-3289-0

Identifying gene-specific subgroups: an alternative to biclustering
Cited by: 3
Author(s): Vincent Branders, Pierre Schaus, Pierre Dupont
Software Mentions: 5
Published: over 6 years ago

10.1371/journal.ppat.1007747

A set of Arabidopsis genes involved in the accommodation of the downy mildew pathogen Hyaloperonospora arabidopsidis
Cited by: 13
Author(s): Martina Katharina Ried, Aline Banhara, Fang-Yu Hwu, Andreas Binder, Andrea A. Gust, Caroline Höfle, Ralph Hückelhoven, Thorsten Nürnberger, Martin Parniske
Software Mentions: 5
Published: about 7 years ago

10.3389/fpls.2021.626405

By Animal, Water, or Wind: Can Dispersal Mode Predict Genetic Connectivity in Riverine Plant Species?
Cited by: 14
Author(s): Alison G. Nazareno, L. Lacey Knowles, Christopher W. Dick, Lúcia Garcez Lohmann
Software Mentions: 5
Published: over 5 years ago

10.1371/journal.pone.0252036

Age-related changes in diffuse optical tomography sensitivity profiles in infancy
Cited by: 5
Author(s): Xiaoxue Fu, John E. Richards
Software Mentions: 5
Published: about 5 years ago

10.1371/journal.pone.0255648

The reciprocal relationships between social media self-control failure, mindfulness and wellbeing: A longitudinal study
Cited by: 13
Author(s): Jie Du, P.C.M. van de Kerkhof, Guido M. van Koningsbruggen
Software Mentions: 5
Published: almost 5 years ago

10.3390/insects12030199

Seasonal Variations of Pollinator Assemblages among Urban and Rural Habitats: A Comparative Approach Using a Standardized Plant Community
Cited by: 6
Author(s): Vincent Zaninotto, A. Perrard, Olivier Babiar, Amandine Hansart, Cécile Hignard, Isabelle Dajoz
Software Mentions: 5
Published: over 5 years ago

10.3390/ijms21207720

A Bioinformatic Pipeline Places STAT5A as a miR-650 Target in Poorly Differentiated Aggressive Breast Cancer
Cited by: 1
Author(s): Eric López-Huerta, Ezequiel M. Fuentes‐Pananá
Software Mentions: 5
Published: over 5 years ago

10.1186/s12864-015-1540-2

Gene expression associated with white syndromes in a reef building coral, Acropora hyacinthus
Cited by: 185
Author(s): Rachel M. Wright, Galina V. Aglyamova, Eli Meyer, Mikhail V. Matz
Software Mentions: 5
Published: about 11 years ago

10.1186/s13059-015-0844-5

MAST: a flexible statistical framework for assessing transcriptional changes and characterizing heterogeneity in single-cell RNA sequencing data
Cited by: 1,843
Author(s): Greg Finak, Andrew McDavid, Masanao Yajima, Jingyuan Deng, Vivian H. Gersuk, Alex K. Shalek, Chloe K. Slichter, Hannah W. Miller, M. Juliana McElrath, Martin Prlic, Peter S. Linsley, Raphaël Gottardo
Software Mentions: 5
Published: over 10 years ago

10.3390/foods8080332

Influence of Kiwifruit Extract Infusion on Consumer Sensory Outcomes of Striploin (M. longissimus lumborum) and Outside Flat (M. biceps femoris) from Beef Carcasses
Cited by: 7
Author(s): A. M. Lees, Małgorzata Konarska, Garth Tarr, Rod Polkinghorne, P. McGilchrist
Software Mentions: 5
Published: almost 7 years ago

10.1093/bioinformatics/btw311

PERMANOVA-S: association test for microbial community composition that accommodates confounders and multiple distances
Cited by: 94
Author(s): Zheng-Zheng Tang, Guanhua Chen, Alexander V. Alekseyenko
Software Mentions: 5
Published: about 10 years ago

10.1111/jcmm.15851

Prognostic and predictive value of a mRNA signature in peripheral T‐cell lymphomas: A mRNA expression analysis
Cited by: 6
Author(s): Jiannan Tu, Zhixing Kuang, Xiaoxiao Xie, Shizhen Wu, Ting Wu, Shengchi Chen
Software Mentions: 5
Published: over 5 years ago

10.1371/journal.pone.0227486

The effect of storage conditions on microbial communities in stool
Cited by: 20
Author(s): Kristien Nel Van Zyl, Andrew Whitelaw, Mae Newton-Foot
Software Mentions: 5
Published: over 6 years ago

10.1186/1743-422X-8-318

Tridimensional model structure and patterns of molecular evolution of Pepino mosaic virus TGBp3 protein
Cited by: 5
Author(s): Beata Hasiów‐Jaroszewska, Anna Czerwoniec, H. Pospieszny, Santiago F. Elena
Software Mentions: 5
Published: about 15 years ago

10.1186/s13104-016-2331-9

Differential correlation for sequencing data
Cited by: 18
Author(s): Charlotte Siska, Katerina Kechris
Software Mentions: 5
Published: over 9 years ago

10.1152/ajpendo.00473.2013

Brown and white adipose tissues: intrinsic differences in gene expression and response to cold exposure in mice
Cited by: 289
Author(s): Meritxell Rosell, Myrsini Kaforou, Andrea Frontini, Anthony Okolo, Yi‐Wah Chan, Evanthia Nikolopoulou, Steven Millership, Matthew Fenech, David A. MacIntyre, J. Turner, Jonathan D. Moore, E. K. Blackburn, William J. Gullick, Saverio Cinti, Giovanni Montana, Malcolm G. Parker, Mark Christian
Software Mentions: 5
Published: over 12 years ago

10.1038/s41598-020-71176-7

Chemical signatures of femoral pore secretions in two syntopic but reproductively isolated species of Galápagos land iguanas (Conolophus marthae and C. subcristatus)
Cited by: 4
Author(s): Giuliano Colosimo, Gabriele Di Marco, Alessia D’Agostino, Angelo Gismondi, Carlos Vera, Glenn P. Gerber, Michele Scardi, Antonella Canini, Gabriele Gentile
Software Mentions: 5
Published: almost 6 years ago

10.1111/mec.14581

Feather mites play a role in cleaning host feathers: New insights from <scp>DNA</scp> metabarcoding and microscopy
Cited by: 42
Author(s): Jorge Doña, H. C. Proctor, David Serrano, Kevin P. Johnson, Arnika Oddy van Oploo, José C. Huguet‐Tapia, Marina S. Ascunce, Roger Jovani
Software Mentions: 5
Published: about 8 years ago

10.1186/s12864-021-07648-5

Transcriptome of different fruiting stages in the cultivated mushroom Cyclocybe aegerita suggests a complex regulation of fruiting and reveals enzymes putatively involved in fungal oxylipin biosynthesis
Cited by: 19
Author(s): Axel Orban, Annsophie Weber, Robert Herzog, Florian Hennicke, Martin Rühl
Software Mentions: 5
Published: about 5 years ago

10.1371/journal.pone.0200557

Positive association between moderate altitude and chronic lower respiratory disease mortality in United States counties
Cited by: 8
Author(s): Jae Cheol Hwang, Miso Jang, Namkug Kim, Seunghyun Choi, Yeon‐Mok Oh, Joon Beom Seo
Software Mentions: 5
Published: about 8 years ago

10.3389/fpls.2021.675859

Pre-emptive Breeding Against Karnal Bunt Infection in Common Wheat: Combining Genomic and Agronomic Information to Identify Suitable Parents
Cited by: 3
Author(s): Livinus Emebiri, Shane Hildebrand, Mui-Keng Tan, Philomin Juliana, Pawan Kumar Singh, Guillermo Fuentes-Dávila, Ravi P. Singh
Software Mentions: 5
Published: almost 5 years ago

10.1371/journal.pone.0142813

Spatial Scaling of Environmental Variables Improves Species-Habitat Models of Fishes in a Small, Sand-Bed Lowland River
Cited by: 20
Author(s): Johannes Radinger, Christian Wolter, Jochem Kail
Software Mentions: 5
Published: over 10 years ago