10.1042/BSR20203676

Identification of pivotal genes associated with the prognosis of gastric carcinoma through integrated analysis
Cited by: 7
Author(s): Zhenchao Ma, Jingyu Xu, Lixin Ru, Weihua Zhu
Software Mentions: 8
Published: about 5 years ago

10.3390/s20236723

Wide Field Spectral Imaging with Shifted Excitation Raman Difference Spectroscopy Using the Nod and Shuffle Technique
Cited by: 7
Author(s): Florian Korinth, Elmar Schmälzlin, Clara Stiebing, T. Urrutia, Genoveva Micheva, C. Sandín, André Müller, Bernd Sumpf, Christoph Krafft, G. Tränkle, Martin Roth, Jürgen Popp
Software Mentions: 8
Published: over 5 years ago

10.3399/bjgp20X713981

Association of prior lymphopenia with mortality in pneumonia: a cohort study in UK primary care
Cited by: 6
Author(s): Fergus Hamilton, David Arnold, Rupert Payne
Software Mentions: 8
Published: over 5 years ago

10.1371/journal.pone.0249691

Profiling DNA break sites and transcriptional changes in response to contextual fear learning
Cited by: 25
Author(s): Ryan Stott, Oleg Kritsky, Li‐Huei Tsai
Software Mentions: 8
Published: almost 5 years ago

10.1002/ece3.7579

Molecular diet analysis of neotropical bats based on fecal DNA metabarcoding
Cited by: 36
Author(s): Melissa R. Ingala, Nancy B. Simmons, Claudia Wultsch, Konstantinos Krampis, Kaiya L. Provost, Susan L. Perkins
Software Mentions: 8
Published: about 5 years ago

10.1186/s12864-015-2319-1

Global expression differences and tissue specific expression differences in rice evolution result in two contrasting types of differentially expressed genes
Cited by: 3
Author(s): Youko Horiuchi, Yoshiaki Harushima, Hironori Fujisawa, Takako Mochizuki, Masahiro Fujita, Hajime Ohyanagi, Nori Kurata
Software Mentions: 8
Published: over 10 years ago

10.1155/2020/5843874

Identification of Biomarkers to Construct a Competing Endogenous RNA Network and Establishment of a Genomic-Clinicopathologic Nomogram to Predict Survival for Children with Rhabdoid Tumors of the Kidney
Cited by: 1
Author(s): Xiaoqing Wang, Xiangyu Wu, Tianyou Li, Meng Cui, Lichao Zhu, Gang Wang, Feng Guo
Software Mentions: 8
Published: almost 6 years ago

10.1371/journal.pone.0248889

Lung gene expression and single cell analyses reveal two subsets of idiopathic pulmonary fibrosis (IPF) patients associated with different pathogenic mechanisms
Cited by: 10
Author(s): Jozsef Karman, Jing Wang, Corneliu Bodea, Sherry Cao, Marc C. Levesque
Software Mentions: 8
Published: over 5 years ago

10.1186/s12864-016-2848-2

ABSSeq: a new RNA-Seq analysis method based on modelling absolute expression differences
Cited by: 21
Author(s): Wentao Yang, Philip Rosenstiel, Hinrich Schulenburg
Software Mentions: 8
Published: almost 10 years ago

10.1186/s40168-019-0630-9

Environmental filtering drives distinct continental atlases of soil archaea between dryland and wetland agricultural ecosystems
Cited by: 103
Author(s): Shuo Jiao, Ye Xu, Jie Zhang, Yahai Lu
Software Mentions: 8
Published: over 7 years ago

10.1371/journal.pbio.3001172

Perception of biological motion by jumping spiders
Cited by: 16
Author(s): Massimo De Agrò, Daniela C. Rößler, Kris Kim, Paul S. Shamble
Software Mentions: 8
Published: almost 5 years ago

10.3389/fpsyg.2021.703892

“It All Makes Us Feel Together”: Young People's Experiences of Virtual Group Music-Making During the COVID-19 Pandemic
Cited by: 10
Author(s): Maruša Levstek, Rubie Mai Barnby, Katherine Pocock, Robin Banerjee
Software Mentions: 8
Published: almost 5 years ago

10.1098/rsta.2019.0366

Dynamics of organic matter and bacterial activity in the Fram Strait during summer and autumn
Cited by: 7
Author(s): Anabel von Jackowski, Julia Große, Eva‐Maria Nöthig, Anja Engel
Software Mentions: 8
Published: almost 6 years ago

10.1098/rstb.2018.0335

Mosquito and primate ecology predict human risk of yellow fever virus spillover in Brazil
Cited by: 41
Author(s): Marissa L. Childs, Nicole Nova, Justine Colvin, Erin A. Mordecai
Software Mentions: 8
Published: almost 7 years ago

10.3389/fvets.2018.00071

Effective Network Size Predicted From Simulations of Pathogen Outbreaks Through Social Networks Provides a Novel Measure of Structure-Standardized Group Size
Cited by: 12
Author(s): Collin M. McCabe, Charles L. Nunn
Software Mentions: 8
Published: about 8 years ago

10.1038/s41598-020-75161-y

Strap muscle invasion in differentiated thyroid cancer does not impact disease-specific survival: a population-based study
Cited by: 4
Author(s): Ja Kyung Yoon, Jandee Lee, Min Jung Kim, Jung Hyun Yoon, Vivian Youngjean Park, Kyunghwa Han, Jin Young Kwak
Software Mentions: 8
Published: over 5 years ago

10.1371/journal.pone.0000737

ADaCGH: A Parallelized Web-Based Application and R Package for the Analysis of aCGH Data
Cited by: 26
Author(s): Ramón Díaz‐Uriarte, Oscar M. Rueda
Software Mentions: 8
Published: almost 19 years ago

10.3390/insects10050124

Behavioural Phenotypic Plasticity of Submerged Oviposition in Damselflies (Insecta: Odonata)
Cited by: 3
Author(s): Jana Helebrandová, Petr Pyszko, Aleš Dolný
Software Mentions: 8
Published: about 7 years ago

10.1186/s13059-020-02075-3

Single-cell ATAC-seq signal extraction and enhancement with SCATE
Cited by: 29
Author(s): Zhicheng Ji, Weiqiang Zhou, Wenpin Hou, Hongkai Ji
Software Mentions: 8
Published: almost 6 years ago

10.3390/toxins9080242

Enter the Dragon: The Dynamic and Multifunctional Evolution of Anguimorpha Lizard Venoms
Cited by: 36
Author(s): Ivan Koludarov, Timothy N. W. Jackson, Bianca op den Brouw, James Dobson, Daniel Dashevsky, Kevin Arbuckle, Christofer J. Clemente, Edward J. Stockdale, Chip Cochran, Jordan Debono, Carson Stephens, Nadya Panagides, Bin Li, Mary-Louise Roy Manchadi, Aude Violette, Rudy Fourmy, Iwan Hendrikx, Amanda Nouwens, Judith A. Clements, Paolo Martelli, Hang Fai Kwok
Software Mentions: 8
Published: almost 9 years ago

10.3389/fpls.2020.00820

Biological Nitrification Inhibition (BNI): Phenotyping of a Core Germplasm Collection of the Tropical Forage Grass Megathyrsus maximus Under Greenhouse Conditions
Cited by: 28
Author(s): Daniel Villegas, Ashly Arévalo, Jonathan Nùñez, Johanna Mazabel, G. V. Subbarao, Idupulapati M. Rao, Jose J De Vega, Jacobo Arango
Software Mentions: 8
Published: about 6 years ago

10.3389/fnhum.2019.00066

Finger Temperature: A Psychophysiological Assessment of the Attentional State
Cited by: 1
Author(s): Rodrigo C. Vergara, Cristóbal Moënne‐Loccoz, Camila Ávalos, Juan Ignacio Egaña, Pedro Maldonado
Software Mentions: 8
Published: over 7 years ago

10.3389/fpsyg.2021.631564

Testing the METUX Model in Higher Education: Interface and Task Need–Satisfaction Predict Engagement, Learning, and Well-Being
Cited by: 8
Author(s): Lucas M. Jeno, Åge Diseth, John‐Arvid Grytnes
Software Mentions: 8
Published: over 5 years ago

10.1371/journal.pcbi.1006378

clusterExperiment and RSEC: A Bioconductor package and framework for clustering of single-cell and other large gene expression datasets
Cited by: 45
Author(s): Davide Risso, Liam Purvis, Russell B. Fletcher, Diya Das, John Ngai, Sandrine Dudoit, Elizabeth Purdom
Software Mentions: 8
Published: almost 8 years ago

10.1002/ctm2.422

Single‐cell analyses reveal suppressive tumor microenvironment of human colorectal cancer
Cited by: 37
Author(s): Mei Yan, Weiwei Xiao, Hao Hu, Guan-Ming Lu, Lingdan Chen, Zhun Sun, Mengdie Lü, Wenhui Ma, Ting Jiang, Yuanhong Gao, LiRen Li, Gong Chen, Zifeng Wang, Hanjie Li, Duojiao Wu, Ping‐Hong Zhou, Qibin Leng, Guangshuai Jia
Software Mentions: 8
Published: about 5 years ago

10.7150/jca.49175

Biological functions and prognostic value of RNA Binding Proteins in clear cell Renal Cell Carcinoma
Cited by: 6
Author(s): Zhenpeng Zhu, Anbang He, Lanruo Lin, Chunru Xu, Tianyu Cai, Lin Jian
Software Mentions: 8
Published: over 6 years ago

10.7554/eLife.56980

m6A RNA methylation impacts fate choices during skin morphogenesis
Cited by: 18
Author(s): Linghe Xi, Thomas Carroll, Irina Matos, Ji‐Dung Luo, Lisa Polak, H. Amalia Pasolli, Samie R. Jaffrey, Elaine Fuchs
Software Mentions: 8
Published: almost 6 years ago

10.1186/s12859-016-1235-y

BTR: training asynchronous Boolean models using single-cell expression data
Cited by: 62
Author(s): Chee Lim, Huange Wang, Steven Woodhouse, Nir Piterman, Lorenz Wernisch, Jasmin Fisher, Berthold Göttgens
Software Mentions: 8
Published: almost 10 years ago

10.3389/fonc.2021.616133

Analysis of Autophagy-Related Signatures Identified Two Distinct Subtypes for Evaluating the Tumor Immune Microenvironment and Predicting Prognosis in Ovarian Cancer
Cited by: 11
Author(s): Xingyu Chen, Hua Lan, Dong He, Zhanwang Wang, Runshi Xu, Jing Yuan, Mengqing Xiao, Yao Zhang, Lian Gong, Songshu Xiao, Ke Cao
Software Mentions: 8
Published: about 5 years ago

10.1172/jci.insight.138751

In utero human intestine harbors unique metabolome, including bacterial metabolites
Cited by: 27
Author(s): Yujia Li, Jessica Toothaker, Shira Ben-Simon, Lital Ozeri, Ron Schweitzer, Blake McCourt, Collin C. McCourt, Lael Werner, Scott B. Snapper, Dror S. Shouval, Soliman Khatib, Omry Koren, Sameer Agnihorti, George C. Tseng, Liza Konnikova
Software Mentions: 8
Published: over 5 years ago

10.1038/s41598-021-98889-7

Productive visualization of high-throughput sequencing data using the SeqCode open portable platform
Cited by: 7
Author(s): Enrique Blanco, Mar González-Ramírez, Luciano Di Croce
Software Mentions: 8
Published: over 4 years ago

10.3390/genes11040435

Identification of Potential Biomarkers for Anti-PD-1 Therapy in Melanoma by Weighted Correlation Network Analysis
Cited by: 14
Author(s): Xuanyi Wang, Zixuan Chai, Yinghong Li, Fei Long, Youjin Hao, Guizhi Pan, Mingwei Liu, Bo Li
Software Mentions: 8
Published: about 6 years ago

10.1371/journal.pone.0251032

Unsupervised tensor decomposition-based method to extract candidate transcription factors as histone modification bookmarks in post-mitotic transcriptional reactivation
Cited by: 2
Author(s): Y-h. Taguchi, Turki Turki
Software Mentions: 8
Published: about 5 years ago

10.1098/rspb.2020.1158

Parasite infection disrupts escape behaviours in fish shoals
Cited by: 3
Author(s): Nicolle Demandt, Marit Praetz, Ralf H. J. M. Kurvers, Jens Krause, Joachim Kurtz, Jörn P. Scharsack
Software Mentions: 8
Published: over 5 years ago

10.1186/s13643-019-0942-7

Machine learning algorithms for systematic review: reducing workload in a preclinical review of animal studies and reducing human screening error
Cited by: 86
Author(s): Alexandra Bannach‐Brown, Piotr Przybyła, James Thomas, Andrew S.C. Rice, Sophia Ananiadou, Jing Liao, Malcolm Macleod
Software Mentions: 8
Published: over 7 years ago

10.1186/s12916-020-01867-5

Understanding personalized dynamics to inform precision medicine: a dynamic time warp analysis of 255 depressed inpatients
Cited by: 17
Author(s): Kaat Hebbrecht, Mirella Stuivenga, Tom K. Birkenhäger, Manuel Morrens, Eiko I. Fried, Bernard Sabbe, Erik J. Giltay
Software Mentions: 8
Published: over 5 years ago

10.3390/jcm10010111

Evaluating the Effect of Topical Atropine Use for Myopia Control on Intraocular Pressure by Using Machine Learning
Cited by: 19
Author(s): Tzu-En Wu, Hsin‐An Chen, Mao-Jhen Jhou, Yen-Ning Chen, Ting-Jen Chang, Chi-Jie Lu
Software Mentions: 8
Published: over 5 years ago

10.3389/fcell.2021.712230

A Novel Ferroptosis-Related Prognostic Signature Reveals Macrophage Infiltration and EMT Status in Bladder Cancer
Cited by: 19
Author(s): Yi‐Lin Yan, Jinming Cai, Zhengnan Huang, Xiangqian Cao, Pengyu Tang, Zeyi Wang, Fang Zhang, Shujie Xia, Bing Shen
Software Mentions: 8
Published: almost 5 years ago

10.1093/bib/bbaa290

NetCoMi: network construction and comparison for microbiome data in R
Cited by: 165
Author(s): Stefanie Peschel, Christian L. Müller, Erika von Mutius, Anne‐Laure Boulesteix, Martin Depner
Software Mentions: 8
Published: over 5 years ago

10.1111/eva.13120

Comparative transcriptomics of ice‐crawlers demonstrates cold specialization constrains niche evolution in a relict lineage
Cited by: 4
Author(s): Sean D. Schoville, Sabrina Simon, Ming Bai, Zachary T. Beethem, R. Yu. Dudko, Monika J. B. Eberhard, Paul B. Frandsen, Simon Küpper, Ryuichiro Machida, Max Verheij, Peter Willadsen, Xin Zhou, Benjamin Wipfler‍
Software Mentions: 8
Published: almost 6 years ago

10.1107/S2059798317016035

<i>CCP</i>4<i>i</i>2: the new graphical user interface to the<i>CCP</i>4 program suite
Cited by: 353
Author(s): Liz Potterton, Jon Agirre, Charles Ballard, Kevin Cowtan, E.J. Dodson, Phil Evans, Huw T. Jenkins, Ronan Keegan, Eugene Krissinel, Kyle Stevenson, А. А. Лебедев, Stuart McNicholas, Robert A. Nicholls, M.E.M. Noble, Navraj S. Pannu, Christian Roth, George M. Sheldrick, Pavol Skubák, J.P. Turkenburg, Ville Uski, Frank von Delft, David Waterman, K.S. Wilson, Martyn Winn, Marcin Wojdyr
Software Mentions: 8
Published: over 8 years ago

10.1038/s41598-019-50642-x

Transcriptome Sequencing of Peripheral Blood Mononuclear Cells from Elite Controller-Long Term Non Progressors
Cited by: 11
Author(s): Francisco Díez-Fuertes, Humberto Erick De La Torre Tarazona, Esther Calonge, María Pernas, María del Mar Alonso-Socas, Laura Capa, Javier García-Pérez, Anavaj Sakuntabhai, José Alcamı́
Software Mentions: 8
Published: over 6 years ago

10.1371/journal.pbio.1000343

Binding Site Turnover Produces Pervasive Quantitative Changes in Transcription Factor Binding between Closely Related Drosophila Species
Cited by: 190
Author(s): Robert K. Bradley, Xiaoyong Li, Cole Trapnell, Stuart M. Davidson, Lior Pachter, Hou Cheng Chu, Leath A. Tonkin, Mark D. Biggin, Michael B. Eisen
Software Mentions: 8
Published: over 16 years ago

10.1371/journal.pone.0217804

Longitudinal microbiome profiling reveals impermanence of probiotic bacteria in domestic pigeons
Cited by: 12
Author(s): Kirsten Grond, Julie Perreau, Wesley T. Loo, A. James Spring, Colleen M. Cavanaugh, Sarah M. Hird
Software Mentions: 8
Published: about 7 years ago

10.1186/s12957-018-1519-y

Identification of hub genes with diagnostic values in pancreatic cancer by bioinformatics analyses and supervised learning methods
Cited by: 23
Author(s): Chunyang Li, Xiaoxi Zeng, Haopeng Yu, Yuanxia Gu, Wei Zhang
Software Mentions: 8
Published: over 7 years ago

10.1111/jcmm.15601

Novel gene signatures for prognosis prediction in ovarian cancer
Cited by: 25
Author(s): Mingyang Bao, Lihua Zhang, Yue‐Qing Hu
Software Mentions: 8
Published: almost 6 years ago

10.7717/peerj.10682

Identification of the hub genes in gastric cancer through weighted gene co-expression network analysis
Cited by: 7
Author(s): Chunyang Li, Haopeng Yu, Yajing Sun, Xiaoxi Zeng, Wei Zhang
Software Mentions: 8
Published: over 5 years ago

10.7717/peerj.10696

Rapid relative increase of crustose coralline algae following herbivore exclusion in a reef of El Salvador
Cited by: 1
Author(s): Xochitl E. Elías Ilosvay, Johanna Segovia, Sebastian C. A. Ferse, Walter Ernesto Elias, Christian Wild
Software Mentions: 8
Published: over 5 years ago

10.3390/jcm9082530

Distinctive Tissue and Serum MicroRNA Profile of IgG4-Related Ophthalmic Disease and MALT Lymphoma
Cited by: 5
Author(s): Naoya Nezu, Yoshihiko Usui, Masaki Asakage, Hiroyuki Shimizu, Kinya Tsubota, Akitomo Narimatsu, Kazuhiko Umazume, Naoyuki Yamakawa, Shinya Ohno, Masakatsu Takanashi, Masahiko Kuroda, Hiroshi Gotô
Software Mentions: 8
Published: almost 6 years ago

10.1186/s12859-017-1998-9

Thresher: determining the number of clusters while removing outliers
Cited by: 36
Author(s): Min Wang, Zachary B. Abrams, Steven M. Kornblau, Kevin R. Coombes
Software Mentions: 8
Published: over 8 years ago

10.1186/s13059-017-1188-0

CIDR: Ultrafast and accurate clustering through imputation for single-cell RNA-seq data
Cited by: 391
Author(s): Peijie Lin, Michael Troup, Joshua W. K. Ho
Software Mentions: 8
Published: about 9 years ago

10.1111/eva.12626

Capturing genetic variation in crop wild relatives: An evolutionary approach
Cited by: 20
Author(s): Paul A. Egan, Anne Muola, Johan A. Stenberg
Software Mentions: 8
Published: about 8 years ago

10.1371/journal.pone.0234498

Landscape composition and local floral resources influence foraging behavior but not the size of Bombus impatiens Cresson (Hymenoptera: Apidae) workers
Cited by: 9
Author(s): Amélie Gervais, Ève Courtois, Valérie Fournier, Marc Bélisle
Software Mentions: 8
Published: about 6 years ago

10.1186/s12864-021-07659-2

Inferring and analyzing gene regulatory networks from multi-factorial expression data: a complete and interactive suite
Cited by: 15
Author(s): Océane Cassan, Sophie Lèbre, Antoine Martin
Software Mentions: 8
Published: about 5 years ago

10.7717/peerj.7816

CELSR3 mRNA expression is increased in hepatocellular carcinoma and indicates poor prognosis
Cited by: 11
Author(s): Xuefeng Gu, Hongbo Li, Ling Sha, Man Yuan, Chao Shi, Wei Zhao
Software Mentions: 8
Published: over 6 years ago

10.1371/journal.pgen.1009094

Transposon mutagenesis identifies cooperating genetic drivers during keratinocyte transformation and cutaneous squamous cell carcinoma progression
Cited by: 2
Author(s): Aziz Aiderus, Justin Y. Newberg, Liliana Guzmán-Rojas, Ana M. Contreras-Sandoval, Amanda L. Meshey, Devin J. Jones, Felipe Amaya-Manzanares, Roberto Rangel, Jerrold M. Ward, Song Choon Lee, Kenneth Ban, Keith Rogers, Susan Rogers, Luxmanan Selvanesan, Leslie A. McNoe, Neal G. Copeland, Nancy A. Jenkins, Kenneth Y. Tsai, Michael A. Black, Karen Mann, Michael B. Mann
Software Mentions: 8
Published: almost 5 years ago

10.1186/s12964-019-0397-4

Subtyping of microsatellite instability-high colorectal cancer
Cited by: 28
Author(s): Wangxiong Hu, Yanmei Yang, Ling Qi, Jiani Chen, Weiting Ge, Shu Zheng
Software Mentions: 8
Published: almost 7 years ago

10.1093/gigascience/giab062

Genetic demultiplexing of pooled single-cell RNA-sequencing samples in cancer facilitates effective experimental design
Cited by: 16
Author(s): Lukas M. Weber, Ariel A. Hippen, Peter Hickey, Kristofer C. Berrett, Jason Gertz, Jennifer A. Doherty, Casey S. Greene, Stephanie C. Hicks
Software Mentions: 8
Published: almost 5 years ago

10.1038/s41598-018-35448-7

Biodiversity in remnants of natural mountain forests under conservation-oriented management
Cited by: 8
Author(s): Jakub Horák, Jan Materna, Josef P. Halda, Strahinja Mladenović, Petr Bogusch, Pavel Pech
Software Mentions: 8
Published: over 7 years ago

10.1038/s41598-019-39900-0

Distinct online and offline effects of alpha and beta transcranial alternating current stimulation (tACS) on continuous bimanual performance and task-set switching
Cited by: 30
Author(s): Kirstin Heise, Thiago Santos Monteiro, Inge Leunissen, Dante Mantini, Stephan P. Swinnen
Software Mentions: 8
Published: over 7 years ago

10.1038/s41598-020-57622-6

Mainland and island populations of Mussaenda kwangtungensis differ in their phyllosphere fungal community composition and network structure
Cited by: 16
Author(s): Xin Qian, Shengchun Li, Bian Wu, Yong-Long Wang, Niu‐Niu Ji, Hui Yao, Hongyue Cai, Miaomiao Shi, Dianxiang Zhang
Software Mentions: 8
Published: over 6 years ago

10.1186/s12711-019-0454-x

Sibship assignment to the founders of a Bangladeshi Catla catla breeding population
Cited by: 8
Author(s): Matthew Hamilton, Wagdy Mekkawy, John A. H. Benzie
Software Mentions: 8
Published: about 7 years ago

10.3389/fcimb.2020.00194

Delineation and Modulation of the Natural Killer Cell Transcriptome in Rhesus Macaques During ZIKV and SIV Infections
Cited by: 2
Author(s): Malika Aïd, Daniel R. Ram, Steven E. Bosinger, Dan H. Barouch, R. Keith Reeves
Software Mentions: 8
Published: about 6 years ago

10.1080/15592294.2019.1603963

Identification of DNA methylation patterns predisposing for an efficient response to BCG vaccination in healthy BCG-naïve subjects
Cited by: 32
Author(s): Jyotirmoy Das, Deepti Verma, Mika Gustafsson, Maria Lerm
Software Mentions: 8
Published: about 7 years ago

10.1002/ece3.4894

Contrasting patterns of divergence at the regulatory and sequence level in European <i>Daphnia galeata</i> natural populations
Cited by: 8
Author(s): Suda Parimala Ravindran, Maike Herrmann, Mathilde Cordellier
Software Mentions: 8
Published: over 7 years ago

10.1371/journal.pgen.1009386

Genomic rearrangements generate hypervariable mini-chromosomes in host-specific isolates of the blast fungus
Cited by: 39
Author(s): Thorsten Langner, Adeline Harant, Luis B. Gómez-Luciano, Ram-Krishna Shrestha, Angus Malmgren, Sergio M. Latorre, Hernán A. Burbano, Joe Win, Sophien Kamoun
Software Mentions: 8
Published: over 5 years ago

10.3389/fgene.2021.665843

RFCell: A Gene Selection Approach for scRNA-seq Clustering Based on Permutation and Random Forest
Cited by: 3
Author(s): Yuan Zhao, Zhao-Yu Fang, Cui-Xiang Lin, Chao Deng, Yunpei Xu, Hongdong Li
Software Mentions: 8
Published: almost 5 years ago

10.7717/peerj.8522

Detection and characterization of microRNA expression profiling and its target genes in response to canine parvovirus in Crandell Reese Feline Kidney cells
Cited by: 8
Author(s): Phongsakorn Chuammitri, Soulasack Vannamahaxay, Benjaporn Sornpet, Kidsadagon Pringproa, Prapas Patchanee
Software Mentions: 8
Published: over 6 years ago

10.3390/jcm9092955

Optimized Identification of Advanced Chronic Kidney Disease and Absence of Kidney Disease by Combining Different Electronic Health Data Resources and by Applying Machine Learning Strategies
Cited by: 8
Author(s): Christoph Weber, Lena Röschke, Luise Modersohn, Christina Lohr, Tobias Kolditz, Udo Hahn, Danny Ammon, Boris Betz, Michael Kiehntopf
Software Mentions: 8
Published: almost 6 years ago

10.1038/s41598-020-70596-9

Identification of potential diagnostic gene biomarkers in patients with osteoarthritis
Cited by: 13
Author(s): Xinling Wang, Yu Yang, Yong Huang, Zhu Ming-shuang, Rigao Chen, Zhanghui Liao, Shipeng Yang
Software Mentions: 8
Published: almost 6 years ago

10.1371/journal.pone.0069624

Transcriptomic Analysis of Insulin-Sensitive Tissues from Anti-Diabetic Drug Treated ZDF Rats, a T2DM Animal Model
Cited by: 4
Author(s): Yo Na Kim, Sangok Kim, Il Yong Kim, Jae Hoon Shin, Sooyoung Cho, Sun Shin Yi, Wankyu Kim, Kyung Sub Kim, Sanghyuk Lee, Je Kyung Seong
Software Mentions: 8
Published: almost 13 years ago

10.1111/eva.12761

Pervasive admixture between eucalypt species has consequences for conservation and assisted migration
Cited by: 15
Author(s): Brenton von Takach, Cameron Jack, Justin O. Borevitz, David B. Lindenmayer, Sam C. Banks
Software Mentions: 8
Published: over 7 years ago

10.3389/fcvm.2018.00167

Single Cell Gene Expression to Understand the Dynamic Architecture of the Heart
Cited by: 15
Author(s): Andrea Massaia, Patrícia Chaves, Sara Samari, Ricardo J. Miragaia, Kerstin B. Meyer, Sarah A. Teichmann, Michela Noseda
Software Mentions: 8
Published: over 7 years ago

10.1186/s12889-021-11772-y

Firearm laws and the network of firearm movement among US states
Cited by: 4
Author(s): Sae Takada, Kristen R. Choi, Shaw Natsui, Altaf Saadi, Liza Buchbinder, Molly C. Easterlin, Frederick J. Zimmerman
Software Mentions: 8
Published: over 4 years ago

10.7554/eLife.64000

TRex, a fast multi-animal tracking system with markerless identification, and 2D estimation of posture and visual fields
Cited by: 108
Author(s): Tristan Walter, Iain D. Couzin
Software Mentions: 8
Published: over 5 years ago

10.1111/cobi.13602

Evaluating surrogates of genetic diversity for conservation planning
Cited by: 11
Author(s): Jeffrey O. Hanson, Ana Veríssimo, Guillermo Velo‐Antón, Adam Marques, Miguel Camacho‐Sanchez, Íñigo Martínez‐Solano, Helena Gonçalves, Fernando Sequeira, Hugh P. Possingham, Sílvia B. Carvalho
Software Mentions: 8
Published: over 5 years ago

10.1002/ece3.5792

Population genetics of<i>Anopheles koliensis</i>through Papua New Guinea: New cryptic species and landscape topography effects on genetic connectivity
Cited by: 2
Author(s): Luke Ambrose, Jeffrey O. Hanson, Cynthia Riginos, Weixin Xu, Sarah L. Fordyce, Robert D. Cooper, Nigel W. Beebe
Software Mentions: 8
Published: over 6 years ago

10.1371/journal.pone.0210571

Deterministic column subset selection for single-cell RNA-Seq
Cited by: 0
Author(s): Shannon R. McCurdy, Vasilis Ntranos, Lior Pachter
Software Mentions: 8
Published: over 7 years ago

10.1038/s41598-020-74644-2

The transboundary nature of the world’s exploited marine species
Cited by: 27
Author(s): Juliano Palacios‐Abrantes, Gabriel Reygondeau, Colette C.C. Wabnitz, William W. L. Cheung
Software Mentions: 8
Published: over 5 years ago

10.1002/ece3.4535

Determining social and population structures requires multiple approaches: A case study of the desert ant<i>Cataglyphis israelensis</i>
Cited by: 3
Author(s): Tali Reiner Brodetzki, Abraham Hefetz
Software Mentions: 8
Published: over 7 years ago

10.1186/s12864-019-5747-5

scNPF: an integrative framework assisted by network propagation and network fusion for preprocessing of single-cell RNA-seq data
Cited by: 10
Author(s): Michael Fraser, Guoli Ji, Pengchao Ye, Yuqi Long, Xuesong Xiao, Shuchao Li, Yangfeng Su, Xiaohui Wu
Software Mentions: 8
Published: about 7 years ago

10.18632/aging.103532

Prognostic evaluation of esophageal cancer patients with stages I-III
Cited by: 21
Author(s): Mengjun Qiu, Shuai Yang, Mengmeng Wang, Yanan Li, Xin Jiang, Zaozao Huang, Zhifan Xiong
Software Mentions: 8
Published: almost 6 years ago

10.3390/ijerph18105061

Short-Time Recurrences of Plasmodium vivax Malaria as a Public Health Proxy for Chloroquine-Resistance Surveillance: A Spatio-Temporal Study in the Brazilian Amazon
Cited by: 7
Author(s): Antonio A S Balieiro, André Machado Siqueira, Gisely Cardoso de Melo, Vanderson de Souza Sampaio, Ivo Müeller, Marcus Vinícius Guimarães Lacerda, Daniel Antunes Maciel Villela
Software Mentions: 8
Published: about 5 years ago

10.1016/j.patter.2021.100270

ACSNI: An unsupervised machine-learning tool for prediction of tissue-specific pathway components using gene expression profiles
Cited by: 1
Author(s): Chinedu Anthony Anene, Faraz Khan, Findlay Bewicke-Copley, Eleni Maniati, Jun Wang
Software Mentions: 8
Published: about 5 years ago

10.1371/journal.pcbi.1008205

Tempora: Cell trajectory inference using time-series single-cell RNA sequencing data
Cited by: 43
Author(s): Tony Tran, Gary D. Bader
Software Mentions: 8
Published: almost 6 years ago

10.1371/journal.pone.0231744

Combining genetic and demographic monitoring better informs conservation of an endangered urban snake
Cited by: 11
Author(s): Dustin A. Wood, Jonathan P. Rose, Brian J. Halstead, Ricka E. Stoelting, Karen E. Swaim, Amy G. Vandergast
Software Mentions: 8
Published: about 6 years ago

10.3390/ani11071940

Prevalence of BRD-Related Viral Pathogens in the Upper Respiratory Tract of Swiss Veal Calves
Cited by: 12
Author(s): Edgar Studer, Lutz Schönecker, Mireille Meylan, Dimitri Stucki, Ronald Dijkman, Melle Holwerda, Anna N. Glaus, Jens Becker
Software Mentions: 8
Published: almost 5 years ago

10.1002/ctm2.20

Nomograms for predicting specific distant metastatic sites and overall survival of colorectal cancer patients: A large population‐based real‐world study
Cited by: 26
Author(s): Shaobo Mo, Xin Cai, Zheng Zhou, Yaqi Li, Xiang Hu, Xiaolong Ma, Long Zhang, Sanjun Cai, Junjie Peng
Software Mentions: 8
Published: over 6 years ago

10.1371/journal.pcbi.1008757

Using neural networks to mine text and predict metabolic traits for thousands of microbes
Cited by: 4
Author(s): Timothy J. Hackmann, Bo Zhang
Software Mentions: 8
Published: over 5 years ago

10.7717/peerj.11599

A seven-lncRNA signature for predicting Ewing’s sarcoma
Cited by: 8
Author(s): Zhihui Chen, Xinyu Wang, Guozhu Wang, Bin Xiao, Zhe Ma, Hongliang Huo, Weiwei Li
Software Mentions: 8
Published: about 5 years ago

10.3389/fmicb.2019.02736

Habitat Heterogeneity and Connectivity: Effects on the Planktonic Protist Community Structure at Two Adjacent Coastal Sites (the Lagoon and the Gulf of Venice, Northern Adriatic Sea, Italy) Revealed by Metabarcoding
Cited by: 14
Author(s): Simona Armeli Minicante, Roberta Piredda, Grazia Marina Quero, Stefania Finotto, Fabrizio Bernardi Aubry, Mauro Bastianini, Alessandra Pugnetti, Adriana Zingone
Software Mentions: 8
Published: over 6 years ago

10.1002/cam4.2493

Integrated transcriptomics reveals master regulators of lung adenocarcinoma and novel repositioning of drug candidates
Cited by: 12
Author(s): Marco Antônio De Bastiani, Fábio Klamt
Software Mentions: 8
Published: almost 7 years ago

10.1093/bib/bbz096

Evaluation of single-cell classifiers for single-cell RNA sequencing data sets
Cited by: 54
Author(s): Xinlei Zhao, Shuang Wu, Nan Fang, Xiao Sun, Jue Fan
Software Mentions: 8
Published: over 6 years ago

10.7717/peerj-cs.521

LinkPred: a high performance library for link prediction in complex networks
Cited by: 0
Author(s): Said Kerrache
Software Mentions: 8
Published: about 5 years ago

10.3390/metabo11070463

Sex-Specific Relationship between the Cardiorespiratory Fitness and Plasma Metabolite Patterns in Healthy Humans—Results of the KarMeN Study
Cited by: 5
Author(s): Sina Kistner, Maik Döring, Ralf Krüger, M Rist, Christoph H. Weinert, Diana Bunzel, Benedikt Merz, Katrin Radloff, Rainer Neumann, Sascha Härtel, Achim Bub
Software Mentions: 8
Published: almost 5 years ago

10.1038/s41598-019-39638-9

Gut microbiota of the European Brown Hare (Lepus europaeus)
Cited by: 14
Author(s): Gabrielle Stalder, Beate Pinior, Benjamin Zwirzitz, Igor Loncaric, Dennis Jakupović, Sebastian Vetter, Steve Smith, Annika Posautz, Franz Hoelzl, Martin Wagner, Daniel Hoffmann, Anna Kübber‐Heiss, Evelyne Mann
Software Mentions: 8
Published: over 7 years ago

10.1186/s12877-021-02346-z

Development of a multivariable prognostic PREdiction model for 1-year risk of FALLing in a cohort of community-dwelling older adults aged 75 years and above (PREFALL)
Cited by: 6
Author(s): Gustav Valentin Gade, Martin Grønbech Jørgensen, Jesper Ryg, Tahir Masud, Lasse Jakobsen, Stig Andersen
Software Mentions: 8
Published: almost 5 years ago

10.18632/oncotarget.13467

Effects of <i>Abies sibirica</i> terpenes on cancer- and aging-associated pathways in human cells
Cited by: 9
Author(s): Anna V. Kudryavtseva, George S. Krasnov, Anastasiya V. Lipatova, B. Ya. Alekseev, Faniya Maganova, Mikhail Shaposhnikov, Maria S. Fedorova, Anastasiya V. Snezhkina, Alexey Moskalev
Software Mentions: 8
Published: over 9 years ago

10.1155/2014/213656

A Review of Feature Extraction Software for Microarray Gene Expression Data
Cited by: 10
Author(s): Ching Siang Tan, Wai S oon Ting, Mohd Saberi Mohamad, Weng Howe Chan, Safaai Deris, Zuraini Ali Shah
Software Mentions: 8
Published: over 12 years ago

10.1534/g3.118.200892

Isolation by Distance, Source-Sink Population Dynamics and Dispersal Facilitation by Trade Routes: Impact on Population Genetic Structure of a Stored Grain Pest
Cited by: 14
Author(s): Erick M. G. Cordeiro, James F. Campbell, Thomas W. Phillips, Eduard Akhunov
Software Mentions: 8
Published: about 7 years ago