10.1186/1471-2105-13-113

Molecular ecological network analyses
Cited by: 1,612
Author(s): Ye Deng, Yi-Huei Jiang, Yunfeng Yang, Zhili He, Feng Luo, Jizhong Zhou
Software Mentions: 5
Published: about 14 years ago

10.7717/peerj.3712

PrePhyloPro: phylogenetic profile-based prediction of whole proteome linkages
Cited by: 15
Author(s): Yulong Niu, Chengcheng Liu, Shayan Moghimyfiroozabad, Yi Yang, Kambiz N. Alavian
Software Mentions: 5
Published: almost 9 years ago

10.3390/cells9091924

Microcurrent Stimulation Triggers MAPK Signaling and TGF-β1 Release in Fibroblast and Osteoblast-Like Cell Lines
Cited by: 14
Author(s): Evangelia Konstantinou, Zoi Zagoriti, Anastasia Pyriochou, Konstantinos Poulas
Software Mentions: 5
Published: almost 6 years ago

10.3389/fonc.2020.566183

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

10.3389/fonc.2020.01119

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

10.3389/fonc.2020.00081

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

10.1007/s00122-020-03759-x

Multi-omics-based prediction of hybrid performance in canola
Cited by: 19
Author(s): Dominic Knoch, Christian R. Werner, Rhonda C. Meyer, David Riewe, Amine Abbadi, Sophie Lücke, Rod J. Snowdon, Thomas Altmann
Software Mentions: 5
Published: over 5 years ago

10.1002/evl3.218

Regional differences in rapid evolution during severe drought
Cited by: 18
Author(s): Daniel N. Anstett, Haley A. Branch, Amy L. Angert
Software Mentions: 5
Published: over 5 years ago

10.1186/s12859-016-0928-6

Gene set analysis using sufficient dimension reduction
Cited by: 7
Author(s): Huey-Miin Hsueh, Tsai Chen-An
Software Mentions: 5
Published: over 10 years ago

10.1186/s12864-016-3135-y

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

10.1002/1878-0261.12853

Genome‐scale CRISPR screening identifies cell cycle and protein ubiquitination processes as druggable targets for erlotinib‐resistant lung cancer
Cited by: 10
Author(s): Jieun Lee, Ahyoung Choi, Sung Yup Cho, Yukyung Jun, Deukchae Na, Ahra Lee, Giyong Jang, Jee Young Kwon, Jaesang Kim, Sanghyuk Lee, Charles Lee
Software Mentions: 5
Published: over 5 years ago

10.1186/s12859-019-3324-1

Lag penalized weighted correlation for time series clustering
Cited by: 8
Author(s): Thevaa Chandereng, Anthony Gitter
Software Mentions: 5
Published: almost 6 years ago

10.1186/s13073-017-0493-2

Predicting cancer type from tumour DNA signatures
Cited by: 36
Author(s): Kee Pang Soh, Ewa Szczurek, Thomas Sakoparnig, Niko Beerenwinkel
Software Mentions: 5
Published: over 8 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

10.1002/ece3.4160

Time‐lapse cameras reveal latitude and season influence breeding phenology durations in penguins
Cited by: 7
Author(s): Caitlin Black, Ben Collen, Daniel Lunn, Dick Filby, Stephanie Winnard, Tom Hart
Software Mentions: 5
Published: almost 8 years ago

10.1002/bimj.201800222

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

10.1186/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/s41598-018-29320-x

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

10.3389/fpls.2020.570871

Genomic Selection for Prediction of Fruit-Related Traits in Pepper (Capsicum spp.)
Cited by: 15
Author(s): Ju-Pyo Hong, Na-Young Ro, Hea-Young Lee, Geon Woo Kim, Jae-Hoon Kwon, Eiji Yamamoto, Byoung-Cheorl Kang
Software Mentions: 5
Published: over 5 years ago

10.3389/fcimb.2020.588155

Proteome and Microbiome Mapping of Human Gingival Tissue in Health and Disease
Cited by: 14
Author(s): Kai Bao, Xiaofei Li, Lucy Poveda, Weihong Qi, Nathalie Selevsek, Pınar Gümüş, Gülnur Emingil, Jonas Grossmann, Patricia I. Diaz, George Hajishengallis, Nagihan Bostancı, Georgios N. Belibasakis
Software Mentions: 5
Published: almost 6 years ago

10.1128/mSystems.00087-17

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

10.1038/s41598-020-66178-4

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

10.3390/s21175949

An Internet of Things Platform Based on Microservices and Cloud Paradigms for Livestock
Cited by: 6
Author(s): Jordi Mateo, Adela Pagès‐Bernaus, Lluís M. Plà-Aragonés, Joan Pau Castells-Gasia, D. Babot
Software Mentions: 5
Published: almost 5 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

10.1038/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

10.1590/1678-4685-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

10.3389/fcimb.2021.654074

Intestinal Microbiota Mediates High-Fructose and High-Fat Diets to Induce Chronic Intestinal Inflammation
Cited by: 30
Author(s): Rong Tan, Huiwei Dong, Zhengshan Chen, Min Jin, Jing Yin, Haibei Li, Danyang Shi, Yi-fan Shao, Huaran Wang, Tianjiao Chen, Dong Yang, Jùnwén Lǐ
Software Mentions: 5
Published: about 5 years ago

10.3389/fmicb.2019.01486

Soil Salinity and pH Drive Soil Bacterial Community Composition and Diversity Along a Lateritic Slope in the Avon River Critical Zone Observatory, Western Australia
Cited by: 39
Author(s): Flora Jane Mary O'Brien, Maya Almaraz, Melissa A. Foster, A. F. Hill, David P. Huber, Elizabeth King, Harry Langford, Mary-Anne Lowe, Bede S. Mickan, Valerie S. Miller, Oliver Moore, Falko Mathes, Deirdre Gleeson, Matthias Leopold
Software Mentions: 5
Published: about 7 years ago

10.3389/fonc.2021.641385

Prognostic Value of an Immunohistochemical Signature in Patients With Bladder Cancer Undergoing Radical Cystectomy
Cited by: 1
Author(s): Jie Wu, Junmiao Wen, Yu-Chen Wang, Wenjie Luo, Qifeng Wang, Hong Liu, Bo Dai, Dingwei Ye, Hengchuan Su, Yiping Zhu
Software Mentions: 5
Published: over 5 years ago

10.1186/1751-0473-8-14

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

10.1186/1471-2105-10-106

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

10.7554/eLife.34779

Value generalization in human avoidance learning
Cited by: 31
Author(s): Agnes Norbury, Trevor W. Robbins, Ben Seymour
Software Mentions: 5
Published: about 8 years ago

10.1186/s13029-019-0071-7

eUTOPIA: solUTion for Omics data PreprocessIng and Analysis
Cited by: 34
Author(s): Veer Singh Marwah, Giovanni Scala, Pia Anneli Sofia Kinaret, Angela Serra, Harri Alenius, Vittorio Fortino, Dario Greco
Software Mentions: 5
Published: over 7 years ago

10.3390/ijms21082994

Identification of Key Genes Related to Lung Squamous Cell Carcinoma Using Bioinformatics Analysis
Cited by: 39
Author(s): Miaomiao Gao, Jie Zhu, Zhuo Huang, Zhengwei Xie
Software Mentions: 5
Published: about 6 years ago

10.15252/msb.20199012

Sex‐dependent and sex‐independent regulatory systems of size variation in natural populations
Cited by: 4
Author(s): Hirokazu Okada, Ryuta Yagi, Vincent Gardeux, Bart Deplancke, Ernst Hafen
Software Mentions: 5
Published: over 6 years ago

10.1038/s41598-019-53811-0

An integrated nomogram combining lncRNAs classifier and clinicopathologic factors to predict the recurrence of head and neck squamous cell carcinoma
Cited by: 4
Author(s): Jie Cui, Qingquan Wen, Xiaojie Tan, Jinsong Piao, Qiong Zhang, Qian Wang, Lizhen He, Yan Wang, Zhe Chen, Genglong Liu
Software Mentions: 5
Published: over 6 years ago

10.1371/journal.pntd.0005693

Evolution and spread of Venezuelan equine encephalitis complex alphavirus in the Americas
Cited by: 53
Author(s): Naomi L. Forrester, Joel O. Wertheim, Vivian G. Dugan, Albert J. Auguste, David L. Lin, Alexandra Adams, Rubing Chen, Rodion Gorchakov, Grace Leal, José G. Estrada-Franco, Jyotsna Pandya, Rebecca Halpin, Kumar Hari, Ravi Jain, Timothy B. Stockwell, Suman Das, David E. Wentworth, Martin D. Smith, Sergei L. Kosakovsky Pond, Scott C. Weaver
Software Mentions: 5
Published: almost 9 years ago

10.1038/s41598-019-46718-3

Pan-Renal Cell Carcinoma classification and survival prediction from histopathology images using deep learning
Cited by: 124
Author(s): Sairam Tabibu, P. K. Vinod, C. V. Jawahar
Software Mentions: 5
Published: almost 7 years ago

10.7554/eLife.59162

Thermal acclimation of tropical coral reef fishes to global heat waves
Cited by: 19
Author(s): Jacob L. Johansen, Lauren E. Nadler, Adam Habary, Alyssa J Bowden, Jodie L. Rummer
Software Mentions: 5
Published: over 5 years ago

10.1371/journal.pone.0164178

Current and Future Distribution of the Tropical Tree Cedrela odorata L. in Mexico under Climate Change Scenarios Using MaxLike
Cited by: 17
Author(s): Israel Estrada‐Contreras, Miguel Equihua, Javier Laborde, Enrique Martínez‐Meyer, Lázaro Rafael Sánchez-Velásquez
Software Mentions: 5
Published: over 9 years ago

10.1007/s13238-020-00720-y

Integrative analysis of in vivo recording with single-cell RNA-seq data reveals molecular properties of light-sensitive neurons in mouse V1
Cited by: 9
Author(s): Jianwei Liu, Mengdi Wang, Le Sun, Na Pan, Changjiang Zhang, Junjing Zhang, Zhentao Zuo, Sheng He, Qian Wu, Xiaoqun Wang
Software Mentions: 5
Published: about 6 years ago

10.1186/s12864-020-07302-6

JOINT for large-scale single-cell RNA-sequencing analysis via soft-clustering and parallel computing
Cited by: 4
Author(s): Tao Cui, Tingting Wang
Software Mentions: 5
Published: over 5 years ago

10.7717/peerj.3657

<tt>phydms</tt>: software for phylogenetic analyses informed by deep mutational scanning
Cited by: 21
Author(s): Sarah K Hilton, Michael B. Doud, Jesse D Bloom
Software Mentions: 5
Published: almost 9 years ago

10.1038/srep31587

Hepatic and serum lipid signatures specific to nonalcoholic steatohepatitis in murine models
Cited by: 33
Author(s): Franck Chiappini, Christophe Desterke, Justine Bertrand‐Michel, Catherine Guettier, François Le Naour
Software Mentions: 5
Published: almost 10 years ago

10.1371/journal.pone.0239711

Reproducibility across single-cell RNA-seq protocols for spatial ordering analysis
Cited by: 5
Author(s): Morten Seirup, Li‐Fang Chu, Srikumar Sengupta, Ning Leng, Hadley Browder, Kevin Kapadia, Christina M. Shafer, Bret Duffin, Angela L. Elwell, Jennifer M. Bolin, Scott Swanson, Ron Stewart, Christina Kendziorski, James A. Thomson, Rhonda Bacher
Software Mentions: 5
Published: almost 6 years ago

10.1186/s13059-019-1840-y

Genetic regulation of gene expression and splicing during a 10-year period of human aging
Cited by: 38
Author(s): Brunilda Balliu, Matthew G. Durrant, Olivia de Goede, Nathan S. Abell, Li X, Boxiang Liu, Michael J. Gloudemans, Naomi L. Cook, Kevin S. Smith, David A. Knowles, Mauro Pala, Francesco Cucca, David Schlessinger, Siddhartha Jaiswal, Chiara Sabatti, Lars Lind, Erik Ingelsson, Stephen B. Montgomery
Software Mentions: 5
Published: over 6 years ago

10.1186/gb-2014-15-4-r56

Hypermethylation in the ZBTB20 gene is associated with major depressive disorder
Cited by: 84
Author(s): Matthew N. Davies, Lutz Krause, Jordana T. Bell, Fei Gao, Kirsten Ward, Honglong Wu, Hanlin Lu, Yuan Liu, Pei-Chien Tsai, David A. Collier, Therese M. Murphy, Emma Dempster, Jonathan Mill, Alexis Battle, Sara Mostafavi, Xiaowei Zhu, Anjali K. Henders, Enda M. Byrne, Naomi R. Wray, Nicholas G. Martin, Tim D. Spector, Jun Wang
Software Mentions: 5
Published: over 12 years ago

10.1093/bib/bbaa339

FR-Match: robust matching of cell type clusters from single cell RNA sequencing data using the Friedman–Rafsky non-parametric test
Cited by: 9
Author(s): Yun Zhang, Brian D. Aevermann, Trygve E. Bakken, Jeremy A. Miller, Rebecca D. Hodge, Ed Lein, Richard H. Scheuermann
Software Mentions: 5
Published: over 5 years ago

10.3389/fgene.2016.00080

Recursive Indirect-Paths Modularity (RIP-M) for Detecting Community Structure in RNA-Seq Co-expression Networks
Cited by: 12
Author(s): Bahareh Rahmani, Michael T. Zimmermann, Diane E. Grill, Richard B. Kennedy, Ann L. Oberg, Bill C. White, Gregory A. Poland, Brett A. McKinney
Software Mentions: 5
Published: about 10 years ago

10.1038/s41598-021-90797-0

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

10.3390/ijms21186488

Lipid Stores and Lipid Metabolism Associated Gene Expression in Porcine and Bovine Parthenogenetic Embryos Revealed by Fluorescent Staining and RNA-seq
Cited by: 16
Author(s): Arkadiusz Kajdasz, Ewelina Warzych, Natalia Derebecka, Zofia E. Madeja, D. Lechniak, Joanna Wesoły, Piotr Pawlak
Software Mentions: 5
Published: almost 6 years ago

10.1038/s41437-020-0295-y

Multiscale landscape genetics of American marten at their southern range periphery
Cited by: 10
Author(s): Cody M. Aylward, James D. Murdoch, C. William Kilpatrick
Software Mentions: 5
Published: over 6 years ago

10.3389/frobt.2018.00060

Inform: Efficient Information-Theoretic Analysis of Collective Behaviors
Cited by: 24
Author(s): Douglas Moore, Gabriele Valentini, Sara Imari Walker, Michael Levin
Software Mentions: 5
Published: about 8 years ago

10.1038/s42003-021-02201-2

Mammary cell gene expression atlas links epithelial cell remodeling events to breast carcinogenesis
Cited by: 28
Author(s): Kohei Saeki, Gregory Chang, Noriko Kanaya, Xiwei Wu, Jinhui Wang, Lauren Bernal, Desiree Ha, Susan L. Neuhausen, Shiuan Chen
Software Mentions: 5
Published: about 5 years ago

10.3389/fgene.2021.666771

scGPS: Determining Cell States and Global Fate Potential of Subpopulations
Cited by: 1
Author(s): Michael Thompson, Maika Matsumoto, Tianqi Ma, Anne Senabouth, Nathan J. Palpant, Joseph E. Powell, Quan Nguyen
Software Mentions: 5
Published: almost 5 years ago

10.3389/fgene.2014.00152

Bioinformatics for precision medicine in oncology: principles and application to the SHIVA clinical trial
Cited by: 73
Author(s): Nicolas Servant, Julien Roméjon, Pierre Gestraud, Philippe La Rosa, Georges Lucotte, Séverine Lair, Virginie Bernard, Bruno Zeitouni, Fanny Coffin, Gérôme Jules-Clément, Florent Yvon, Alban Lermine, Patrick Poullet, Stéphane Liva, Stuart Pook, Tatiana Popova, Camille Barette, François D. Prud’homme, Jean Gabriel Dick, Maud Kamal, Christophe Le Tourneau, Emmanuel Barillot, Philippe Hupé
Software Mentions: 5
Published: about 12 years ago

10.1111/cpr.12968

Systemic transcriptome comparison between early‐ And late‐onset pre‐eclampsia shows distinct pathology and novel biomarkers
Cited by: 15
Author(s): Fang Guo, Zhenan Bao, Hao Yang, Yixi Fu, Yaning Wang, Jianming Huang, Min Cheng, Xiaobo Li, Zhuo Shen, Li Li, Ping He, Andy Peng Xiang, Shuaiyu Wang, Hongbo Zhang
Software Mentions: 5
Published: over 5 years ago

10.3390/s120608145

Accuracy and Precision of Equine Gait Event Detection during Walking with Limb and Trunk Mounted Inertial Sensors
Cited by: 49
Author(s): E. G. J. Olsen, Pia Haubro Andersen, Thilo Pfau
Software Mentions: 5
Published: about 14 years ago

10.3389/fvets.2020.584436

Efficacy of a Lactobacillus-Based Teat Spray on Udder Health in Lactating Dairy Cows
Cited by: 9
Author(s): J. I. Alawneh, Ameh James, Nancy J. Phillips, Brandon Fraser, K. E. Jury, Martin Soust, T. W. J. Olchowy
Software Mentions: 5
Published: over 5 years ago

10.3389/fvets.2019.00123

Age-Related Serum Biochemical Reference Intervals Established for Unweaned Calves and Piglets in the Post-weaning Period
Cited by: 42
Author(s): Kuai Yu, Francesca Canalías, David Solà-Oriol, Laura Arroyo, Raquel Pato, Yolanda Saco, M. Terré, Anna Bassols
Software Mentions: 5
Published: about 7 years ago

10.18632/oncotarget.27614

miR-708-5p targets oncogenic prostaglandin E2 production to suppress a pro-tumorigenic phenotype in lung cancer cells
Cited by: 13
Author(s): Nicholas J. Monteleone, Carol S. Lutz
Software Mentions: 5
Published: about 6 years ago

10.1016/j.xpro.2021.100483

Integrative modeling identifies genetic ancestry-associated molecular correlates in human cancer
Cited by: 2
Author(s): A. Gordon Robertson, Christina Yau, Jian Carrot‐Zhang, Jeffrey S. Damrauer, Theo Knijnenburg, Nyasha Chambwe, Katherine A. Hoadley, Anab Kemal, Jean C. Zenklusen, Andrew D. Cherniack, Rameen Beroukhim, Wanding Zhou
Software Mentions: 5
Published: about 5 years ago

10.3389/fpubh.2021.619581

Disease Burden and Attributable Risk Factors of Ovarian Cancer From 1990 to 2017: Findings From the Global Burden of Disease Study 2017
Cited by: 18
Author(s): Zhangjian Zhou, Xuan Wang, Xueting Ren, Linghui Zhou, Nan Wang, Huafeng Kang
Software Mentions: 5
Published: almost 5 years ago

10.1002/1878-0261.12838

SIK2 represses AKT/GSK3β/β‐catenin signaling and suppresses gastric cancer by inhibiting autophagic degradation of protein phosphatases
Cited by: 17
Author(s): Xiaoman Dai, Yan‐hui Zhang, Xiaohong Lin, Xiaoxing Huang, Yi Zhang, Chaorong Xue, Wan-Nan Chen, Jian‐xin Ye, Xi Zhang Lin, Xu Lin
Software Mentions: 5
Published: over 5 years ago

10.3389/fonc.2019.01479

Integrative Transcriptomic Analysis Reveals a Multiphasic Epithelial–Mesenchymal Spectrum in Cancer and Non-tumorigenic Cells
Cited by: 24
Author(s): Nicholas Panchy, Cassandra Azeredo-Tseng, Michael Luo, Natalie Randall, Tian Hong
Software Mentions: 5
Published: over 6 years ago

10.3389/fpsyg.2016.01646

Predicting Lexical Priming Effects from Distributional Semantic Similarities: A Replication with Extension
Cited by: 6
Author(s): Fritz Günther, Carolin Dudschig, Barbara Kaup
Software Mentions: 5
Published: over 9 years ago

10.3389/fpsyg.2021.719596

‘I Get High With a Little Help From My Friends’ - How Raves Can Invoke Identity Fusion and Lasting Co-operation via Transformative Experiences
Cited by: 7
Author(s): Martha Newson, Ragini Khurana, Freya Cazorla, Valerie van Mulukom
Software Mentions: 5
Published: almost 5 years ago

10.1186/s12915-020-00769-5

Multiple links between 5-methylcytosine content of mRNA and translation
Cited by: 71
Author(s): Ulrike Schümann, He-Na Zhang, Tennille Sibbritt, Anyu Pan, Attila Horváth, Simon Gross, Susan J. Clark, Li Yang, Thomas Preiß
Software Mentions: 5
Published: about 6 years ago

10.3390/nu12092800

Whole Blueberry and Isolated Polyphenol-Rich Fractions Modulate Specific Gut Microbes in an In Vitro Colon Model and in a Pilot Study in Human Consumers
Cited by: 25
Author(s): Alexandra Ntemiri, Tarini Shankar Ghosh, Molly E. Gheller, Tam Tran, Jamie Blum, Paola Pellanda, Klára Vlčková, Marta C Neto, Amy B. Howell, Anna Thalacker‐Mercer, Paul W. O’Toole
Software Mentions: 5
Published: almost 6 years ago

10.1186/s13014-020-01699-w

Imaging biomarkers of contrast-enhanced computed tomography predict survival in oesophageal cancer after definitive concurrent chemoradiotherapy
Cited by: 4
Author(s): Chengbing Zeng, Tian‐Tian Zhai, Jianzhou Chen, Longjia Guo, Bao-Tian Huang, Hong Guo, Guozhi Lv, Tingting Zhuang, Weitong Liu, Ting Luo, Yanxuan Wu, Guopeng Peng, Derui Li, Chuangzhen Chen
Software Mentions: 5
Published: over 5 years ago

10.3389/fgene.2020.00680

Identification of a Six-Immune-Related Long Non-coding RNA Signature for Predicting Survival and Immune Infiltrating Status in Breast Cancer
Cited by: 24
Author(s): Zheng Li, Yaming Li, Xiaolong Wang
Software Mentions: 5
Published: about 6 years ago

10.1186/s13148-018-0588-7

Analysis of repeated leukocyte DNA methylation assessments reveals persistent epigenetic alterations after an incident myocardial infarction
Cited by: 18
Author(s): Cavin Ward‐Caviness, Golareh Agha, Brian H. Chen, Liliane Pfeiffer, Rory Wilson, Peter Wolf, Christian Gieger, Joel Schwartz, Pantel Vokonas, Lifang Hou, Allan C. Just, Stefania Bandinelli, Dena G. Hernandez, Andrew B. Singleton, Holger Prokisch, Thomas Meitinger, Gabi Kastenmüller, Luigi Ferrucci, Andrea A. Baccarelli, Mélanie Waldenberger, Annette Peters
Software Mentions: 5
Published: over 7 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

10.3390/ani11051229

A Preliminary Investigation of Social Network Analysis Applied to Dairy Cow Behavior in Automatic Milking System Environments
Cited by: 2
Author(s): Liliana Fadul-Pacheco, Michael Liou, Douglas J. Reinemann, Víctor E. Cabrera
Software Mentions: 5
Published: about 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

10.1186/s13601-016-0105-z

Cow’s milk allergy in Dutch children: an epigenetic pilot survey
Cited by: 36
Author(s): Nicole C. M. Petrus, Peter Henneman, Andrea Venema, Adri N. Mul, Femke van Sinderen, Martin A. Haagmans, Olaf R.F. Mook, Raoul C. M. Hennekam, A. B. Sprikkelman, Marcel M.A.M. Mannens
Software Mentions: 5
Published: about 10 years ago

10.1186/s12859-020-03769-y

C3: connect separate connected components to form a succinct disease module
Cited by: 6
Author(s): Bingbo Wang, Jie Hu, Yajun Wang, Chenxing Zhang, Yuanjun Zhou, Liang Yu, Guo Xia-zhen, Lin Gao, Yunru Chen
Software Mentions: 5
Published: almost 6 years ago

10.1016/j.isci.2020.101249

Frequency of MicroRNA Response Elements Identifies Pathologically Relevant Signaling Pathways in Triple-Negative Breast Cancer
Cited by: 5
Author(s): Asha Nair, Xiaojia Tang, Kevin J. Thompson, Peter T. Vedell, Krishna R. Kalari, Subbaya Subramanian
Software Mentions: 5
Published: about 6 years ago

10.12688/f1000research.55027.1

rmcorrShiny: A web and standalone application for repeated measures correlation
Cited by: 14
Author(s): Laura R. Marusich, Jonathan Z. Bakdash
Software Mentions: 5
Published: almost 5 years ago

10.3390/curroncol28030210

Transcriptomic Landscape of Lower Grade Glioma Based on Age-Related Non-Silent Somatic Mutations
Cited by: 2
Author(s): Young Joon Park, Jeongman Park, Ju Won Ahn, Jeong Min Sim, Su Jung Kang, Suwan Kim, So Jung Hwang, Songhee Han, Kyu Bo Sung, Jaejoon Lim
Software Mentions: 5
Published: about 5 years ago

10.15252/msb.20209698

<scp>CEN</scp> ‐tools: an integrative platform to identify the contexts of essential genes
Cited by: 9
Author(s): Sumana Sharma, Cansu Dinçer, Paula Weidemüller, Gavin J. Wright, Evangelia Petsalaki
Software Mentions: 5
Published: almost 6 years ago

10.1186/s40168-021-01110-0

Prevotella copri increases fat accumulation in pigs fed with formula diets
Cited by: 70
Author(s): Congying Chen, Shouguo Fang, Hong Wei, Maozhang He, Hao Fu, Xinwei Xiong, Yunyan Zhou, Jingyuan Wu, Jun Gao, Hui Yang, Lusheng Huang
Software Mentions: 5
Published: almost 5 years ago

10.1186/s12870-018-1467-2

WRKY transcription factors in legumes
Cited by: 51
Author(s): Hui Song, Weihong Sun, Guofeng Yang, Juan Sun
Software Mentions: 5
Published: over 7 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

10.3390/nu7125535

A Survey of Plant Iron Content—A Semi-Systematic Review
Cited by: 21
Author(s): Robert Ancuceanu, Mihaela Dinu, Marilena Viorica Hovaneț, Adriana Iuliana Anghel, Carmen Violeta Popescu, Simona Negreș
Software Mentions: 5
Published: over 10 years ago

10.1098/rsos.201795

Understanding spatial patterns in rape reporting delays
Cited by: 5
Author(s): Konstantin Klemmer, Daniel B. Neill, Stephen A. Jarvis
Software Mentions: 5
Published: over 5 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

10.1371/journal.pone.0247037

A new perspective and assessment measure for common dissociative experiences: ‘Felt Sense of Anomaly’
Cited by: 10
Author(s): Emma Černis, Esther T. Beierl, Andrew Molodynski, Anke Ehlers, Daniel Freeman
Software Mentions: 5
Published: over 5 years ago

10.1186/1471-2105-10-203

Integrated analysis of DNA copy number and gene expression microarray data using gene sets
Cited by: 57
Author(s): Renée X. de Menezes, Marten Boetzer, Melle Sieswerda, Gert‐Jan B. van Ommen, Judith M. Boer
Software Mentions: 5
Published: about 17 years ago

10.1038/s41598-020-66558-w

Associations among neurophysiology measures in irritable bowel syndrome (IBS) and their relevance for IBS symptoms
Cited by: 11
Author(s): Irina Midenfjord, Annikka Polster, Henrik Sjövall, Peter Friberg, Hans Törnblom, Magnus Simrén
Software Mentions: 5
Published: about 6 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

10.1038/s41598-021-82136-0

A high-throughput RNA-Seq approach to elucidate the transcriptional response of Piriformospora indica to high salt stress
Cited by: 13
Author(s): Nivedita, Abdul Rawoof, Nirala Ramchiary, M. Z. Abdin
Software Mentions: 5
Published: over 5 years ago

10.7554/eLife.35471

Genetics of trans-regulatory variation in gene expression
Cited by: 133
Author(s): Frank W. Albert, Joshua S. Bloom, Jake J. Siegel, Laura Day, Leonid Kruglyak
Software Mentions: 5
Published: almost 8 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

10.1186/s12967-020-02323-x

Development of an autophagy-related gene expression signature for prognosis prediction in prostate cancer patients
Cited by: 63
Author(s): Daixing Hu, Li Jiang, Shengjun Luo, Xin Zhao, Hao Hu, Guozhi Zhao, Wei Tang
Software Mentions: 5
Published: over 6 years ago

10.1371/journal.pone.0238947

Explaining the travelling behaviour of migrants using Facebook audience estimates
Cited by: 0
Author(s): Spyridon Spyratos, Michele Vespe, Franca Natale, Stefano Maria Iacus, Carlos Santamaría
Software Mentions: 5
Published: almost 6 years ago

10.7717/peerj.11012

Changes in diversity and community assembly of jumping spiders (Araneae: Salticidae) after rainforest conversion to rubber and oil palm plantations
Cited by: 13
Author(s): André Junggebauer, Tamara R. Hartke, Daniel Ramos, Ina Schaefer, Damayanti Buchori, Purnama Hidayat, Stefan Scheu, Jochen Drescher
Software Mentions: 5
Published: over 5 years ago

10.1007/s00253-016-7588-3

Ploidy influences the functional attributes of de novo lager yeast hybrids
Cited by: 65
Author(s): Kristoffer Krogerus, Mikko Arvas, Matteo De Chiara, Frederico Magalhães, Laura Mattinen, Merja Oja, Virve Vidgren, Jia-Xing Yue, Gianni Liti, Brian Gibson
Software Mentions: 5
Published: about 10 years ago

10.3390/ijms20246207

Profiles of Long Non-Coding RNAs and mRNA Expression in Human Macrophages Regulated by Interleukin-27
Cited by: 11
Author(s): Xiaojun Hu, Suranjana Goswami, Ju Qiu, Qian Chen, Sylvain Laverdure, Brad T. Sherman, Tomozumi Imamichi
Software Mentions: 5
Published: over 6 years ago

10.1038/s42003-020-01382-6

Adaptation by copy number variation increases insecticide resistance in the fall armyworm
Cited by: 40
Author(s): Sylvie Gimenez, Heba Abdelgaffar, Gaëlle Le Goff, Frédérique Hilliou, Carlos A. Blanco, Sabine Hänniger, Anthony Bretaudeau, Fabrice Legeai, Nicolas Nègre, Juan Luís Jurat-Fuentes, Emmanuelle d’Alençon, Kiwoong Nam
Software Mentions: 5
Published: over 5 years ago