10.3390/nu13093248

The Gut Microbiota during a Behavioral Weight Loss Intervention
Cited by: 17
Author(s): Maggie A. Stanislawski, Daniel N. Frank, Sarah J. Borengasser, Danielle M. Ostendorf, Diana Ir, Purevsuren Jambal, Kristen Bing, Liza Wayland, Janet Siebert, Daniel H. Bessesen, Paul S. MacLean, Edward L. Melanson, Victoria A. Catenacci
Software Mentions: 4
Published: almost 5 years ago

10.1186/s12862-021-01849-y

Multiple paths to cold tolerance: the role of environmental cues, morphological traits and the circadian clock gene vrille
Cited by: 22
Author(s): Noora Poikela, Venera Tyukmaeva, Anneli Hoikkala, Maaria Kankare
Software Mentions: 4
Published: about 5 years ago

10.1186/1471-2105-11-594

Addressing the Challenge of Defining Valid Proteomic Biomarkers and Classifiers
Cited by: 109
Author(s): Mohammed Dakna, Kate Harris, Alexandros Kalousis, Sébastien Carpentier, Walter Kölch, Joost P. Schanstra, Marion Haubitz, Antonia Vlahou, Harald Mischak, Mark Girolami
Software Mentions: 4
Published: over 15 years ago

10.3390/ani9121071

Activity Rhythms of Coexisting Red Serow and Chinese Serow at Mt. Gaoligong as Identified by Camera Traps
Cited by: 13
Author(s): Yixin Chen, Zhishu Xiao, Long Zhang, Xinwen Wang, Ming Li, Zuofu Xiang
Software Mentions: 4
Published: over 6 years ago

10.3389/fmolb.2019.00044

Integration of Random Forest Classifiers and Deep Convolutional Neural Networks for Classification and Biomolecular Modeling of Cancer Driver Mutations
Cited by: 34
Author(s): Steve Agajanian, Oluyemi Odeyemi, Gennady M. Verkhivker
Software Mentions: 4
Published: about 7 years ago

10.1002/ece3.5649

Molecular biogeography and host relations of a parasitoid fly
Cited by: 8
Author(s): David A. Gray, Henry D. Kunerth, Marlene Zuk, William H. Cade, Susan L. Balenger
Software Mentions: 4
Published: almost 7 years ago

10.1002/ece3.7447

The impact of aquaculture on the genetics and distribution of the onuphid annelid <i>Diopatra biscayensis</i>
Cited by: 2
Author(s): Matthew P. Galaska, David S. Wethey, Andrés Arias, Stanislas F. Dubois, Kenneth M. Halanych, Sarah A. Woodin
Software Mentions: 4
Published: about 5 years ago

10.1002/ece3.5992

Generalist <i>Eimeria</i> species in rodents: Multilocus analyses indicate inadequate resolution of established markers
Cited by: 13
Author(s): Víctor Hugo Jarquín‐Díaz, Alice Balard, Anna Mácová, Jenny Jost, Tabea Roth von Szepesbéla, Karin Berktold, Steffen Tank, Jana Kvičerová, Emanuel Heitlinger
Software Mentions: 4
Published: over 6 years ago

10.1002/ece3.2691

Multifunctionality is affected by interactions between green roof plant species, substrate depth, and substrate type
Cited by: 37
Author(s): Yann Dusza, Sébastien Barot, Yvan Kraepiel, Jean‐Christophe Lata, Luc Abbadie, Xavier Raynaud
Software Mentions: 4
Published: over 9 years ago

10.1186/s40478-021-01232-4

Metabolic and transcriptomic profiles of glioblastoma invasion revealed by comparisons between patients and corresponding orthotopic xenografts in mice
Cited by: 5
Author(s): Cristina Cudalbu, Pierre Bady, Marta Lai, Lijing Xin, Olga Gusyatiner, Marie‐France Hamou, Mario Lepore, Jean‐Philippe Brouland, Roy Thomas Daniel, Andreas F. Hottinger, Monika E. Hegi
Software Mentions: 4
Published: almost 5 years ago

10.1371/journal.pone.0136018

Markedly Divergent Tree Assemblage Responses to Tropical Forest Loss and Fragmentation across a Strong Seasonality Gradient
Cited by: 14
Author(s): Rodrigo Leonel Lozano Orihuela, Carlos A. Peres, Gabriel Mendes, João André Jarenkow, Marcelo Tabarelli
Software Mentions: 4
Published: almost 11 years ago

10.1002/ece3.6973

Morphometric and genetic evidence for four species of gentoo penguin
Cited by: 10
Author(s): Joshua Tyler, Matthew T. Bonfitto, Gemma V. Clucas, Srinivas K. Reddy, Jane L. Younger
Software Mentions: 4
Published: over 5 years ago

10.1002/ece3.3313

Do temperate tree species diversity and identity influence soil microbial community function and composition?
Cited by: 56
Author(s): Rim Khlifa, Alain Paquette, Christian Messier, Peter B. Reich, Alison D. Munson
Software Mentions: 4
Published: almost 9 years ago

10.1038/srep08397

Diversity in gut bacterial community of school-age children in Asia
Cited by: 189
Author(s): Jiro Nakayama, Koichi Watanabe, Jiahui Jiang, Kazunori Matsuda, Shiou Huei Chao, Pri Haryono, Orawan La-ongkham, Martinus Agus Sarwoko, I Nengah Sujaya, Liang Zhao, Kang Ting Chen, Yen Po Chen, Hsueh Hui Chiu, Tomoko Hidaka, Na Huang, Chikako Kiyohara, Takashi Kurakawa, Naoshige Sakamoto, Kenji Sonomoto, Kousuke Tashiro, Hirokazu Tsuji, Ming Ju Chen, Vichai Leelavatcharamas, Chii Cherng Liao, Sunee Nitisinprasert, Endang Sri Rahayu, Fa Zheng Ren, Yao‐Chou Tsai, Yuan Kun Lee
Software Mentions: 4
Published: over 11 years ago

10.1371/journal.pone.0145165

Assessing Genetic Structure in Common but Ecologically Distinct Carnivores: The Stone Marten and Red Fox
Cited by: 12
Author(s): Mafalda Basto, Margarida Santos‐Reis, Luciana G. Simões, Clara Grilo, Luı́s Cardoso, Hélder Cortes, Michael William Bruford, Carlos Fernandes
Software Mentions: 4
Published: over 10 years ago

10.1038/s41598-017-16352-y

First-trimester vaginal microbiome diversity: A potential indicator of preterm delivery risk
Cited by: 48
Author(s): Mohammed Monzoorul Haque, Mitali Merchant, Pinna Nishal Kumar, Anirban Dutta, Sharmila S. Mande
Software Mentions: 4
Published: over 8 years ago

10.1002/ece3.5056

Genome streamlining via complete loss of introns has occurred multiple times in lichenized fungal mitochondria
Cited by: 26
Author(s): Cloe S. Pogoda, Kyle G. Keepers, Arif Y. Nadiadi, Dustin W Bailey, James C. Lendemer, Erin A. Tripp, Nolan C. Kane
Software Mentions: 4
Published: over 7 years ago

10.1371/journal.pone.0200959

Comparing species richness, functional diversity and functional composition of waterbird communities along environmental gradients in the neotropics
Cited by: 32
Author(s): Bia de Arruda Almeida, Andy J. Green, Esther Sebastián‐González, Luiz dos Anjos
Software Mentions: 4
Published: about 8 years ago

10.3390/s19020322

Optimized Clustering Algorithms for Large Wireless Sensor Networks: A Review
Cited by: 95
Author(s): Damien Wohwe Sambo, Blaise Omer Yenké, Anna Förster, Paul Dayang
Software Mentions: 4
Published: over 7 years ago

10.1186/s40635-021-00373-z

Longitudinal multi-omics transition associated with fatality in critically ill COVID-19 patients
Cited by: 8
Author(s): Chaoyang Sun, Yuzhe Sun, Ping Wu, Wencheng Ding, Shiyou Wang, Jiafeng Li, Langchao Liang, Chaochao Chai, Yu Fu, Zhiming Li, Linnan Zhu, Jia Ju, Xin Liao, Xiaoyuan Huang, Feng Li, Ding Ma, Liang He, Dongsheng Chen, Gang Chen, Xin Jin, Peng Wu
Software Mentions: 4
Published: over 5 years ago

10.7717/peerj.1910

Reconstructing the demographic history of divergence between European river and brook lampreys using approximate Bayesian computations
Cited by: 25
Author(s): Quentin Rougemont, Camille Roux, Samuel Neuenschwander, Jérôme Goudet, Sophie Launey, Guillaume Evanno
Software Mentions: 4
Published: over 10 years ago

10.2196/16113

Deep Learning Approach for Imputation of Missing Values in Actigraphy Data: Algorithm Development Study
Cited by: 14
Author(s): Jong-Hwan Jang, Junggu Choi, Hyun Woong Roh, Sang Joon Son, Chang Hyung Hong, Eun Young Kim, Tae Young Kim, Dukyong Yoon
Software Mentions: 4
Published: almost 6 years ago

10.1371/journal.pone.0042381

Geological Substrates Shape Tree Species and Trait Distributions in African Moist Forests
Cited by: 76
Author(s): Adeline Fayolle, Bettina M. J. Engelbrecht, Vincent Freycon, Frédéric Mortier, Michael Swaine, Maxime Réjou‐Méchain, Jean‐Louis Doucet, Nicolas Fauvet, Guillaume Cornu, Sylvie Gourlet‐Fleury
Software Mentions: 4
Published: almost 14 years ago

10.1186/s40851-018-0093-z

Trabecular architecture in the sciuromorph femoral head: allometry and functional adaptation
Cited by: 35
Author(s): Maja Mielke, Jan Wölfer, Patrick Arnold, Anneke H. van Heteren, Eli Amson, John A. Nyakatura
Software Mentions: 4
Published: about 8 years ago

10.1111/eva.12463

Plasticity in gene transcription explains the differential performance of two invasive fish species
Cited by: 47
Author(s): Kyle Wellband, Daniel D. Heath
Software Mentions: 4
Published: about 9 years ago

10.7717/peerj.1241

Partitioning the impact of environment and spatial structure on alpha and beta components of taxonomic, functional, and phylogenetic diversity in European ants
Cited by: 74
Author(s): Xavier Arnán, Xím Cerdá, Javier Retana
Software Mentions: 4
Published: almost 11 years ago

10.1002/ece3.6635

Genetic structuring among colonies of a pantropical seabird: Implication for subspecies validation and conservation
Cited by: 4
Author(s): Laurence Humeau, Matthieu Le Corre, Stuart F. Reynolds, Colin P. Wearn, Janos C. Hennicke, James C. Russell, Yann Gomard, Hélène Magalon, Patrick Pinet, Pauline Gélin, François Xavier Couzi, E. Bemanaja, Vikash Tatayah, Ousseni Bacar, Gérard Rocamora, Patrick Talbot, Nirmal Shah, Leandro Bugoni, Denis Da Silva, A. Jaeger
Software Mentions: 4
Published: almost 6 years ago

10.1186/s13071-018-2933-2

Aedes aegypti in the Black Sea: recent introduction or ancient remnant?
Cited by: 37
Author(s): Panayiota Kotsakiozi, Andrea Gloria‐Soria, Francis Schaffner, Vincent Robert, Jeffrey R. Powell
Software Mentions: 4
Published: about 8 years ago

10.1126/sciadv.aay1048

Variable effects of local management on coral defenses against a thermally regulated bleaching pathogen
Cited by: 14
Author(s): Deanna S. Beatty, Jinu Mathew Valayil, Cody S. Clements, Kim B. Ritchie, Frank J. Stewart, Mark E. Hay
Software Mentions: 4
Published: almost 7 years ago

10.1080/19490976.2020.1822729

Metagenomic analysis reveals distinct patterns of gut lactobacillus prevalence, abundance, and geographical variation in health and disease
Cited by: 20
Author(s): Tarini Shankar Ghosh, Jerome Arnoux, Paul W. O’Toole
Software Mentions: 4
Published: almost 6 years ago

10.1186/s13567-014-0114-7

Multilocus sequence analysis of Anaplasma phagocytophilum reveals three distinct lineages with different host ranges in clinically ill French cattle
Cited by: 25
Author(s): Amélie Chastagner, Thibaud Dugat, Gwenaël Vourc’H, Hélène Verheyden, Loïc Legrand, Véronique Bachy, Luc Chabanne, Guy Joncour, Renaud Maillard, Henri-Jean Boulouis, Nadia Haddad, Xavier Bailly, Agnès Leblond
Software Mentions: 4
Published: over 11 years ago

10.1186/1748-7188-7-19

Getting DNA copy numbers without control samples
Cited by: 1
Author(s): María Ortiz-Estévez, Ander Aramburu, Ángel Rubio
Software Mentions: 4
Published: almost 14 years ago

10.3389/fmicb.2018.03344

Long Term Diversity and Distribution of Non-photosynthetic Cyanobacteria in Peri-Alpine Lakes
Cited by: 36
Author(s): Marie‐Ève Monchamp, Piet Spaak, Francesco Pomati
Software Mentions: 4
Published: over 7 years ago

10.1186/s12931-021-01837-2

Prediction of lung emphysema in COPD by spirometry and clinical symptoms: results from COSYCONET
Cited by: 4
Author(s): Christina Kellerer, Rudolf A. Jörres, Antonius Schneider, Peter Alter, Hans‐Ulrich Kauczor, Bertram Jobst, Jürgen Biederer, Robert Bals, Henrik Watz, Jürgen Behr, Diego Kauffmann-Guerrero, Johanna I. Lutter, Alexander Hapfelmeier, H Magnussen, Franziska Trudzinski, Tobias Welte, Claus Vogelmeier, Kathrin Kahnert
Software Mentions: 4
Published: almost 5 years ago

10.1038/s41598-020-64870-z

Correlation-centred variable selection of a gene expression signature to predict breast cancer metastasis
Cited by: 5
Author(s): Shiori Hikichi, Masahiro Sugimoto, Masaru Tomita
Software Mentions: 4
Published: about 6 years ago

10.3389/fmicb.2020.556118

Beneficial Effects of Mixing Kentucky Bluegrass With Red Fescue via Plant-Soil Interactions in Black Soil of Northeast China
Cited by: 6
Author(s): Fang Xie, Gaoyun Zhang, Qianjiao Zheng, Kemeng Liu, Xiujie Yin, Xiaoyang Sun, Shah Saud, Zhan Shi, Runli Yuan, Wenjing Deng, Lu Zhang, Guowen Cui, Yajun Chen
Software Mentions: 4
Published: over 5 years ago

10.1186/s12862-017-0885-3

Grandparental immune priming in the pipefish Syngnathus typhle
Cited by: 39
Author(s): Anne Beemelmanns, Olivia Roth
Software Mentions: 4
Published: over 9 years ago

10.1186/1471-2164-15-989

Evaluation of viral genome assembly and diversity estimation in deep metagenomes
Cited by: 31
Author(s): Daniel Aguirre de Cárcer, Florent E. Angly, Antonio Alcamı́
Software Mentions: 4
Published: over 12 years ago

10.1186/s12913-020-05989-7

Social determinants of health and hospital readmissions: can the HOSPITAL risk score be improved by the inclusion of social factors?
Cited by: 4
Author(s): Shirlene Obuobi, Rhys Chua, Stephanie Besser, Corey E. Tabit
Software Mentions: 4
Published: over 5 years ago

10.1186/1475-2859-10-18

Evolution combined with genomic study elucidates genetic bases of isobutanol tolerance in Escherichia coli
Cited by: 157
Author(s): Jeremy J. Minty, Ann A Lesnefsky, Fengming Lin, Yu Chen, Ted A. Zaroff, Artur Veloso, Bin Xie, Catie A McConnell, Rebecca J Ward, Donald R. Schwartz, Jean-Marie Rouillard, Yuan Gao, Erdogan Gülari, Xiaoxia Lin
Software Mentions: 4
Published: over 15 years ago

10.1186/s12859-017-1571-6

Avoiding the pitfalls of gene set enrichment analysis with SetRank
Cited by: 87
Author(s): Cédric Simillion, Robin Liechti, Heidi E. L. Lischer, Vassilios Ioannidis, Rémy Bruggmann
Software Mentions: 4
Published: over 9 years ago

10.1038/s41598-017-16520-0

propr: An R-package for Identifying Proportionally Abundant Features Using Compositional Data Analysis
Cited by: 130
Author(s): Thomas P. Quinn, Mark F. Richardson, David Lovell, Tamsyn M. Crowley
Software Mentions: 4
Published: over 8 years ago

10.1038/s41598-020-76796-7

The effect of hypoxia on the proteomic signature of pig adipose-derived stromal/stem cells (pASCs)
Cited by: 7
Author(s): Joanna Bukowska, Mariola Słowińska, Patrycja Cierniak, Marta Kopcewicz, Katarzyna Walendzik, Trivia Frazier, Barbara Gawrońska‐Kozak
Software Mentions: 4
Published: over 5 years ago

10.1038/s41598-020-71592-9

Long-term effects of western diet consumption in male and female mice
Cited by: 23
Author(s): Yu Hasegawa, Shin-Yu Chen, Lili Sheng, Prasant Kumar Jena, Karen M. Kalanetra, David A. Mills, Yu Wan, Carolyn M. Slupsky
Software Mentions: 4
Published: almost 6 years ago

10.1038/s41598-018-28185-4

Early alteration of epigenetic-related transcription in Huntington’s disease mouse models
Cited by: 35
Author(s): Irati Hervás-Corpión, Deisy Guiretti, Manuel Alcaráz-Iborra, Román Olivares, Antonio Campos‐Caro, Ángel Barco, Luis M. Valor
Software Mentions: 4
Published: about 8 years ago

10.1098/rspb.2020.2722

Supplemented nutrition decreases helminth burden and increases drug efficacy in a natural host–helminth system
Cited by: 17
Author(s): Amy R. Sweeny, Melanie Clerc, Paulina A. Pontifes, Saudamini Venkatesan, Simon A. Babayan, Amy B. Pedersen
Software Mentions: 4
Published: over 5 years ago

10.1371/journal.ppat.1009234

Winter is coming–Temperature affects immune defenses and susceptibility to Batrachochytrium salamandrivorans
Cited by: 20
Author(s): Edward Davis Carter, Molly C. Bletz, Mitchell Le Sage, Brandon LaBumbard, Louise A. Rollins‐Smith, Douglas C. Woodhams, Debra L. Miller, Matthew J. Gray
Software Mentions: 4
Published: over 5 years ago

10.1371/journal.pcbi.1003326

Practical Guidelines for the Comprehensive Analysis of ChIP-seq Data
Cited by: 228
Author(s): Timonthy Bailey, Paweł Krajewski, István Ladunga, Céline Lefèbvre, Qunhua Li, Tao Liu, Pedro Madrigal, Cenny Taslim, Jie Zhang
Software Mentions: 4
Published: over 12 years ago

10.1186/s12870-019-1708-z

The wild sweetpotato (Ipomoea trifida) genome provides insights into storage root development
Cited by: 30
Author(s): Ming Li, Songtao Yang, Wei Xü, Zhien Pu, Jiayi Feng, Zhangying Wang, Cong Zhang, Peng Ma, Chunguang Du, Feng Lin, Changhe Wei, Shuai Qiao, Hongda Zou, Lei Zhang, Yán Li, Huan Yang, Anzhong Liao, Wei Song, Zhongren Zhang, Ji Li, Kai Wang, Yizheng Zhang, Hao Lin, Jinbo Zhang, Wen-Fang Tan
Software Mentions: 4
Published: over 7 years ago

10.1186/1471-2105-15-62

Stability SCAD: a powerful approach to detect interactions in large-scale genomic study
Cited by: 1
Author(s): Jianwei Gou, Yang Zhao, Wei Yongyue, Chen Wu, Ruyang Zhang, Yongyong Qiu, Ping Zeng, Wen Tan, Dianke Yu, Tangchun Wu, Zhibin Hu, Dongxin Lin, Hongbing Shen, Feng Chen
Software Mentions: 4
Published: over 12 years ago

10.1038/s41598-017-16007-y

Warming, shading and a moth outbreak reduce tundra carbon sink strength dramatically by changing plant cover and soil microbial activity
Cited by: 31
Author(s): Mathilde Borg Dahl, Anders Priemé, Asker Brejnrod, Peter Brusvang, Magnus Lund, Josephine Nymand, Magnus Kramshøj, H. Ro‐Poulsen, Merian Skouw Haugwitz
Software Mentions: 4
Published: over 8 years ago

10.1371/journal.pone.0227076

All of gene expression (AOE): An integrated index for public gene expression databases
Cited by: 29
Author(s): Hidemasa Bono
Software Mentions: 4
Published: over 6 years ago

10.3389/fphys.2021.638669

Head-Down Tilt Position, but Not the Duration of Bed Rest Affects Resting State Electrocortical Activity
Cited by: 8
Author(s): Katharina Brauns, Anika Friedl-Werner, Martina Anna Maggioni, Hanns‐Christian Gunga, Alexander Stahn
Software Mentions: 4
Published: over 5 years ago

10.3389/fphys.2021.661670

Effects of Heat Waves During Post-natal Development on Mitochondrial and Whole Body Physiology: An Experimental Study in Zebra Finches
Cited by: 9
Author(s): Riccardo Ton, Antoine Stier, Christine Cooper, Simon C. Griffith
Software Mentions: 4
Published: about 5 years ago

10.18632/aging.202173

A novel immune-related genes prognosis biomarker for hepatocellular carcinoma
Cited by: 7
Author(s): Kunpeng Wang, Xinyi Chen, Chong Jin, Jinggang Mo, Hao Jiang, Bin Yi, Xiang Chen
Software Mentions: 4
Published: over 5 years ago

10.1093/femsec/fiab054

Relative contributions of egg-associated and substrate-associated microorganisms to black soldier fly larval performance and microbiota
Cited by: 12
Author(s): Stijn J. J. Schreven, Hugo de Vries, Gerben D. A. Hermes, Hauke Smidt, Marcel Dicke, J.J.A. van Loon
Software Mentions: 4
Published: over 5 years ago

10.3389/fphys.2021.675426

Impaired Attentional Processing During Parabolic Flight
Cited by: 3
Author(s): Anika Friedl-Werner, Marie-Laure Machado, Costantino Balestra, Yannick Liegard, Bruno Philoxène, Katharina Brauns, Alexander Ac Stahn, Martin Hitier, S. Besnard
Software Mentions: 4
Published: about 5 years ago

10.1186/s13148-019-0749-3

A genome-wide DNA methylation signature for SETD1B-related syndrome
Cited by: 41
Author(s): Izabela M. Krzyzewska, Saskia M. Maas, Peter Henneman, Karin van der Lip, Andrea Venema, Kristin W. Barañano, Anna Chassevent, Erfan Aref‐Eshghi, Anthonie J. van Essen, Tokiko Fukuda, Hiroko Ikeda, Marie Line Jacquemont, H.-G. Kim, Audrey Labalme, Lewis Sm, Gaëtan Lesca, Irene Madrigal, Sonal Mahida, Naomichi Matsumoto, Raquel Rabionet, Evica Rajcan‐Separovic, Ying Qiao, Bekim Sadiković, Hirotomo Saitsu, David A. Sweetser, Mariëlle Alders, Marcel M.A.M. Mannens
Software Mentions: 4
Published: over 6 years ago

10.1186/s13072-018-0186-0

Transient reduction of DNA methylation at the onset of meiosis in male mice
Cited by: 36
Author(s): Valeriya Gaysinskaya, Brendan Miller, Chiara De Luca, Godfried W. van der Heijden, Kasper D. Hansen, Alex Bortvin
Software Mentions: 4
Published: over 8 years ago

10.1371/journal.pone.0238202

Immune and sex-biased gene expression in the threatened Mojave desert tortoise, Gopherus agassizii
Cited by: 2
Author(s): Cindy Xu, Greer A. Dolby, K. Kristina Drake, Todd C. Esque, Kenro Kusumi
Software Mentions: 4
Published: almost 6 years ago

10.1038/s41598-020-57476-y

Latency and interval therapy affect the evolution in metastatic colorectal cancer
Cited by: 5
Author(s): Hamid Nikbakht, Selin Jessa, Mahadeo A. Sukhai, Madeleine Arseneault, Tong Zhang, Louis Létourneau, Mariam Thomas, Mathieu Bourgey, Michael H. A. Roehrl, Robert Eveleigh, Eric X. Chen, Monika K. Krzyzanowska, Malcolm J. Moore, Amanda Giesler, Celeste Yu, Philippe L. Bedard, Suzanne Kamel‐Reid, Jacek Majewski, Lillian L. Siu, Yasser Riazalhosseini, Donna M. Graham
Software Mentions: 4
Published: over 6 years ago

10.3389/fphys.2019.00917

Integrated Analysis of DNA Methylation and Biochemical/Metabolic Parameter During the Long-Term Isolation Environment
Cited by: 2
Author(s): Quan Yuan, Feng Liang, Yuexing Zhu, Ying Chen, Xu Zi, Fang Du, Ke Lv, Hailong Chen, Lei Qu, Ruifeng Xu, Hongyu Zhang, Jianghui Xiong, Yinghui Li
Software Mentions: 4
Published: almost 7 years ago

10.1093/bioinformatics/btv470

<i>motifbreakR</i>: an R/Bioconductor package for predicting variant effects at transcription factor binding sites
Cited by: 179
Author(s): Simon Coetzee, Gerhard A. Coetzee, Dennis J. Hazelett
Software Mentions: 4
Published: almost 11 years ago

10.1002/ece3.849

Measuring and evaluating morphological asymmetry in fish: distinct lateral dimorphism in the jaws of scale‐eating cichlids
Cited by: 18
Author(s): Hiroki Hata, Masaki Yasugi, Yuichi Takeuchi, Satoshi Takahashi, Michio Hori
Software Mentions: 4
Published: over 12 years ago

10.1002/evl3.65

Decomposing parasite fitness reveals the basis of specialization in a two-host, two-parasite system
Cited by: 19
Author(s): Eva J.P. Lievens, Julie Perreau, Philip Agnew, Yannis Michalakis, Thomas Lenormand
Software Mentions: 4
Published: almost 8 years ago

10.1186/s12859-019-2845-y

HOME: a histogram based machine learning approach for effective identification of differentially methylated regions
Cited by: 29
Author(s): Akanksha Srivastava, Yuliya V. Karpievitch, Steven R. Eichten, Justin O. Borevitz, Ryan Lister
Software Mentions: 4
Published: about 7 years ago

10.7554/eLife.44279

Plant–necrotroph co-transcriptome networks illuminate a metabolic battlefield
Cited by: 42
Author(s): Wei Zhang, Jason A. Corwin, Daniel Copeland, Julie E. Feusier, Robert Eshbaugh, David E. Cook, Suzi Atwell, Daniel J. Kliebenstein
Software Mentions: 4
Published: about 7 years ago

10.1371/journal.pone.0219652

Drone-based effective counting and ageing of hippopotamus (Hippopotamus amphibius) in the Okavango Delta in Botswana
Cited by: 16
Author(s): Victoria L. Inman, Richard T. Kingsford, Michael J. Chase, Keith E. A. Leggett
Software Mentions: 4
Published: over 6 years ago

10.1371/journal.pone.0223271

Gender linked fate explains lower legal abortion support among white married women
Cited by: 3
Author(s): Leah Ruppanner, Gosia Mikołajczak, Kelsy Kretschmer, Christopher Stout
Software Mentions: 4
Published: almost 7 years ago

10.1186/s12864-019-5970-0

Single-cell RNA-seq of esophageal squamous cell carcinoma cell line with fractionated irradiation reveals radioresistant gene expression patterns
Cited by: 22
Author(s): Ling Yang, Xiaoyan Zhang, Qiang Hou, Ming Huang, Hongfang Zhang, Zhenzhen Jiang, Jing Yue, Shixiu Wu
Software Mentions: 4
Published: almost 7 years ago

10.14814/phy2.14680

Effect of ankle joint position on triceps surae contractile properties and motor unit discharge rates
Cited by: 7
Author(s): Kalter Hali, Alexander M. Zero, Charles L. Rice
Software Mentions: 4
Published: over 5 years ago

10.1371/journal.pone.0246508

Relationships between fox populations and rabies virus spread in northern Canada
Cited by: 17
Author(s): Susan A. Nadin-Davis, Emilie Falardeau, Alex Flynn, Hugh Whitney, H. Dawn Marshall
Software Mentions: 4
Published: over 5 years ago

10.1371/journal.pone.0088950

Widespread FRA1-Dependent Control of Mesenchymal Transdifferentiation Programs in Colorectal Cancer Cells
Cited by: 68
Author(s): Jeannine Diesch, Elaine Sanij, Omer Gilan, Christopher G. Love, Hoanh Tran, Nicholas I. Fleming, Jason Ellul, Amalia Marcia, Izhak Haviv, Richard B. Pearson, Eugene Tulchinsky, John M. Mariadason, Oliver M. Sieber, Ross D. Hannan, Amardeep S. Dhillon
Software Mentions: 4
Published: over 12 years ago

10.26508/lsa.202000825

The RNA-binding profile of the splicing factor SRSF6 in immortalized human pancreatic β-cells
Cited by: 13
Author(s): Maria Inês Alvelos, Mirko Brüggemann, F. X. Reymond Sutandy, Jonàs Juan-Mateu, Máikel Luís Colli, Anke Busch, Miguel Lopes, Ângela Castela, Annemieke Aartsma‐Rus, Julian König, Kathi Zarnack, Décio L. Eizirik
Software Mentions: 4
Published: over 5 years ago

10.1155/2013/340620

State-of-the-Art Fusion-Finder Algorithms Sensitivity and Specificity
Cited by: 79
Author(s): Matteo Carrara, Marco Beccuti, Fulvio Lazzarato, Federica Cavallo, Francesca Cordero, Susanna Donatelli, Raffaele Calogero
Software Mentions: 4
Published: over 13 years ago

10.1186/s12864-015-2164-2

The direction of cross affects obesity after puberty in male but not female offspring
Cited by: 5
Author(s): Stefan Kärst, Danny Arends, Sebastian Heise, Jan Trost, Marie–Laure Yaspo, Vyacheslav Amstislavskiy, Thomas S. Risch, Hans Lehrach, Gudrun A. Brockmann
Software Mentions: 4
Published: over 10 years ago

10.3390/ijms21165847

Deep Learning Modeling of Androgen Receptor Responses to Prostate Cancer Therapies
Cited by: 11
Author(s): Oliver Snow, Nada Lallous, Martin Ester, Artem Cherkasov
Software Mentions: 4
Published: almost 6 years ago

10.1186/s12863-016-0365-6

Fragman: an R package for fragment analysis
Cited by: 45
Author(s): Giovanny Covarrubias‐Pazaran, Luis Díaz-Garcia, Brandon Schlautman, Walter Salazar, Juan Zalapa
Software Mentions: 4
Published: over 10 years ago

10.1186/s12859-015-0460-0

Inferring dynamic gene regulatory networks in cardiac differentiation through the integration of multi-dimensional data
Cited by: 20
Author(s): Wuming Gong, Naoko Koyano-Nakagawa, Tongbin Li, Daniel J. Garry
Software Mentions: 4
Published: over 11 years ago

10.7717/peerj.6713

Validation of<i>Plasmodium falciparum</i>deoxyhypusine synthase as an antimalarial target
Cited by: 7
Author(s): Aiyada Aroonsri, Navaporn Posayapisit, Jindaporn Kongsee, Onsiri Siripan, Danoo Vitsupakorn, Sugunya Utaida, Chairat Uthaipibull, Sumalee Kamchonwongpaisan, Philip Shaw
Software Mentions: 4
Published: over 7 years ago

10.1186/gb-2014-15-2-r30

Using high-density DNA methylation arrays to profile copy number alterations
Cited by: 109
Author(s): Andrew Feber, Paul Guilhamon, Matthias Lechner, Tim R. Fenton, Gareth A. Wilson, Christina Thirlwell, Tiffany Morris, Adrienne M. Flanagan, Andrew E. Teschendorff, John D. Kelly, Stephan Beck
Software Mentions: 4
Published: over 12 years ago

10.3390/ani11092682

Social Behaviour in Zoo Bachelor Groups: A Case Study of Related South American Fur Seals
Cited by: 0
Author(s): Christa Emmett, Mathilda Digby, J. H. Pope, Ellen Williams
Software Mentions: 4
Published: almost 5 years ago

10.1098/rspb.2020.1070

Phylogenetic and functional distinctiveness explain alien plant population responses to competition
Cited by: 10
Author(s): Sam Levin, Raelene M. Crandall, Tyler Pokoski, Cláudia Stein, Tiffany M. Knight
Software Mentions: 4
Published: about 6 years ago

10.1371/journal.pcbi.1006091

Divergent genome evolution caused by regional variation in DNA gain and loss between human and mouse
Cited by: 1
Author(s): R. Buckley, R. Daniel Kortschak, David L. Adelson
Software Mentions: 4
Published: over 8 years ago

10.1111/acel.12479

Characterization of the direct targets of <scp>FOXO</scp> transcription factors throughout evolution
Cited by: 158
Author(s): Ashley E. Webb, Anshul Kundaje, Anne Brunet
Software Mentions: 4
Published: over 10 years ago

10.1136/annrheumdis-2020-217646

Unique expansion of IL-21+ Tfh and Tph cells under control of ICOS identifies Sjögren’s syndrome with ectopic germinal centres and MALT lymphoma
Cited by: 75
Author(s): Elena Pontarini, William Murray-Brown, Cristina Croia, Davide Lucchesi, James Conway, Felice Rivellese, Liliane Fossati-Jimack, Elisa Astorri, Edoardo Prediletto, Elisa Corsiero, Francesca Romana Delvecchio, Rachel Coleby, Eva Gelbhardt, Aurora Bono, Chiara Baldini, Ilaria Puxeddu, Piero Ruscitti, Roberto Giacomelli, Francesca Barone, Benjamin A Fisher, Simon Bowman, Serena Colafrancesco, Roberta Priori, Nurhan Sutcliffe, S. J. Challacombe, Gianluca Carlesso, Anwar R. Tappuni, Costantino Pitzalis, Michèle Bombardieri
Software Mentions: 4
Published: almost 6 years ago

10.1186/1471-2105-8-146

Analysis of probe level patterns in Affymetrix microarray data
Cited by: 15
Author(s): A. Cambon, Abdelnaby Khalyfa, Nigel G. F. Cooper, Caryn M. Thompson
Software Mentions: 4
Published: about 19 years ago

10.1038/srep30115

Genomic content typifying a prevalent clade of bovine mastitis-associated Escherichia coli
Cited by: 39
Author(s): Robert Goldstone, Susan R. Harris, David George Emslie Smith
Software Mentions: 4
Published: about 10 years ago

10.1186/1471-2105-7-533

Effect of various normalization methods on Applied Biosystems expression array system data
Cited by: 44
Author(s): Cátálin Bárbácioru, Yulei Wang, Roger D. Canales, Yongming Sun, David Keys, Felix Hon-Wai Chan, Karen Poulter, Raymond R. Samaha
Software Mentions: 4
Published: over 19 years ago

10.1186/s12859-017-1915-2

dbMDEGA: a database for meta-analysis of differentially expressed genes in autism spectrum disorder
Cited by: 10
Author(s): Shuyun Zhang, Libin Deng, Qiyue Jia, Shaoting Huang, Junwang Gu, Fankun Zhou, Meng Gao, Xinyi Sun, Chenglian Feng, Guang Fan
Software Mentions: 4
Published: over 8 years ago

10.1038/s41598-018-29329-2

Determination of system level alterations in host transcriptome due to Zika virus (ZIKV) Infection in retinal pigment epithelium
Cited by: 33
Author(s): Pawan Kumar Singh, Indu Khatri, Alokkumar Jha, Carla D. Pretto, Katherine R. Spindler, Vaithilingaraja Arumugaswami, Shailendra Giri, Ashok Kumar, Manoj Bhasin
Software Mentions: 4
Published: almost 8 years ago

10.1038/srep29122

The transcriptomes of novel marmoset monkey embryonic stem cell lines reflect distinct genomic features
Cited by: 16
Author(s): Katharina Debowski, Charis Drummer, Jana Lentes, Maren Cors, Ralf Dressel, Thomas Lingner, Gabriela Salinas-Riester, Sigrid Fuchs, Erika Sasaki, Rüdiger Behr
Software Mentions: 4
Published: about 10 years ago

10.1371/journal.pone.0252071

Deforestation effects on Attalea palms and their resident Rhodnius, vectors of Chagas disease, in eastern Amazonia
Cited by: 8
Author(s): Walter Souza Santos, Rodrigo Gurgel-Gonçalves, Lourdes Maria Garcez, Fernando Abad‐Franch
Software Mentions: 4
Published: about 5 years ago

10.1186/s13059-021-02340-z

HDAC4 degradation during senescence unleashes an epigenetic program driven by AP-1/p300 at selected enhancers and super-enhancers
Cited by: 22
Author(s): Eros Di Giorgio, Harikrishnareddy Paluvai, Emiliano Dalla, Liliana Ranzino, Alessandra Renzini, Viviana Moresi, Martina Minisini, Raffaella Picco, Claudio Brancolini
Software Mentions: 4
Published: about 5 years ago

10.1186/s12915-021-01153-7

Skin-penetrating nematodes exhibit life-stage-specific interactions with host-associated and environmental bacteria
Cited by: 4
Author(s): Ivan N Chavez, Taylor M Brown, Adrien Assié, Astra S. Bryant, Buck S. Samuel, Elissa A. Hallem
Software Mentions: 4
Published: almost 5 years ago

10.1371/journal.pone.0235224

A method to estimate population densities and electricity consumption from mobile phone data in developing countries
Cited by: 13
Author(s): Hadrien Salat, Zbigniew Smoreda, Markus Schläpfer
Software Mentions: 4
Published: about 6 years ago

10.1186/s12859-018-2134-1

SECIMTools: a suite of metabolomics data analysis tools
Cited by: 33
Author(s): Alexander Kirpich, Miguel Ibarra, Oleksandr Moskalenko, Justin M. Fear, Joseph E. Gerken, Xinlei Mi, Ali Ashrafi, Alison M. Morse, Lauren McIntyre
Software Mentions: 4
Published: over 8 years ago

10.1155/2013/983805

NCBI2RDF: Enabling Full RDF-Based Access to NCBI Databases
Cited by: 10
Author(s): Alberto Anguita, Miguel García-Remesal, Diana de la Iglesia, Víctor Maojo
Software Mentions: 4
Published: over 13 years ago

10.1186/1471-2105-10-389

A comprehensive sensitivity analysis of microarray breast cancer classification under feature variability
Cited by: 18
Author(s): Herman M. J. Sontrop, Perry D. Moerland, René van den Ham, Marcel J. T. Reinders, Wim Verhaegh
Software Mentions: 4
Published: over 16 years ago

10.1186/s12885-020-6513-4

Immunogenomic pathways associated with cytotoxic lymphocyte infiltration and survival in colorectal cancer
Cited by: 8
Author(s): Yuanyuan Shen, Yue Guan, Justin Hummel, Chi‐Ren Shyu, Jonathan B. Mitchem
Software Mentions: 4
Published: over 6 years ago