10.1111/eva.12659

Recent advances in conservation and population genomics data analysis
Cited by: 77
Author(s): Sarah A. Hendricks, Eric C. Anderson, Tiago Antão, Louis Bernatchez, Brenna R. Forester, Brittany A. Garner, Brian K. Hand, Paul A. Hohenlohe, Marty Kardos, Ben F. Koop, Arun Sethuraman, Robin S. Waples, Gordon Luikart
Software Mentions: 5
Published: almost 8 years ago

10.12688/f1000research.6536.1

A reanalysis of mouse ENCODE comparative gene expression data
Cited by: 90
Author(s): Yoav Gilad, Orna Mizrahi-Man
Software Mentions: 5
Published: about 11 years ago

10.1002/ece3.5449

Conversion of rainforest to oil palm and rubber plantations alters energy channels in soil food webs
Cited by: 21
Author(s): Winda Ika Susanti, Melanie M. Pollierer, Rahayu Widyastuti, Stefan Scheu, Anton Potapov
Software Mentions: 5
Published: almost 7 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

10.1002/ece3.5789

Comparative analysis of microbiota along the length of the gastrointestinal tract of two tree squirrel species ( <i>Sciurus aberti</i> and <i>S. niger</i> ) living in sympatry
Cited by: 5
Author(s): Andrew Joseph Reed, Jon C. Pigage, Helen K. Pigage, Cody Glickman, Jeremy M. Bono
Software Mentions: 5
Published: over 6 years ago

10.1371/journal.pone.0251213

Environmental impacts on single-cell variation within a ubiquitous diatom: The role of growth rate
Cited by: 5
Author(s): Elisabeth Groß, Maarten Boersma, Cédric L. Meunier
Software Mentions: 5
Published: about 5 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

10.1002/ece3.3697

Offspring of older parents are smaller—but no less bilaterally symmetrical—than offspring of younger parents in the aquatic plant<i>Lemna turionifera</i>
Cited by: 7
Author(s): Eric J. Ankutowicz, Robert A. Laird
Software Mentions: 5
Published: over 8 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

10.1371/journal.pcbi.1002104

Decelerating Spread of West Nile Virus by Percolation in a Heterogeneous Urban Landscape
Cited by: 16
Author(s): Krisztián Mágori, Waheed I. Bajwa, Sarah E. Bowden, John M. Drake
Software Mentions: 5
Published: almost 15 years ago

10.12688/f1000research.16301.2

Increasing workflow development speed and reproducibility with Vectools
Cited by: 0
Author(s): Tyler Weirick, Raphael Müller, Shizuka Uchida
Software Mentions: 5
Published: over 7 years ago

10.1186/s12859-018-2019-3

Closha: bioinformatics workflow system for the analysis of massive sequencing data
Cited by: 15
Author(s): Gun Hwan Ko, Pan Gyu Kim, Jong-Cheol Yoon, Gukhee Han, Seong-Jin Park, Wangho Song, Byung-Wook Lee
Software Mentions: 5
Published: over 8 years ago

10.1002/advs.201903392

Immune Modulation by Design: Using Topography to Control Human Monocyte Attachment and Macrophage Differentiation
Cited by: 85
Author(s): Matthew Vassey, Grazziela P. Figueredo, David J. Scurr, Aliaksei Vasilevich, Steven Vermeulen, Aurélie Carlier, Jeni Luckett, Nick R. M. Beijer, Paul Williams, David A. Winkler, Jan de Boer, Amir M. Ghaemmaghami, Morgan R. Alexander
Software Mentions: 5
Published: about 6 years ago

10.1186/s12864-018-4704-z

OMGene: mutual improvement of gene models through optimisation of evolutionary conservation
Cited by: 6
Author(s): Michael Dunne, Steven Kelly
Software Mentions: 5
Published: about 8 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

10.3389/fpsyg.2020.609647

Statistical Significance Filtering Overestimates Effects and Impedes Falsification: A Critique of Endsley (2019)
Cited by: 4
Author(s): Jonathan Z. Bakdash, Laura R. Marusich, Jared B. Kenworthy, Elyssa Twedt, Erin Zaroukian
Software Mentions: 5
Published: over 5 years ago

10.2196/25995

Isolating SARS-CoV-2 Strains From Countries in the Same Meridian: Genome Evolutionary Analysis
Cited by: 5
Author(s): Emilio Mastriani, Alexey V. Rakov, Shulin Liu
Software Mentions: 5
Published: over 5 years ago

10.3390/cancers11121891

MicroRNA-9-5p-CDX2 Axis: A Useful Prognostic Biomarker for Patients with Stage II/III Colorectal Cancer
Cited by: 9
Author(s): Aya Nishiuchi, Shigeo Hisamori, Morihiko Sakaguchi, Keita Fukuyama, Nobuaki Hoshino, Yoshiro Itatani, Shusaku Honma, Hirofumi Maekawa, Tatsuto Nishigori, Shigeru Tsunoda, Kazutaka Obama, Hiroyuki Miyoshi, Yohei Shimono, Makoto Mark Taketo, Yoshiharu Sakai
Software Mentions: 5
Published: over 6 years ago

10.1111/ele.12794

Less favourable climates constrain demographic strategies in plants
Cited by: 78
Author(s): Anna Mária Csergő, Roberto Salguero‐Gómez, Olivier Broennimann, Shaun R. Coutts, Antoine Guisan, Amy L. Angert, Erik Welk, Iain Stott, Brian J. Enquist, Brian J. McGill, Jens Christian Svenning, Cyrille Violle, Yvonne M. Buckley
Software Mentions: 5
Published: about 9 years ago

10.1186/1751-0473-4-5

Motmot, an open-source toolkit for realtime video acquisition and analysis
Cited by: 66
Author(s): Andrew Straw, Michael H. Dickinson
Software Mentions: 5
Published: almost 17 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

10.1186/1758-2946-4-38

chemf: A purely functional chemistry toolkit
Cited by: 6
Author(s): Stefan Höck, Rainer Riedl
Software Mentions: 5
Published: over 13 years ago

10.3389/fcell.2021.630355

Application of Immune Infiltration Signature and Machine Learning Model in the Differential Diagnosis and Prognosis of Bone-Related Malignancies
Cited by: 9
Author(s): Guoqi Li, Yi‐Kai Wang, Hao Zhou, Lin-Guang Jin, Chunyu Wang, Mugahed Abdullah Hasan Albahde, Yan Wu, Hengyuan Li, Wenkan Zhang, Binghao Li
Software Mentions: 5
Published: about 5 years ago

10.3897/zookeys.542.5975

Taxonomic revision of Afrotropical Laccophilus Leach, 1815 (Coleoptera, Dytiscidae)
Cited by: 10
Author(s): Olof Biström, Anders N. Nilsson, Johannes Bergsten
Software Mentions: 5
Published: over 10 years ago

10.1093/gigascience/giaa043

Antibiotic resistomes discovered in the gut microbiomes of Korean swine and cattle
Cited by: 27
Author(s): Suk-Kyung Lim, Dong‐Jun Kim, Dong Chan Moon, Youna Cho, Mina Rho
Software Mentions: 5
Published: about 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

10.1098/rsos.170102

Sensitivity of commercial pumpkin yield to potential decline among different groups of pollinating bees
Cited by: 20
Author(s): Sonja C. Pfister, Philipp W. Eckerter, Jens Schirmel, James Cresswell, Martin H. Entling
Software Mentions: 5
Published: about 9 years ago

10.1371/journal.pcbi.1007799

ScalaFlux: A scalable approach to quantify fluxes in metabolic subnetworks
Cited by: 12
Author(s): Pierre Millard, Uwe Schmitt, Patrick Kiefer, Julia A. Vorholt, Stéphanie Heux, Jean‐Charles Portais
Software Mentions: 5
Published: about 6 years ago

10.1016/j.celrep.2020.107691

Expression of RUNX1-ETO Rapidly Alters the Chromatin Landscape and Growth of Early Human Myeloid Precursor Cells
Cited by: 17
Author(s): Monica Nafria, Peter Keane, Elizabeth Ng, Edouard G. Stanley, Andrew G. Elefanty, Constanze Bonifer
Software Mentions: 5
Published: about 6 years ago

10.1111/pbi.13483

The genome of <i>Cleistogenes songorica</i> provides a blueprint for functional dissection of dimorphic flower differentiation and drought adaptability
Cited by: 18
Author(s): Jiyu Zhang, Fan Wu, Yan Qi, Ulrik P. John, Mingshu Cao, Pao Xu, Zhengshe Zhang, Tiantian Ma, Xifang Zong, Jie Li, Ruijuan Liu, Yufei Zhang, Yufeng Zhao, Gisele Kanzana, Yunyun Lv, Nan Zhang, Germán Spangenberg, Yanrong Wang
Software Mentions: 5
Published: over 5 years ago

10.3390/jcm9082341

Targeted Urine Metabolomics for Monitoring Renal Allograft Injury and Immunosuppression in Pediatric Patients
Cited by: 12
Author(s): Tara K. Sigdel, Andrew Schroeder, Joshua Yang, Reuben D. Sarwal, Juliane Liberto, Minnie M. Sarwal
Software Mentions: 5
Published: almost 6 years ago

10.3389/fmicb.2013.00291

FunGene: the functional gene pipeline and repository
Cited by: 451
Author(s): Jordan A. Fish, Benli Chai, Qiong Wang, Yanni Sun, C. Titus Brown, James M. Tiedje, James R. Cole
Software Mentions: 5
Published: over 13 years ago

10.1371/journal.pone.0172811

Longitudinal sampling of the lung microbiota in individuals with cystic fibrosis
Cited by: 61
Author(s): Fiona Whelan, Alya Heirali, Laura Rossi, Harvey Rabin, Michael D. Parkins, Michael G. Surette
Software Mentions: 5
Published: over 9 years ago

10.3389/frma.2021.644614

PubMed-Scale Chemical Concept Embeddings Reconstruct Physical Protein Interaction Networks
Cited by: 0
Author(s): Blaž Škrlj, Enja Kokalj, Nada Lavrač
Software Mentions: 5
Published: about 5 years ago

10.3390/plants9070833

Evaluation of Wild Potato Germplasm for Tuber Starch Content and Nitrogen Utilization Efficiency
Cited by: 6
Author(s): Silvia Bachmann-Pfabe, Klaus J. Dehmer
Software Mentions: 5
Published: about 6 years ago

10.1093/gigascience/giaa097

Machado: Open source genomics data integration framework
Cited by: 3
Author(s): Maurício de Alvarenga Mudadu, Adhemar Zerlotini
Software Mentions: 5
Published: almost 6 years ago

10.7717/peerj.8871

Data-driven classification of the certainty of scholarly assertions
Cited by: 4
Author(s): Mario Prieto, Helena F. Deus, Anita de Waard, Erik Schultes, Beatriz García-Jiménez, Mark D. Wilkinson
Software Mentions: 5
Published: about 6 years ago

10.1093/gigascience/giz066

PPR-Meta: a tool for identifying phages and plasmids from metagenomic fragments using deep learning
Cited by: 102
Author(s): Zhencheng Fang, Jie Tan, Shu‐Fang Vivienne Wu, Mo Li, Congmin Xu, Zheng Xie, Huaiqiu Zhu
Software Mentions: 5
Published: about 7 years ago

10.3390/ani9060351

Large Terrestrial Bird Adapting Behavior in an Urbanized Zone
Cited by: 2
Author(s): Eduardo Roberto Alexandrino, Juliano André Bogoni, Ana Beatriz Navarro, Alex Augusto Abreu Bovo, Rafael M. Gonçalves, Jacob Daniel Charters, Juan Andrea de Domini, Kátia Maria Paschoaletto Micchi de Barros Ferraz
Software Mentions: 5
Published: about 7 years ago

10.1371/journal.pone.0244339

The effects of the sex chromosomes on the inheritance of species-specific traits of the copulatory organ shape in Drosophila virilis and Drosophila lummei
Cited by: 1
Author(s): А. М. Куликов, S. Yu. Sorokina, А. И. Мельников, Н. Г. Горностаев, Dmitriy G. Seleznev, O. E. Lazebny
Software Mentions: 5
Published: over 5 years ago

10.1186/s40168-017-0365-4

Morphological and genetic factors shape the microbiome of a seabird species (Oceanodroma leucorhoa) more than environmental and social factors
Cited by: 57
Author(s): Douglas S. Pearce, Brian A. Hoover, Sarah L. Jennings, Gabrielle A. Nevitt, Kathryn M. Docherty
Software Mentions: 5
Published: over 8 years ago

10.3897/zookeys.755.23939

A revision of the cleptoparasitic bee genus Epeolus Latreille for Nearctic species, north of Mexico (Hymenoptera, Apidae)
Cited by: 24
Author(s): Thomas M. Onuferko
Software Mentions: 5
Published: about 8 years ago

10.3390/cancers11010041

Epilepsy Associates with Decreased HIF-1α/STAT5b Signaling in Glioblastoma
Cited by: 11
Author(s): Sharon Berendsen, Wim G.M. Spliet, Marjolein Geurts, Wim Van Hecke, Tatjana Seute, Tom J. Snijders, Vincent Bours, Erica H. Bell, Arnab Chakravarti, Pierre A. Robe
Software Mentions: 5
Published: over 7 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

10.1186/s12862-017-0939-6

Fitness costs of symbiont switching using entomopathogenic nematodes as a model
Cited by: 23
Author(s): Jeffery S. McMullen, Brittany F. Peterson, Steven Forst, Heidi Goodrich-Blair, S. Patricia Stock
Software Mentions: 5
Published: about 9 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/fmicb.2021.655567

Molecular Evolution of Human Norovirus GII.2 Clusters
Cited by: 7
Author(s): Xingguang Li, Haizhou Liu, Brittany Rife Magalis, Sergei L. Kosakovsky Pond, Erik Volz
Software Mentions: 5
Published: over 5 years ago

10.1186/2197-425X-2-10

Reliability of the nitrogen washin-washout technique to assess end-expiratory lung volume at variable PEEP and tidal volumes
Cited by: 10
Author(s): Jean-Christophe Richard, Céline Pouzot, Alfredo Pinzón, J. S. Torres González, Maciej Orkisz, B. Neyran, Marcela Hernández Hoyos, F. Lávenne, Claude Guérin
Software Mentions: 5
Published: over 12 years ago

10.1371/journal.pone.0224882

Trait self-control does not predict attentional control: Evidence from a novel attention capture paradigm
Cited by: 2
Author(s): Michael Dieciuc, Heather M. Maranges, Walter R. Boot
Software Mentions: 5
Published: over 6 years ago

10.1186/1756-0500-4-171

CloudAligner: A fast and full-featured MapReduce based tool for sequence mapping
Cited by: 101
Author(s): Tung Nguyen, Wei Shi, Douglas M. Ruden
Software Mentions: 5
Published: about 15 years ago

10.3389/fvets.2021.699352

The Impact of Socioeconomic Factors on Knowledge, Attitudes, and Practices of Dog Owners on Dog Rabies Control in Thailand
Cited by: 6
Author(s): Sith Premashthira, Sarin Suwanpakdee, Weerapong Thanapongtharm, Onpawee Sagarasaeranee, Weerakorn Thichumpa, Chayanin Sararat, Anuwat Wiratsudakul
Software Mentions: 5
Published: almost 5 years ago

10.7717/peerj.11580

Detection of genomic regions associated malformations in newborn piglets: a machine-learning approach
Cited by: 0
Author(s): Siroj Bakoev, Aleksei Traspov, Lyubov Getmantseva, А. А. Белоус, Т. В. Карпушкина, Olga Kostyunina, А. В. Усатов, Tatiana V. Tatarinova
Software Mentions: 5
Published: almost 5 years ago

10.1371/journal.pone.0254514

Reaching to inhibit a prepotent response: A wearable 3-axis accelerometer kinematic analysis
Cited by: 2
Author(s): Alessia Angeli, Irene Valori, Teresa Farroni, Gustavo Marfia
Software Mentions: 5
Published: almost 5 years ago

10.3390/genes12010048

Probably Correct: Rescuing Repeats with Short and Long Reads
Cited by: 3
Author(s): Monika Čechová
Software Mentions: 5
Published: over 5 years ago

10.1371/journal.pone.0252157

The disproportion of crowd wisdom: The impact of status seeking on Yelp reviews
Cited by: 7
Author(s): Chao Yu, Drew Margolin
Software Mentions: 5
Published: about 5 years ago

10.3389/fmicb.2019.02118

Defining the Distinct Skin and Gut Microbiomes of the Northern Pike (Esox lucius)
Cited by: 20
Author(s): Elizabeth M. Reinhart, Benjamin J. Korry, Aislinn D. Rowan-Nash, Peter Belenky
Software Mentions: 5
Published: almost 7 years ago

10.3390/healthcare9091210

Inter-Professional Collaboration and Occupational Well-Being of Physicians Who Work in Adverse Working Conditions
Cited by: 3
Author(s): Antonio Viruez-Soto, Roberto C. Delgado Bolton, Montserrat San-Martín, Luís Vivanco
Software Mentions: 5
Published: almost 5 years ago

10.3389/fpsyg.2017.01466

Psychometric Properties of a Multidimensional Scale of Sense of Community in the School
Cited by: 22
Author(s): Gabriele Prati, Elvira Cicognani, Cinzia Albanesi
Software Mentions: 5
Published: almost 9 years ago

10.3390/cells9102283

Gut Microbiome Changes in Patients with Active Left-Sided Ulcerative Colitis after Fecal Microbiome Transplantation and Topical 5-aminosalicylic Acid Therapy
Cited by: 34
Author(s): Dagmar Schierová, Jan Březina, Jakub Mrázek, K. Fliegerová, Simona Kvasnová, Lukáš Bajer, Pavel Drastich
Software Mentions: 5
Published: over 5 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

10.7554/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

10.1038/leu.2017.179

Prediction of outcome in newly diagnosed myeloma: a meta-analysis of the molecular profiles of 1905 trial patients
Cited by: 164
Author(s): Vallari Shah, Amy L. Sherborne, Brian A. Walker, David C. Johnson, Eileen M. Boyle, Sidra Ellis, Dil Begum, Paula Proszek, J. Jones, Charlotte Pawlyn, Suvi Savola, Matthew Jenner, Mark T. Drayson, Roger G. Owen, Richard S. Houlston, David A. Cairns, Walter M. Gregory, Gordon Cook, Faith E. Davies, Graham Jackson, Gareth J. Morgan, Martin Kaiser
Software Mentions: 5
Published: about 9 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

10.5195/jmla.2020.836

What we talk about when we talk about medical librarianship: an analysis of Medical Library Association annual meeting abstracts, 2001-2019.
Cited by: 4
Author(s): Bethany Myers
Software Mentions: 5
Published: about 6 years ago

10.18632/aging.103399

Changes of saliva microbiota in the onset and after the treatment of diabetes in patients with periodontitis
Cited by: 27
Author(s): Yang Ying, Shili Liu, Yihua Wang, Zhibin Wang, Wei Ding, Xiaoyuan Sun, Kunlun He, Qiang Feng, Xiandang Zhang
Software Mentions: 5
Published: about 6 years ago

10.1111/pbi.13115

Genome‐wide selection footprints and deleterious variations in young Asian allotetraploid rapeseed
Cited by: 48
Author(s): Jun Zou, Limin Mao, Jie Qiu, Meng Wang, Jia Lu, Dongya Wu, Zhesi He, Meihong Chen, Yifei Shen, Enhui Shen, Yongji Huang, Ruiyuan Li, Dandan Hu, Lei Shi, Kai Wang, Qian Zhu, Chu-Yu Ye, Ian Bancroft, Graham J. King, Jinling Meng
Software Mentions: 5
Published: about 7 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

10.1128/mBio.00311-19

Gut Microbiota and Phytoestrogen-Associated Infertility in Southern White Rhinoceros
Cited by: 32
Author(s): Candace L. Williams, Alexis R. Ybarra, Ashley N. Meredith, Barbara S. Durrant, Christopher W. Tubbs
Software Mentions: 5
Published: about 7 years ago

10.1098/rspb.2016.1587

Evolutionary heritage influences Amazon tree ecology
Cited by: 44
Author(s): Fernanda Coelho de Souza, Kyle G. Dexter, Oliver L. Phillips, Roel Brienen, Jérôme Chave, David Galbraith, Gabriela Lopez‐Gonzalez, Abel Monteagudo Mendoza, R. Toby Pennington, Lourens Poorter, Miguel Alexiades, Esteban Álvarez-Dávila, Ana Andrade, L. E. O. C. Aragão, Alejandro Araujo‐Murakami, E.J.M.M. Arets, Gerardo A. Aymard C, Christopher Baraloto, Jorcely Barroso, Damien Bonal, René Boot, José L. Camargo, J. A. Comiskey, Fernando Cornejo Valverde, Plínio Barbosa de Camargo, Anthony Di Fiore, Fernando Elias, Terry L. Erwin, Ted R. Feldpausch, Leandro Valle Ferreira, Nikolaos M. Fyllas, Emanuel Gloor, Bruno Hérault, R. Herrera, Níro Higuchi, Eurídice N. Honorio Coronado, Timothy J. Killeen, William F. Laurance, Susan G. Laurance, J. Lloyd, Thomas Ε. Lovejoy, Yadvinder Malhi, Leandro Maracahipes, Beatriz Schwantes Marimon, Casimiro Mendoza, Paulo S. Morandi, David Neill, Percy Núñez Vargas, Edmar Almeida de Oliveira, Eddie Lenza, Walter A. Palacios, M. C. Peñuela, John J. Pipoly, Nigel C. A. Pitman, Adriana Prieto, Carlos Alberto Quesada, Hirma Ramírez‐Angulo, Agustín Rudas, Kalle Ruokolainen, Rafael de Paiva Salomão, Marcos Silveira, Juliana Stropp, Hans ter Steege, Raquel Thomas-Caesar, P. van der Hout, Geertje M. F. van der Heijden, P.J. van der Meer, Rodolfo Vásquez, Simone A. Vieira, Emilio Vilanova Torre, Vincent Vos, Ophelia Wang, Kenneth R. Young, Roderick Zagt, Timothy R. Baker
Software Mentions: 5
Published: over 9 years ago

10.1371/journal.pone.0185376

Cellular heterogeneity contributes to subtype-specific expression of ZEB1 in human glioblastoma
Cited by: 10
Author(s): Philipp Euskirchen, Josefine Radke, Marc Soeren Schmidt, Eva Schulze Heuling, Eric Kadikowski, Meron Maricos, Felix Knab, Ulrike Grittner, Norman Zerbe, Marcus Czabanka, Christoph Dieterich, Hrvoje Miletić, Sverre Mørk, Arend Koch, Matthias Endres, Christoph Harms
Software Mentions: 5
Published: almost 9 years ago

10.1186/s13104-019-4210-7

Development and use of a flexible data harmonization platform to facilitate the harmonization of individual patient data for meta-analyses
Cited by: 11
Author(s): Joeri Kalter, Maike G. Sweegers, Irma M. Verdonck‐de Leeuw, Johannes Brug, Laurien M. Buffart
Software Mentions: 5
Published: over 7 years ago

10.1371/journal.pone.0105043

Phylobetadiversity among Forest Types in the Brazilian Atlantic Forest Complex
Cited by: 56
Author(s): Leandro da Silva Duarte, Rodrigo Scarton Bergamin, Vinícius Marcilio-Silva, Guilherme Dubal dos Santos Seger, Márcia C. M. Marques
Software Mentions: 5
Published: almost 12 years ago

10.1038/s41422-018-0099-2

The adult human testis transcriptional cell atlas
Cited by: 381
Author(s): Jingtao Guo, Edward J. Grow, Hana Mlčochová, Geoffrey J. Maher, Cecilia Lindskog, Xiaolu Nie, Yixuan Guo, Yodai Takei, Jina Yun, Long Cai, Robin Kim, Douglas T. Carrell, Anne Goriely, James M. Hotaling, Bradley R. Cairns
Software Mentions: 5
Published: over 7 years ago

10.1186/1471-2164-15-S7-S4

SNPs selection using support vector regression and genetic algorithms in GWAS
Cited by: 11
Author(s): Fabrízzio Condé de Oliveira, Carlos Cristiano Hasenclever Borges, Fernanda Nascimento Almeida, Fabyano Fonseca e Silva, Rui da Silva Verneque, Marcos Vinícius Gualberto Barbosa da Silva, Wagner Arbex
Software Mentions: 5
Published: almost 12 years ago

10.1111/imb.12513

Integrative transcriptomic and genomic analysis of odorant binding proteins and chemosensory proteins in aphids
Cited by: 45
Author(s): Q. Wang, Jing‐Jiang Zhou, J.-T. Liu, Huang Guixiu, Weina Xu, Qiaoqin Zhang, J.-L. Chen, Fengquan Liu, X.-C. Li, Siyi Gu
Software Mentions: 5
Published: almost 8 years ago

10.1371/journal.pone.0128692

Social Media Fingerprints of Unemployment
Cited by: 111
Author(s): Alejandro Llorente, Manuel García-Herranz, Manuel Cebrián, Esteban Moro
Software Mentions: 5
Published: about 11 years ago

10.1242/dev.174557

Lgr5+ stem/progenitor cells reside at the apex of a heterogeneous embryonic hepatoblast pool
Cited by: 46
Author(s): Nicole Prior, Christopher J. Hindley, Fabian Rost, Elena Meléndez, Winnie Lau, Berthold Göttgens, Steffen Rulands, Benjamin D. Simons, Meritxell Huch
Software Mentions: 5
Published: over 7 years ago

10.1186/s13073-014-0064-8

The `dnet’ approach promotes emerging research on cancer patient survival
Cited by: 41
Author(s): Hai Fang, Julian Gough
Software Mentions: 5
Published: almost 12 years ago

10.1016/j.mex.2020.100820

A statistical and numerical modeling approach for spatiotemporal reconstruction of glaciations in the Central Asian mountains
Cited by: 1
Author(s): Sourav Saha, Lewis A. Owen, Elizabeth N. Orr, Marc W. Caffee
Software Mentions: 5
Published: over 6 years ago

10.1002/wrna.1649

Evolutionary conservation of <scp>RNA</scp> sequence and structure
Cited by: 22
Author(s): Elena Rivas
Software Mentions: 5
Published: over 5 years ago

10.1038/s41598-018-34043-0

Haze smoke impacts survival and development of butterflies
Cited by: 19
Author(s): Ying Chuan Tan, Emilie Dion, Antόnia Monteiro
Software Mentions: 5
Published: over 7 years ago

10.1016/j.cell.2021.04.039

Microbial exposure during early human development primes fetal immune cells
Cited by: 124
Author(s): A. N. Mishra, Ghee Chuan Lai, Jing Yao Leong, Thet Tun Aung, Noam Shental, Aviva Rotter-Maskowitz, Edwin Shepherdson, Gurmit Singh Naranjan Singh, Rhea Pai, Adhika Shanti, Richard L. Wong, Andrea Lee, Costerwell Khyriem, Charles Antoine Dutertre, Svetoslav Chakarov, Kandhadayar G. Srinivasan, Nurhidaya Binte Shadan, Xiao Meng Zhang, Shabnam Khalilnezhad, Fabien Cottier, Alrina Shin Min Tan, Gillian Low, Phyllis Chen, Yiping Fan, Pei Xiang Hor, Avery Khoo May Lee, Mahesh Choolani, David Vermijlen, Ankur Sharma, Garold Fuks, Ravid Straussman, Norman Pavelka, Benoît Malleret, Naomi McGovern, Salvatore Albani, Jerry Kok Yen Chan, Florent Ginhoux
Software Mentions: 5
Published: about 5 years ago

10.1371/journal.pone.0216588

Meta-analyses of positive psychology interventions: The effects are much smaller than previously reported
Cited by: 96
Author(s): Carmela A. White, Bob Uttl, Mark D. Holder
Software Mentions: 5
Published: about 7 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

10.1038/s41598-017-14768-0

Genome-wide analysis reveals differential selection involved with copy number variation in diverse Chinese Cattle
Cited by: 17
Author(s): Yang Liu, Lingyang Xu, Bo Zhu, Hong Niu, Wengang Zhang, Jianyin Miao, Xiaowen Shi, Ming Zhang, Yan Chen, Lupei Zhang, Xue Gao, Huijiang Gao, Li Li, George E. Liu, Junya Li
Software Mentions: 5
Published: over 8 years ago

10.1186/s12859-015-0590-4

Software for the analysis and visualization of deep mutational scanning data
Cited by: 101
Author(s): Jesse D. Bloom
Software Mentions: 5
Published: about 11 years ago

10.7554/eLife.51179

Structure of a mitochondrial ATP synthase with bound native cardiolipin
Cited by: 65
Author(s): A. Muhleip, Sarah McComas, Alexey Amunts
Software Mentions: 5
Published: over 6 years ago

10.1186/s12896-019-0535-5

VARSCOT: variant-aware detection and scoring enables sensitive and personalized off-target detection for CRISPR-Cas9
Cited by: 6
Author(s): Laurence O.W. Wilson, Sara Hetzel, Christopher Pockrandt, Knut Reinert, Denis C. Bauer
Software Mentions: 5
Published: about 7 years ago

10.1099/mgen.0.000500

Identifying novel β-lactamase substrate activity through in silico prediction of antimicrobial resistance
Cited by: 7
Author(s): Kara K. Tsang, Finlay Maguire, Haley L. Zubyk, Sommer Chou, Arman Edalatmand, Gerard D. Wright, Robert G. Beiko, Andrew G. McArthur
Software Mentions: 5
Published: over 5 years ago

10.1016/j.devcel.2021.07.019

Genetically variant human pluripotent stem cells selectively eliminate wild-type counterparts through YAP-mediated cell competition
Cited by: 25
Author(s): Christopher J. Price, Dylan Stavish, Paul J. Gokhale, Ben A. Stevenson, Samantha Sargeant, Joanne Lacey, Tristan A. Rodríguez, Ivana Barbaric
Software Mentions: 5
Published: almost 5 years ago

10.1371/journal.pone.0252457

Lack of parent-of-origin effects in Nasonia jewel wasp: A replication and extension study
Cited by: 1
Author(s): Kimberly C. Olney, Joshua D. Gibson, Heini M. Natri, Avery Underwood, Juergen Gadau, Melissa A. Wilson
Software Mentions: 5
Published: about 5 years ago

10.1371/journal.pone.0183057

Data-driven coarse graining of large biomolecular structures
Cited by: 11
Author(s): Yi‐Ling Chen, Michael Habeck
Software Mentions: 5
Published: almost 9 years ago

10.1371/journal.pcbi.1004842

Efficient Coalescent Simulation and Genealogical Analysis for Large Sample Sizes
Cited by: 522
Author(s): Jerome Kelleher, Alison Etheridge, Gil McVean
Software Mentions: 5
Published: about 10 years ago

10.1186/s12711-020-00592-0

A systems biology framework integrating GWAS and RNA-seq to shed light on the molecular basis of sperm quality in swine
Cited by: 22
Author(s): Marta Gòdia, Antônio Reverter, Rayner González-Prendes, Yuliaxis Ramayo-Caldas, Anna Castelló, Joan E. Rodríguez-Gil, Armand Sánchez, Alex Clop
Software Mentions: 5
Published: over 5 years ago

10.7554/eLife.69068

Reconciling functional differences in populations of neurons recorded with two-photon imaging and electrophysiology
Cited by: 26
Author(s): Joshua H. Siegle, Peter Ledochowitsch, Xiaoxuan Jia, Daniel Millman, Gabriel Koch Ocker, Shiella Caldejon, Linzy Casal, Andy Cho, Daniel J. Denman, Séverine Durand, Peter A. Groblewski, Gregg Heller, India Kato, Sara Kivikas, Jérôme Lecoq, Chelsea Nayan, Kiet Ngo, Philip R. Nicovich, Kat North, Tamina K Ramirez, Jackie Swapp, Xana Waughman, Ali Williford, Shawn R. Olsen, Christof Koch, Michael A. Buice, Saskia E. J. de Vries
Software Mentions: 5
Published: almost 5 years ago

10.1093/hmg/ddz043

PAX7 target gene repression is a superior FSHD biomarker than DUX4 target gene activation, associating with pathological severity and identifying FSHD at the single-cell level
Cited by: 39
Author(s): Christopher R. S. Banerji, Peter S. Zammit
Software Mentions: 5
Published: over 7 years ago

10.1186/s13059-018-1403-7

ROP: dumpster diving in RNA-sequencing to find the source of 1 trillion reads across diverse adult human tissues
Cited by: 37
Author(s): Serghei Mangul, Harry Taegyun Yang, Nicolas Strauli, Franziska Gruhl, Hagit T. Porath, Kevin Hsieh, Linus Chen, Timothy Daley, S. Christenson, Agata Wesolowska-Andersen, Roberto Spreafico, Cydney Rios, Celeste Eng, Andrew D. Smith, Ryan D. Hernández, Roel A. Ophoff, Jose Rodriguez Santana, Erez Y. Levanon, Prescott G. Woodruff, Esteban G. Burchard, Max A. Seibold, Sagiv Shifman, Eleazar Eskin, Noah Zaitlen
Software Mentions: 5
Published: over 8 years ago

10.1186/s12885-021-08015-z

Establishment of a typing model for diffuse large B-cell lymphoma based on B-cell receptor repertoire sequencing
Cited by: 1
Author(s): Wenhua Jiang, Hailong Wang, Shunhua Zhou, Guoqing Zhu, Mingyou Gao, Kuo Zhao, Limeng Zhang, Xiaojing Xie, Ning Zhao, Caijuan Tian, Zhenzhen Zhang, Fang Yan, Yi Pan, Pengfei Liu
Software Mentions: 5
Published: over 5 years ago

10.1128/AEM.03074-15

Novel Rhizosphere Soil Alleles for the Enzyme 1-Aminocyclopropane-1-Carboxylate Deaminase Queried for Function with an <i>In Vivo</i> Competition Assay
Cited by: 13
Author(s): Zhao Jin, Sara C. Di Rienzi, Anders Janzon, Jeff J. Werner, Largus T. Angenent, Jeffrey L. Dangl, Douglas M. Fowler, Ruth E. Ley
Software Mentions: 5
Published: over 10 years ago

10.1186/s13059-019-1860-7

CRUP: a comprehensive framework to predict condition-specific regulatory units
Cited by: 26
Author(s): Anna Ramisch, Verena Heinrich, Laura V. Glaser, Alisa Fuchs, Xinyi Yang, Philipp Benner, Robert Schöpflin, Na Li, Sarah Kinkley, Anja Römer-Hillmann, John Longinotto, Steffen Heyne, Beate Czepukojc, Sonja M. Kessler, Alexandra K. Kiemer, Cristina Cadenas, Laura Arrigoni, Nina Gasparoni, Thomas Manke, Thomas Pap, J. Andrew Pospisilik, Jan G. Hengstler, Jörn Walter, Sebastiaan H. Meijsing, Ho‐Ryun Chung, Martin Vingron
Software Mentions: 5
Published: over 6 years ago