10.12688/f1000research.24345.2

Interactive exploratory data analysis of Integrative Human Microbiome Project data using Metaviz
Cited by: 0
Author(s): Justin Wagner, Jayaram Kancherla, Domenick J. Braccia, James Matsumara, Victor Felix, Jonathan Crabtree, Anup Mahurkar, Héctor Corrada Bravo
Software Mentions: 6
Published: about 5 years ago

10.1371/journal.pone.0153355

Immune Profiles to Predict Response to Desensitization Therapy in Highly HLA-Sensitized Kidney Transplant Candidates
Cited by: 20
Author(s): Julie M. Yabu, Janet Siebert, Holden T. Maecker
Software Mentions: 6
Published: about 10 years ago

10.3389/fpls.2018.01212

A Bioinformatics Pipeline for the Analysis and Target Prediction of RNA Effectors in Bidirectional Communication During Plant–Microbe Interactions
Cited by: 12
Author(s): Silvia Zanini, Ena Šečić, Lukas Jelonek, Karl-Heinz Kögel
Software Mentions: 6
Published: almost 8 years ago

10.3389/fcell.2021.724860

Integrative Analysis of Biomarkers Through Machine Learning Identifies Stemness Features in Colorectal Cancer
Cited by: 7
Author(s): Ran Wei, Jichuan Quan, Shuofeng Li, Hengchang Liu, Xu Guan, Zheng Jiang, Xishan Wang
Software Mentions: 6
Published: almost 5 years ago

10.1371/journal.pone.0224432

Effectiveness of novel fabrics to resist punctures and lacerations from white shark (Carcharodon carcharias): Implications to reduce injuries from shark bites
Cited by: 8
Author(s): Sasha K. Whitmarsh, Dhara B. Amin, John J. Costi, Joshua D. Dennis, Charlie Huveneers
Software Mentions: 6
Published: over 6 years ago

10.3389/fmicb.2019.02560

Trophic Status Is Associated With Community Structure and Metabolic Potential of Planktonic Microbiota in Plateau Lakes
Cited by: 35
Author(s): Mohai Shen, Qi Li, Mei Ren, Yan Lin, Juanping Wang, Li Chen, Tao Li, Jindong Zhao
Software Mentions: 6
Published: over 6 years ago

10.1242/dmm.044776

Maltodextrin-induced intestinal injury in a neonatal mouse model
Cited by: 5
Author(s): Pratibha Singh, Lady Leidy Sanchez-Fernandez, David Ramiro-Cortijo, Pedro Ochoa‐Allemant, George Perides, Yan Liu, Esli Medina-Morales, William Yakah, Steven D. Freedman, Camilia R. Martin
Software Mentions: 6
Published: over 6 years ago

10.3389/fgene.2020.00992

Identification of the Six-RNA-Binding Protein Signature for Prognosis Prediction in Bladder Cancer
Cited by: 13
Author(s): Yucai Wu, Yi Liu, Anbang He, Bao Guan, Shiming He, Cuijian Zhang, Zhengjun Kang, Yanqing Gong, Xuesong Li, Liqun Zhou
Software Mentions: 6
Published: almost 6 years ago

10.1186/s13048-020-00730-8

Identification of an autophagy-related gene signature for survival prediction in patients with cervical cancer
Cited by: 18
Author(s): Hengyu Chen, Qingchun Deng, Wenwen Wang, Huishan Tao, Ying Gao
Software Mentions: 6
Published: over 5 years ago

10.1371/journal.pone.0183036

Establishing baseline biodiversity data prior to hydroelectric dam construction to monitoring impacts to bats in the Brazilian Amazon
Cited by: 20
Author(s): Paulo Estefano Dineli Bobrowiec, Valéria da Cunha Tavares
Software Mentions: 6
Published: almost 9 years ago

10.1371/journal.pone.0244846

FOSTER—An R package for forest structure extrapolation
Cited by: 3
Author(s): Martin Queinnec, Piotr Tompalski, Douglas K. Bolton, Nicholas C. Coops
Software Mentions: 6
Published: over 5 years ago

10.12688/f1000research.11905.2

Virtual-screening workflow tutorials and prospective results from the Teach-Discover-Treat competition 2014 against malaria
Cited by: 5
Author(s): Sereina Riniker, Gregory A. Landrum, Floriane Montanari, Santiago D. Villalba, Julie Maier, Johanna M. Jansen, W. Patrick Walters, Anang A. Shelat
Software Mentions: 6
Published: over 8 years ago

10.1080/16549716.2019.1623609

The association between cold extremes and neonatal mortality in Swedish Sápmi from 1800 to 1895
Cited by: 7
Author(s): Lena Karlsson, Erling Häggström Lundevaller, Barbara Schumann
Software Mentions: 6
Published: over 7 years ago

10.1186/s12864-018-5264-y

Helmsman: fast and efficient mutation signature analysis for massive sequencing datasets
Cited by: 18
Author(s): Jedidiah Carlson, Jun Z. Li, Sebastian Zöllner
Software Mentions: 6
Published: over 7 years ago

10.1002/ece3.5592

Weighing homoplasy against alternative scenarios with the help of macroevolutionary modeling: A case study on limb bones of fossorial sciuromorph rodents
Cited by: 5
Author(s): Jan Wölfer, John A. Nyakatura
Software Mentions: 6
Published: almost 7 years ago

10.1128/mBio.02495-18

The Transcriptional Cycle Is Suited to Daytime N ₂ Fixation in the Unicellular Cyanobacterium “ <i>Candidatus</i> Atelocyanobacterium thalassa” (UCYN-A)
Cited by: 28
Author(s): María del Carmen Muñoz-Marín, Irina N. Shilova, Tianshu Shi, Hanna Farnelid, Ana María Cabello, Jonathan P. Zehr
Software Mentions: 6
Published: over 7 years ago

10.1098/rsos.170558

Acoustic monitoring of coastal dolphins and their response to naval mine neutralization exercises
Cited by: 8
Author(s): Marc O. Lammers, Marian Howe, Eden Zang, Megan M. McElligott, Amy Engelhaupt, Lisa M. Munger
Software Mentions: 6
Published: over 8 years ago

10.7717/peerj.9177

The effect of landscape on functional connectivity and shell shape in the land snail Humboldtiana durangoensis
Cited by: 0
Author(s): Benjamín López, Omar Mejía, Gerardo Zúñiga
Software Mentions: 6
Published: about 6 years ago

10.1093/gbe/evu149

Small but Powerful, the Primary Endosymbiont of Moss Bugs, Candidatus Evansia muelleri, Holds a Reduced Genome with Large Biosynthetic Capabilities
Cited by: 33
Author(s): Diego Santos-García, Amparo Latorre, Andrés Moya, George Gibbs, Viktor Hartung, Konrad Dettner, Stefan Martin Kuechler, Francisco J. Silva
Software Mentions: 6
Published: about 12 years ago

10.1186/s12859-020-03818-6

Calculating the most likely intron splicing orders in S. pombe, fruit fly, Arabidopsis thaliana, and humans
Cited by: 2
Author(s): Meng Li
Software Mentions: 6
Published: over 5 years ago

10.1186/s12915-021-01147-5

Single-cell DNA and RNA sequencing reveals the dynamics of intra-tumor heterogeneity in a colorectal cancer model
Cited by: 13
Author(s): Hisayo Ono, Yasuhito Arai, Eisaku Furukawa, Daichi Narushima, Tetsuya Matsuura, Hiromi Nakamura, Daisuke Shiokawa, Masaya Nagai, Toshio Imai, Koshi Mimori, Koji Okamoto, Yoshitaka Hippo, Tatsuhiro Shibata, Mamoru Kato
Software Mentions: 6
Published: almost 5 years ago

10.3390/ani11071917

Sensor and Video: Two Complementary Approaches for Evaluation of Dairy Cow Behavior after Calving Sensor Attachment
Cited by: 2
Author(s): Johanna Pfeiffer, Olivia Spykman, Markus Gandorfer
Software Mentions: 6
Published: about 5 years ago

10.1126/sciadv.aba2862

Who do you trust? Wild birds use social knowledge to avoid being deceived
Cited by: 4
Author(s): Filipe Cristovão Ribeiro da Cunha, Michael Griesser
Software Mentions: 6
Published: about 5 years ago

10.1007/s12275-020-9536-2

STATR: A simple analysis pipeline of Ribo-Seq in bacteria
Cited by: 7
Author(s): Donghui Choe, Bernhard Ø. Palsson, Byung-Kwan Cho
Software Mentions: 6
Published: over 6 years ago

10.1186/s12935-020-01635-8

A multi-parametric prognostic model based on clinical features and serological markers predicts overall survival in non-small cell lung cancer patients with chronic hepatitis B viral infection
Cited by: 4
Author(s): Shulin Chen, Hanqing Huang, Yijun Liu, Changchun Lai, Songguo Peng, Lei Zhou, Hao Chen, Yi‐Wei Xu, Xia He
Software Mentions: 6
Published: over 5 years ago

10.1002/1878-0261.12062

Methylation profiling of paediatric pilocytic astrocytoma reveals variants specifically associated with tumour location and predictive of recurrence
Cited by: 14
Author(s): Alexandra Sexton-Oates, Andrew Dodgshun, Volker Hovestadt, David Jones, David M. Ashley, Michael J. Sullivan, Duncan MacGregor, Richard Saffery
Software Mentions: 6
Published: about 8 years ago

10.3389/fpsyt.2020.00384

Effectiveness of Open-Ended Psychotherapy Under Clinically Representative Conditions
Cited by: 6
Author(s): Magnus Nordmo, Nils Martin Sønderland, Odd E. Havik, Dag Erik Eilertsen, Jon T. Monsen, Ole André Solbakken
Software Mentions: 6
Published: about 6 years ago

10.3389/fmicb.2020.559035

Zika Virus Infection Results in Biochemical Changes Associated With RNA Editing, Inflammatory and Antiviral Responses in Aedes albopictus
Cited by: 6
Author(s): Maria G Onyango, Geoffrey M. Attardo, Erin Taylor Kelly, Sean M. Bialosuknia, Jessica Stout, Elyse Banker, Lili Kuo, Alexander T. Ciota, Laura D. Kramer
Software Mentions: 6
Published: almost 6 years ago

10.1371/journal.ppat.1006967

KSHV induces immunoglobulin rearrangements in mature B lymphocytes
Cited by: 28
Author(s): Jennifer Totonchy, Jessica M. Osborn, Amy Chadburn, Romina Nabiee, Lissenya B. Argueta, Geoffrey Mikita, Ethel Cesarman
Software Mentions: 6
Published: about 8 years ago

10.1038/s41598-019-54447-w

A genomic predictor of lifespan in vertebrates
Cited by: 43
Author(s): Benjamin Mayne, Oliver Berry, Campbell R. Davies, Jessica Farley, Simon Jarman
Software Mentions: 6
Published: over 6 years ago

10.1038/s41598-019-39893-w

Distribution of organic and inorganic mercury across the pelts of Canadian river otter (Lontra canadensis)
Cited by: 8
Author(s): Kristin M. Eccles, Eric S. Littlewood, Philippe J. Thomas, Hing Man Chan
Software Mentions: 6
Published: over 7 years ago

10.1186/s12935-020-01179-x

Expression profile analysis identifies key genes as prognostic markers for metastasis of osteosarcoma
Cited by: 12
Author(s): Xiaoqing Guan, Zhiyuan Guan, Chunli Song
Software Mentions: 6
Published: over 6 years ago

10.1534/g3.119.400273

DPAC: A Tool for Differential Poly(A)–Cluster Usage from Poly(A)–Targeted RNAseq Data
Cited by: 16
Author(s): Andrew Routh
Software Mentions: 6
Published: about 7 years ago

10.3389/fpls.2021.622043

Disentangling Environmental Effects on the Tree Species Abundance Distribution and Richness in a Subtropical Forest
Cited by: 9
Author(s): Feng Guo, Jihong Huang, Xu Yue, Junqing Li, Runguo Zang
Software Mentions: 6
Published: over 5 years ago

10.3390/diagnostics11010005

The Role of Urine F2-isoprostane Concentration in Delayed Cerebral Ischemia after Aneurysmal Subarachnoid Haemorrhage—A Poor Prognostic Factor
Cited by: 4
Author(s): Karol Wiśniewski, Marta Popęda, Bartłomiej Tomasik, Michał Bieńkowski, Ernest J. Bobeff, Ludomir Stefańczyk, Krzysztof Tybor, Marlena Hupało, Dariusz J. Jaskólski
Software Mentions: 6
Published: over 5 years ago

10.1111/jcmm.15349

Molecular characterization of circulating tumour cells identifies predictive markers for outcome in primary, triple‐negative breast cancer patients
Cited by: 11
Author(s): Ann‐Kathrin Bittner, Corinna Keup, Oliver Hoffmann, Siegfried Hauch, Rainer Kimmig, Sabine Kasimir‐Bauer
Software Mentions: 6
Published: about 6 years ago

10.1371/journal.ppat.1009304

Distinct clonal lineages and within-host diversification shape invasive Staphylococcus epidermidis populations
Cited by: 39
Author(s): Anna Both, Jia-Bin Huang, Minyue Qi, Christian Lausmann, Samira Weißelberg, Henning Büttner, Susanne Lezius, Antonio Virgilio Failla, Coralie Martin, Marc Stegger, Thorsten Gehrke, Sharmin Baig, Mustafa Citak, Malik Alawi, Martin Aepfelbacher, Holger Rohde
Software Mentions: 6
Published: over 5 years ago

10.1093/conphys/coaa046

Heat, health and hatchlings: associations of in situ nest temperatures with morphological and physiological characteristics of loggerhead sea turtle hatchlings from Florida
Cited by: 19
Author(s): Kelsey Alexandra Fleming, Justin R. Perrault, Nicole I. Stacy, Christina M. Coppenrath, Alison M. Gainsbury
Software Mentions: 6
Published: over 6 years ago

10.3389/fgene.2021.731355

HandyCNV: Standardized Summary, Annotation, Comparison, and Visualization of Copy Number Variant, Copy Number Variation Region, and Runs of Homozygosity
Cited by: 5
Author(s): Juefei Zhou, Liyuan Liu, Thomas Lopdell, Dorian J. Garrick, Yiting Shi
Software Mentions: 6
Published: almost 5 years ago

10.1038/s42003-020-0875-7

Heterospecific eavesdropping on an anti-parasitic referential alarm call
Cited by: 17
Author(s): Shelby L. Lawson, Janice K. Enos, Niko C. Mendes, Sharon A. Gill, Márk E. Hauber
Software Mentions: 6
Published: over 6 years ago

10.1371/journal.pone.0161018

A Reassessment of the Impact of European Contact on the Structure of Native American Genetic Diversity
Cited by: 30
Author(s): Keith Hunley, Kiela Gwin, Brendan Liberman
Software Mentions: 6
Published: almost 10 years ago

10.1371/journal.pone.0070038

Integrating Life Stages into Ecological Niche Models: A Case Study on Tiger Beetles
Cited by: 9
Author(s): Ángela Taboada, Henrik von Wehrden, Thorsten Aßmann
Software Mentions: 6
Published: almost 13 years ago

10.1111/mec.14893

Geospatial variation in co‐occurrence networks of nitrifying microbial guilds
Cited by: 39
Author(s): Christopher M. Jones, Sara Hallin
Software Mentions: 6
Published: over 7 years ago

10.1371/journal.pone.0243301

Response of oat morphologies, root exudates, and rhizosphere fungal communities to amendments in a saline-alkaline environment
Cited by: 5
Author(s): Peina Lu, Tony Yang, Lijun Li, Baoping Zhao, Jinghui Liu
Software Mentions: 6
Published: over 5 years ago

10.1371/journal.ppat.1008754

JNK pathway restricts DENV2, ZIKV and CHIKV infection by activating complement and apoptosis in mosquito salivary glands
Cited by: 37
Author(s): Avisha Chowdhury, Cassandra M. Modahl, Siok Thing Tan, Benjamin Wong Wei Xiang, Dorothée Missé, Thomas Vial, R. Manjunatha Kini, Julien Pompon
Software Mentions: 6
Published: almost 6 years ago

10.1186/s12864-016-2849-1

Deciphering transcriptome profiles of peripheral blood mononuclear cells in response to PRRSV vaccination in pigs
Cited by: 26
Author(s): M. S. Islam, Christine Große‐Brinkhaus, Maren Pröll, Muhammad Jasim Uddin, Sharmin Aqter Rony, Dawit Tesfaye, Ernst Tholen, Michael Hölker, K. Schellander, Christiane Neuhoff
Software Mentions: 6
Published: almost 10 years ago

10.3390/diagnostics10060415

Comparison between Statistical Models and Machine Learning Methods on Classification for Highly Imbalanced Multiclass Kidney Data
Cited by: 17
Author(s): Bomi Jeong, Hyun-Jeong Cho, Jieun Kim, Soon Kil Kwon, Suk Bong Hong, ChangSik Lee, TaeYeon Kim, Man Sik Park, Seoksu Hong, Tae‐Young Heo
Software Mentions: 6
Published: about 6 years ago

10.3389/fmicb.2021.665849

Decisive Effects of Life Stage on the Gut Microbiota Discrepancy Between Two Wild Populations of Hibernating Asiatic Toads (Bufo gargarizans)
Cited by: 3
Author(s): Xuehang Song, Jingwei Zhang, Jinghan Song, Yuanyuan Zhai
Software Mentions: 6
Published: almost 5 years ago

10.1371/journal.pone.0103256

Low-Intensity Agricultural Landscapes in Transylvania Support High Butterfly Diversity: Implications for Conservation
Cited by: 69
Author(s): Jacqueline Loos, Ine Dorresteijn, Jan Hanspach, Pascal Fust, László Rákosy, Joern Fischer
Software Mentions: 6
Published: almost 12 years ago

10.1371/journal.pone.0124477

Can Population-Level Laterality Stem from Social Pressures? Evidence from Cheek Kissing in Humans
Cited by: 25
Author(s): Amandine Chapelain, Pauline Pimbert, Lydiane Aubé, Océane Perrocheau, Gilles Debunne, Alain Bellido, Catherine Blois‐Heulin
Software Mentions: 6
Published: almost 11 years ago

10.1155/2020/8537381

Autophagy Regulatory Genes MET and RIPK2 Play a Prognostic Role in Pancreatic Ductal Adenocarcinoma: A Bioinformatic Analysis Based on GEO and TCGA
Cited by: 10
Author(s): Xingyu Li, Zhiqiang Li, Hongwei Zhu, Xiao Yu
Software Mentions: 6
Published: over 5 years ago

10.3897/zookeys.603.8271

Taxonomic revision of the Malagasy Nesomyrmex madecassus species-group using a quantitative morphometric approach
Cited by: 4
Author(s): Sándor Csősz, Brian L. Fisher
Software Mentions: 6
Published: about 10 years ago

10.1038/s41597-020-00711-y

Individual back-calculated size-at-age based on otoliths from Pacific coral reef fish species
Cited by: 6
Author(s): Fabien Morat, Jérémy Wicquart, Nina M. D. Schiettekatte, Guillemette de Sinéty, Jean-Guy Bienvenu, Jordan M. Casey, Simon J. Brandl, Jason Vii, Jérémy Carlot, S. Degregori, Alexandre Mercière, Pauline Fey, René Galzin, Yves Letourneur, Pierre Sasal, Valeriano Parravicini
Software Mentions: 6
Published: over 5 years ago

10.3389/fonc.2019.01064

Radiomic Nomogram Improves Preoperative T Category Accuracy in Locally Advanced Laryngeal Carcinoma
Cited by: 21
Author(s): Fei Wang, Bin Zhang, Xiangjun Wu, Lizhi Liu, Fang Jin, Justin Chen, Minmin Li, Zhuozhi Chen, Yueyue Li, Di Dong, Jie Tian, Shuixing Zhang
Software Mentions: 6
Published: over 6 years ago

10.1371/journal.pone.0191154

A critical comparison of topology-based pathway analysis methods
Cited by: 51
Author(s): Ivana Ihnatová, Vlad Popovici, Eva Budínská
Software Mentions: 6
Published: over 8 years ago

10.3390/nu13092983

Supplementation of 1-Kestose Modulates the Gut Microbiota Composition to Ameliorate Glucose Metabolism in Obesity-Prone Hosts
Cited by: 10
Author(s): Ayako Watanabe, Takumi Tochio, Yasuhiro Kadota, Motoki Takahashi, Yasuyuki Kitaura, H. Ishikawa, Takanori Yasutake, Masahiro Nakano, Hiroe Shinohara, Toru Kudo, Yuichiro Nishimoto, Yoshinori Mizuguchi, Akihito Endo, Yoshiharu Shimomura
Software Mentions: 6
Published: almost 5 years ago

10.1186/s12885-020-07438-4

A 38-gene model comprised of key TET2-associated genes shows additive utility to high-risk prostate cancer cases in the prognostication of biochemical recurrence
Cited by: 1
Author(s): Shivani Kamdar, Neil Fleshner, Bharati Bapat
Software Mentions: 6
Published: almost 6 years ago

10.7554/eLife.59733

Activation of a neural stem cell transcriptional program in parenchymal astrocytes
Cited by: 41
Author(s): Jens P Magnusson, Margherita Zamboni, Giuseppe Santopolo, Jeff E. Mold, Mauricio Barrientos‐Somarribas, Carlos Talavera-López, Björn Andersson, Jonas Frisén
Software Mentions: 6
Published: almost 6 years ago

10.1038/s41598-021-94442-8

Identification of pathological transcription in autosomal dominant polycystic kidney disease epithelia
Cited by: 1
Author(s): Sebastian Friedrich, Hannah Müller, Caroline Riesterer, Hannah Schüller, Katja Friedrich, Carlotta Leonie Wörner, Tilman Busch, Amandine Viau, E. Wolfgang Kuehn, Michael Köttgen, Alexis Hofherr
Software Mentions: 6
Published: almost 5 years ago

10.1038/s41598-019-50942-2

Hidden Markov models reveal temporal patterns and sex differences in killer whale behavior
Cited by: 8
Author(s): Jennifer B. Tennessen, Marla M. Holt, Eric J. Ward, M. Bradley Hanson, Candice K. Emmons, D. K. Giles, Joyce Hogan
Software Mentions: 6
Published: over 6 years ago

10.3389/fgene.2019.00904

Advances and Challenges in Metatranscriptomic Analysis
Cited by: 217
Author(s): Migun Shakya, Chien‐Chi Lo, Patrick Chain
Software Mentions: 6
Published: almost 7 years ago

10.1098/rspb.2021.0044

Fossils improve phylogenetic analyses of morphological characters
Cited by: 43
Author(s): Nicolás Mongiardino Koch, Russell J. Garwood, Luke A. Parry
Software Mentions: 6
Published: about 5 years ago

10.1186/s12885-019-6101-7

A large cohort study identifying a novel prognosis prediction model for lung adenocarcinoma through machine learning strategies
Cited by: 43
Author(s): Yin Li, Di Ge, Jie Gu, Fan Xu, Qinqing Zhu
Software Mentions: 6
Published: almost 7 years ago

10.1007/s00442-021-05022-6

Nightly torpor use in response to weather conditions and individual state in an insectivorous bat
Cited by: 5
Author(s): Mari Aas Fjelldal, Jonathan Wright, Clare Stawski
Software Mentions: 6
Published: almost 5 years ago

10.1093/gigascience/giy158

Re-assembly, quality evaluation, and annotation of 678 microbial eukaryotic reference transcriptomes
Cited by: 51
Author(s): Lisa K. Johnson, Harriet Alexander, C. Titus Brown
Software Mentions: 6
Published: over 7 years ago

10.3389/fbioe.2021.612893

Multiomics Data Collection, Visualization, and Utilization for Guiding Metabolic Engineering
Cited by: 4
Author(s): Somtirtha Roy, Tijana Radivojević, Mark Forrer, Jose Manuel Martí, Vamshi Jonnalagadda, Tyler W. H. Backman, William Morrell, Hector Plahar, Joonhoon Kim, Nathan J. Hillson, Héctor García Martín
Software Mentions: 6
Published: over 5 years ago

10.1186/s12870-018-1379-1

Investigation of mitochondrial-derived plastome sequences in the Paspalum lineage (Panicoideae; Poaceae)
Cited by: 12
Author(s): Sean V. Burke, Mark C. Ungerer, Melvin R. Duvall
Software Mentions: 6
Published: almost 8 years ago

10.1038/s42003-020-0863-y

A miRNA-based diagnostic model predicts resectable lung cancer in humans with high accuracy
Cited by: 62
Author(s): Keisuke Asakura, Tsukasa Kadota, Juntaro Matsuzaki, Yukihiro Yoshida, Yusuke Yamamoto, Kazuo Nakagawa, Satoko Takizawa, Yasumichi Aoki, Eiji Nakamura, Junichiro Miura, Hiromi Sanada, Ken Kato, Shun Watanabe, Takahiro Ochiya
Software Mentions: 6
Published: over 6 years ago

10.1038/s41598-021-82989-5

CD4+ T cells from children with active juvenile idiopathic arthritis show altered chromatin features associated with transcriptional abnormalities
Cited by: 5
Author(s): Evan Tarbell, Kaiyu Jiang, Teresa Hennon, Lucy C Holmes, Sonja D. Williams, Yao Fu, Patrick M. Gaffney, Tao Liu, James N. Jarvis
Software Mentions: 6
Published: over 5 years ago

10.1128/mSystems.00398-20

System Performance Corresponding to Bacterial Community Succession after a Disturbance in an Autotrophic Nitrogen Removal Bioreactor
Cited by: 3
Author(s): Hsiao Pei Lu, Yung Hsien Shao, Jer Horng Wu, Chih‐hao Hsieh
Software Mentions: 6
Published: almost 6 years ago

10.3389/fcimb.2021.633573

Abundance and Expression of Shiga Toxin Genes in Escherichia coli at the Recto-Anal Junction Relates to Host Immune Genes
Cited by: 6
Author(s): Zhe Pan, Yanhong Chen, Tim A. McAllister, Michael G. Gänzle, Graham Plastow, Le Luo Guan
Software Mentions: 6
Published: over 5 years ago

10.1016/j.cell.2020.05.039

Multimodal Analysis of Composition and Spatial Architecture in Human Squamous Cell Carcinoma
Cited by: 438
Author(s): Andrew L. Ji, Adam J. Rubin, Kim Thrane, Sizun Jiang, David L. Reynolds, Robin M. Meyers, Margaret Guo, Benson M. George, Annelie Mollbrink, Joseph Bergenstråhle, Ludvig Larsson, Yunhao Bai, Bokai Zhu, Aparna Bhaduri, Jordan M. Meyers, Xavier Rovira-Clavé, S. Tyler Hollmig, Sumaira Z. Aasi, Garry P. Nolan, Joakim Lundeberg, Paul A. Khavari
Software Mentions: 6
Published: about 6 years ago

10.1371/journal.ppat.1008179

Molecular dating and viral load growth rates suggested that the eclipse phase lasted about a week in HIV-1 infected adults in East Africa and Thailand
Cited by: 24
Author(s): Morgane Rolland, Sodsai Tovanabutra, Bethany L. Dearlove, Yifan Li, Christopher L. Owen, Éric Lewitus, Eric Sanders‐Buell, Meera Bose, Anne Marie O’Sullivan, Raabya Rossenkhan, Jan Phillipus Lourens Labuschagne, Paul T. Edlefsen, Daniel B. Reeves, Gustavo H. Kijak, Shana Miller, Kultida Poltavee, Jenica Lee, Lydia Bonar, Elizabeth A. Harbolick, Bahar Ahani, Phuc Pham, Hannah Kibuuka, Lucas Maganga, Sorachai Nitayaphan, Fred Sawe, Leigh Anne Eller, Robert A. Gramzinski, Jerome H. Kim, Nelson L. Michael, Merlin L. Robb
Software Mentions: 6
Published: over 6 years ago

10.1038/s41598-018-29511-6

Metabolomic analysis of mouse prefrontal cortex reveals upregulated analytes during wakefulness compared to sleep
Cited by: 30
Author(s): Allen K. Bourdon, Giovanna Maria Spano, William Marshall, Michele Bellesi, Giulio Tononi, Pier Andrea Serra, Helen A. Baghdoyan, Ralph Lydic, Shawn R. Campagna, Chiara Cirelli
Software Mentions: 6
Published: almost 8 years ago

10.1186/s13059-014-0483-2

Methylomic profiling of human brain tissue supports a neurodevelopmental origin for schizophrenia
Cited by: 140
Author(s): Ruth Pidsley, Joana Viana, Eilís Hannon, Helen Spiers, Claire Troakes, Safa Al-Saraj, Naguib Mechawar, Gustavo Turecki, Leonard C. Schalkwyk, Nicholas John Bray, Jonathan Mill
Software Mentions: 6
Published: almost 12 years ago

10.1038/s41598-021-93850-0

Morphological response accompanying size reduction of belemnites during an Early Jurassic hyperthermal event modulated by life history
Cited by: 5
Author(s): Paulina Nätscher, Guillaume Dera, Carl J. Reddin, Patrícia Rita, Kenneth De Baets
Software Mentions: 6
Published: almost 5 years ago

10.1007/s00122-021-03832-z

Paternal outcrossing success differs among faba bean genotypes and impacts breeding of synthetic cultivars
Cited by: 6
Author(s): Lisa Brünjes, Wolfgang Link
Software Mentions: 6
Published: about 5 years ago

10.1038/s41598-019-44034-4

Transcript expression profiling in two contrasting cultivars and molecular cloning of a SKP-1 like gene, a component of SCF-ubiquitin proteasome system from mungbean Vigna radiate L.
Cited by: 8
Author(s): Nandita Bharadwaj, Sharmistha Barthakur, Akash Deep Biswas, Monoj Kumar Das, Manpreet Kour, Anand Ramteke, Nirmali Gogoi
Software Mentions: 6
Published: about 7 years ago

10.1186/1471-2105-14-351

On the amyloid datasets used for training PAFIG ­ how (not) to extend the experimental dataset of hexapeptides
Cited by: 10
Author(s): Małgorzata Kotulska, Olgierd Unold
Software Mentions: 6
Published: over 12 years ago

10.3389/fpubh.2021.691680

Psychological and Socio-Economical Determinants of Health: The Case of Inner German Migration
Cited by: 1
Author(s): Bjarne Schmalbach, Ileana Schmalbach, Christoph Kasinger, Katja Petrowski, Elmar Brähler, Markus Zenger, Yve Stöbel-Richter, E. Richter, Hendrik Berth
Software Mentions: 6
Published: about 5 years ago

10.1371/journal.pone.0198539

Pink shrimp Farfantepenaeus duorarum spatiotemporal abundance trends along an urban, subtropical shoreline slated for restoration
Cited by: 4
Author(s): Ian C. Zink, Joan A. Browder, Diego Lirman, Joseph E. Serafy
Software Mentions: 6
Published: over 7 years ago

10.3390/nu13082833

Targeted High-Resolution Taxonomic Identification of Bifidobacterium longum subsp. infantis Using Human Milk Oligosaccharide Metabolizing Genes
Cited by: 8
Author(s): Lauren Tso, Kevin S. Bonham, Alyssa Fishbein, Sophie Rowland, Vanja Klepac‐Ceraj
Software Mentions: 6
Published: almost 5 years ago

10.1186/s13071-018-3281-y

A novel entomological index, Aedes aegypti Breeding Percentage, reveals the geographical spread of the dengue vector in Singapore and serves as a spatial risk indicator for dengue
Cited by: 31
Author(s): Janet Ong, Xu Liu, Jayanthi Rajarethinam, Grace Yap, Derek Ho, Lee Ching Ng
Software Mentions: 6
Published: over 7 years ago

10.1186/s40168-020-00917-7

Spatial heterogeneity of bacterial colonization across different gut segments following inter-species microbiota transplantation
Cited by: 56
Author(s): Na Li, Bo Zuo, Shimeng Huang, Benhua Zeng, Dandan Han, Tiantian Li, Ting Liu, Zhenhua Wu, Hong Wei, Jiangchao Zhao, Junjun Wang
Software Mentions: 6
Published: over 5 years ago

10.1128/JVI.00500-19

Single-Cell Virus Sequencing of Influenza Infections That Trigger Innate Immunity
Cited by: 81
Author(s): Alan D. Russell, Elizaveta Elshina, Jacob R. Kowalsky, Aartjan J.W. te Velthuis, Jesse D. Bloom
Software Mentions: 6
Published: almost 7 years ago

10.1186/s40168-020-00954-2

Bacterial community assemblages in classroom floor dust of 50 public schools in a large city: characterization using 16S rRNA sequences and associations with environmental factors
Cited by: 10
Author(s): Ju‐Hyeong Park, Angela R. Lemons, Jerry Roseman, Brett J. Green, Jean M. Cox‐Ganser
Software Mentions: 6
Published: over 5 years ago

10.1038/s41598-021-93970-7

Genomic evolution of antimicrobial resistance in Escherichia coli
Cited by: 19
Author(s): Pimlapas Leekitcharoenphon, Markus Johansson, Patrick Munk, Burkhard Malorny, Magdalena Skarżyńska, Katharina Wadepohl, Gabriel Moyano, Ayla Hesp, Kees Veldman, Alex Bossers, Magdalena Zając, Dariusz Wasyl, Pascal Sandérs, B. Gonzales-Zorn, Michael S.M. Brouwer, Jaap A. Wagenaar, Dick Heederik, Dik Mevius, Frank Møller Aarestrup
Software Mentions: 6
Published: almost 5 years ago

10.1038/s41598-017-06880-y

A pilot study demonstrating the altered gut microbiota functionality in stable adults with Cystic Fibrosis
Cited by: 29
Author(s): Fiona Fouhy, N.J. Ronan, Órla O’Sullivan, Yvonne McCarthy, Aaron M. Walsh, Desmond M. Murphy, Mary B. Daly, Evelyn Flanagan, C. Fleming, M. McCarthy, C. Shortt, Joseph A. Eustace, Fergus Shanahan, Mary C. Rea, R. Paul Ross, Catherine Stanton, Barry J. Plant
Software Mentions: 6
Published: almost 9 years ago

10.3390/molecules25112552

The Use of Macro, Micro, and Trace Elemental Profiles to Differentiate Commercial Single Vineyard Pinot noir Wines at a Sub-Regional Level
Cited by: 17
Author(s): Courtney K. Tanabe, Jenny Nelson, Roger B. Boulton, Susan E. Ebeler, Helene Hopfer
Software Mentions: 6
Published: about 6 years ago

10.1186/s40168-018-0507-3

Evaluation of bias induced by viral enrichment and random amplification protocols in metagenomic surveys of saliva DNA viruses
Cited by: 64
Author(s): Marcos Parras-Moltó, Ana Rodríguez-Galet, Patricia Suárez-Rodríguez, Alberto López-Bueno
Software Mentions: 6
Published: about 8 years ago

10.1038/s41396-021-00939-5

Competition between strains of Borrelia afzelii in the host tissues and consequences for transmission to ticks
Cited by: 7
Author(s): Dolores Genné, Marika Rossel, Anouk Sarr, Florian Battilotti, Olivier Rais, Ryan O. M. Rego, Maarten J. Voordouw
Software Mentions: 6
Published: over 5 years ago

10.1186/s40168-021-01144-4

Trophic level drives the host microbiome of soil invertebrates at a continental scale
Cited by: 14
Author(s): Dong Zhu, Manuel Delgado‐Baquerizo, Jing Ding, Michael R. Gillings, Yong‐Guan Zhu
Software Mentions: 6
Published: almost 5 years ago

10.1186/s12859-015-0856-x

3off2: A network reconstruction algorithm based on 2-point and 3-point information statistics
Cited by: 13
Author(s): Séverine Affeldt, Louis Verny, Hervé Isambert
Software Mentions: 6
Published: over 10 years ago

10.3390/v12101145

Unmapped RNA Virus Diversity in Termites and Their Symbionts
Cited by: 23
Author(s): Callum Le Lay, Mǎng Shī, Aleš Buček, Thomas Bourguignon, Nathan Lo, Edward C. Holmes
Software Mentions: 6
Published: over 5 years ago

10.1186/s12888-021-03331-x

Adolescent psychopathology and psychological wellbeing: a network analysis approach
Cited by: 12
Author(s): Stephanie Campbell, Tom L. Osborn
Software Mentions: 6
Published: about 5 years ago

10.3390/ijms22094531

Knockdown of the Ribosomal Protein eL38 in HEK293 Cells Changes the Translational Efficiency of Specific Genes
Cited by: 4
Author(s): Alexander V. Gopanenko, Alena V. Kolobova, Alexey E. Tupikin, Мarsel R. Kabilov, Alexey A. Malygin, Г. Г. Карпова
Software Mentions: 6
Published: about 5 years ago

10.1038/s41597-020-00731-8

CovidCounties is an interactive real time tracker of the COVID19 pandemic at the level of US counties
Cited by: 10
Author(s): Douglas Arneson, Matthew Elliott, Arman Mosenia, Boris Oskotsky, Samuel Solodar, Rohit Vashisht, Travis Zack, Paul A. Bleicher, Atul J. Butte, Vivek Rudrapatna
Software Mentions: 6
Published: over 5 years ago

10.3389/fpls.2019.01757

Natural Selection Towards Wild-Type in Composite Cross Populations of Winter Wheat
Cited by: 13
Author(s): Samuel Knapp, Thomas Döring, Hannah Jones, J. W. Snape, Luzie U. Wingen, Martin S. Wolfe, Michelle Leverington-Waite, Simon Griffiths
Software Mentions: 6
Published: over 6 years ago

10.1038/s41598-018-22488-2

Profiles of miRNA Isoforms and tRNA Fragments in Prostate Cancer
Cited by: 55
Author(s): Rogan Magee, Aristeidis G. Telonis, Phillipe Loher, Eric Londin, Isidore Rigoutsos
Software Mentions: 6
Published: over 8 years ago

10.1186/s13059-020-1942-6

A framework for transcriptome-wide association studies in breast cancer in diverse study populations
Cited by: 60
Author(s): Arjun Bhattacharya, Montserrat García‐Closas, Andrew F. Olshan, Charles M. Perou, Melissa A. Troester, Michael I. Love
Software Mentions: 6
Published: over 6 years ago