10.1038/s41388-021-01876-5

The FLI portion of EWS/FLI contributes a transcriptional regulatory function that is distinct and separable from its DNA-binding function in Ewing sarcoma
Cited by: 12
Author(s): Megann A. Boone, Cenny Taslim, Julie Crow, Julia Selich‐Anderson, Andrea K. Byrum, Iftekhar A. Showpnil, Benjamin D. Sunkel, Meng Wang, Benjamin Z. Stanton, Emily R. Theisen, Stephen L. Lessnick
Software Mentions: 7
Published: about 5 years ago

10.1186/s12864-021-07721-z

Characterizing the properties of bisulfite sequencing data: maximizing power and sensitivity to identify between-group differences in DNA methylation
Cited by: 10
Author(s): Dorothea Seiler Vellame, Isabel Castanho, Aisha Dahir, Jonathan Mill, Eilís Hannon
Software Mentions: 7
Published: about 5 years ago

10.3389/fcell.2021.624053

“All-In-One” Genetic Tool Assessing Endometrial Receptivity for Personalized Screening of Female Sex Steroid Hormones
Cited by: 7
Author(s): Pavel Deryabin, А. П. Домнина, Inga V. Gorelova, M. V. Rulev, М. А. Petrosyan, Nikolay Nikolsky, Aleksandra Borodkina
Software Mentions: 7
Published: over 5 years ago

10.1038/s41598-021-93922-1

Life experience rather than domestication accounts for dogs’ increased oxytocin release during social contact with humans
Cited by: 19
Author(s): Gwendolyn Wirobski, Friederike Range, Franka Simea Schaebs, Rüpert Palme, Tobias Deschner, Sarah Marshall-Pescini
Software Mentions: 7
Published: almost 5 years ago

10.5811/westjem.2021.3.50116

Emergency Department-initiated High-flow Nasal Cannula for COVID-19 Respiratory Distress
Cited by: 7
Author(s): Zachary J. Jarou, David G. Beiser, Willard W. Sharp, Ravi Ravi Chacko, Deirdre Goode, Daniel Rubin, Dinesh J. Kurian, Allison Dalton, Stephen Estime, Michael O’Connor, Bhakti Patel, John P. Kress, Thomas Spiegel
Software Mentions: 7
Published: almost 5 years ago

10.26508/lsa.202000897

Tissue-selective alternate promoters guide NLRP6 expression
Cited by: 1
Author(s): Nathan A. Bracey, Jaye M. Platnich, Arthur Lau, Hyunsoo Chung, M. Eric Hyndman, Justin A. MacDonald, Justin Chun, Paul L. Beck, Stephen E. Girardin, Paul M. Gordon, Daniel A. Muruve
Software Mentions: 7
Published: over 5 years ago

10.3390/ani10122431

Associations between Owners’ Reports of Unwanted Ridden Behaviour and In-Hand Behaviour in Horses
Cited by: 4
Author(s): Nicole Romness, Kate Fenner, Jessica McKenzie, Ashley Anzulewicz, Bibiana Burattini, Bethany Wilson, Paul D. McGreevy
Software Mentions: 7
Published: over 5 years ago

10.1371/journal.ppat.1005438

Transcriptome-Wide Analysis of Hepatitis B Virus-Mediated Changes to Normal Hepatocyte Gene Expression
Cited by: 42
Author(s): Jason Lamontagne, Joshua Chang Mell, Michael J. Bouchard
Software Mentions: 7
Published: over 10 years ago

10.1186/s12891-020-03889-9

High blood pressure and overweight in children with Legg-Calvé-Perthes disease: a nationwide population-based cohort study
Cited by: 6
Author(s): Gabriella B. Mörlin, Yasmin D. Hailer
Software Mentions: 7
Published: over 5 years ago

10.1371/journal.ppat.1006767

Comparative transcriptome profiling of virulent and non-virulent Trypanosoma cruzi underlines the role of surface proteins during infection
Cited by: 50
Author(s): Ashton T. Belew, Caroline Junqueira, Gabriela F. Rodrigues-Luiz, Bruna M. Valente, Antônio Edson Rocha Oliveira, Rafael B. Polidoro, Luciana W. Zuccherato, Daniella Castanheira Bartholomeu, Sérgio Schenkman, Ricardo T. Gazzinelli, Barbara A. Burleigh, Najib M. El-Sayed, Santuza Maria Ribeiro Teixeira
Software Mentions: 7
Published: over 8 years ago

10.3389/fpls.2019.01099

Alder Distribution and Expansion Across a Tundra Hillslope: Implications for Local N Cycling
Cited by: 32
Author(s): V. G. Salmon, A. L. Breen, Jitendra Kumar, Mark J. Lara, P. E. Thornton, Stan D. Wullschleger, Colleen M. Iversen
Software Mentions: 7
Published: over 6 years ago

10.3390/e23060657

Variational Quantum Chemistry Programs in JaqalPaq
Cited by: 2
Author(s): Oliver G. Maupin, Andrew David Baczewski, Peter J. Love, Andrew J. Landahl
Software Mentions: 7
Published: about 5 years ago

10.3389/fphar.2020.586345

Antimicrobial Activity of Necklace Orchids is Phylogenetically Clustered and can be Predicted With a Biological Response Method
Cited by: 5
Author(s): Richa Kusuma Wati, Esmée F. de Graaf, Diego Bogarín, Reinout Heijungs, Rogier van Vugt, Erik Smets, Barbara Gravendeel
Software Mentions: 7
Published: over 5 years ago

10.1038/s41598-020-79370-3

Seagrasses provide a novel ecosystem service by trapping marine plastics
Cited by: 69
Author(s): Anna Sánchez-Vidal, Miquel Canals, William P. de Haan, Javier Romero, Marta Veny
Software Mentions: 7
Published: over 5 years ago

10.3390/proteomes7040032

In Silico Identification of Antimicrobial Peptides in the Proteomes of Goat and Sheep Milk and Feta Cheese
Cited by: 11
Author(s): Marios Tomazou, Anastasis Oulas, Athanasios K. Anagnostopoulos, George Th. Tsangaris, George M. Spyrou
Software Mentions: 7
Published: almost 7 years ago

10.7150/jca.53831

Development and Validation of an Immune-Related Long Non-coding RNA Prognostic Model in Glioma
Cited by: 5
Author(s): Xiaowei Qiu, Yuan Tian, Jingnan Xu, Xin Jiang, Zeyu Liu, Xuewei Qi, Xin Chang, Jianxin Zhao, Jinchang Huang
Software Mentions: 7
Published: over 5 years ago

10.1371/journal.pone.0185380

Recapitulation of Ayurveda constitution types by machine learning of phenotypic traits
Cited by: 24
Author(s): Prabhat Tiwari, Rintu Kutum, Tavpritesh Sethi, Ankita Shrivastava, Bhushan Girase, Shilpi Aggarwal, Rutuja Patil, Dhiraj Agarwal, Pramod Gautam, Anurag Agrawal, Debasis Dash, Saurabh Ghosh, Sanjay Juvekar, Mitali Mukerji, Bhavana Prasher
Software Mentions: 7
Published: over 8 years ago

10.3389/fgene.2021.744113

Identification and Validation of Hypoxia-Related lncRNA Signature as a Prognostic Model for Hepatocellular Carcinoma
Cited by: 8
Author(s): Chengke Zhou, Huajun Zhang, Liqing Lu
Software Mentions: 7
Published: over 4 years ago

10.1093/bioinformatics/btab088

multiclassPairs: an R package to train multiclass pair-based classifier
Cited by: 6
Author(s): Nour Al Dain Marzouka, Pontus Eriksson
Software Mentions: 7
Published: over 5 years ago

10.3390/cancers13092102

Integration of Urinary EN2 Protein & Cell-Free RNA Data in the Development of a Multivariable Risk Model for the Detection of Prostate Cancer Prior to Biopsy
Cited by: 4
Author(s): Shea P. Connell, Robert Mills, Hardev Pandha, Richard Morgan, Christopher S. Cooper, Jeremy Clark, Daniel Brewer
Software Mentions: 7
Published: about 5 years ago

10.1002/ece3.4460

Breath rate of passerines across an urbanization gradient supports the pace-of-life hypothesis and suggests diet-mediated responses to handling stress
Cited by: 6
Author(s): Dan Liang, Chao He, Xu Luo, Yang Liu, Eben Goodale, Emilio Pagani‐Núñez
Software Mentions: 7
Published: almost 8 years ago

10.3389/fonc.2020.608334

Nomogram for Predicting Lymph Node Involvement in Triple-Negative Breast Cancer
Cited by: 18
Author(s): Xiang Cui, Hongxia Zhu, Jiefu Huang
Software Mentions: 7
Published: over 5 years ago

10.1371/journal.pone.0230767

The design and implementation of restraint devices for the injection of pathogenic microorganisms into Galleria mellonella
Cited by: 8
Author(s): Lance R. Fredericks, Mark D. Lee, Cooper R. Roslund, Angela Crabtree, Peter B. Allen, Paul A. Rowley
Software Mentions: 7
Published: almost 6 years ago

10.1186/s12967-019-1909-0

ALS blood expression profiling identifies new biomarkers, patient subgroups, and evidence for neutrophilia and hypoxia
Cited by: 38
Author(s): William R. Swindell, Colin Kruse, Edward O. List, Darlene E. Berryman, John J. Kopchick
Software Mentions: 7
Published: about 7 years ago

10.1002/ece3.4835

Pollinator size and its consequences: Robust estimates of body size in pollinating insects
Cited by: 61
Author(s): Liam K. Kendall, Romina Rader, Vesna Gagić, Daniel P. Cariveau, Matthias Albrecht, Katherine C. R. Baldock, Breno Magalhães Freitas, Mark Hall, Andrea Holzschuh, Francisco P. Molina, Joanne M. Morten, Janaely J.S. Pereira, Zachary M. Portman, Stuart P. M. Roberts, Juanita Rodríguez, Laura Russo, Louis Sutter, Nicolas Vereecken, Ignasi Bartomeus
Software Mentions: 7
Published: over 7 years ago

10.1186/s12967-021-02936-w

TPM, FPKM, or Normalized Counts? A Comparative Study of Quantification Measures for the Analysis of RNA-seq Data from the NCI Patient-Derived Models Repository
Cited by: 114
Author(s): Yingdong Zhao, Ming-Chung Li, Mariam M. Konaté, Li Chen, Biswajit Das, Chris Karlovich, P. Mickey Williams, Yvonne A. Evrard, James H. Doroshow, Lisa M. McShane
Software Mentions: 7
Published: about 5 years ago

10.1371/journal.pbio.2004108

Rapid environmental effects on gut nematode susceptibility in rewilded mice
Cited by: 94
Author(s): Jacqueline M. Leung, Sarah A. Budischak, Hao Chung The, Christina Hansen, Rowann Bowcutt, Rebecca Neill, Mitchell Shellman, P’ng Loke, Andrea L. Graham
Software Mentions: 7
Published: over 8 years ago

10.1038/s41598-019-53843-6

Monocytes affect bone mineral density in pre- and postmenopausal women through ribonucleoprotein complex biogenesis by integrative bioinformatics analysis
Cited by: 8
Author(s): Kang-Wen Xiao, Jiali Li, Zhao-Yi Zeng, Zhibo Liu, Zhiqiang Hou, Xin Yan, Lin Cai
Software Mentions: 7
Published: over 6 years ago

10.1038/s41598-017-16353-x

The microbiomes of blowflies and houseflies as bacterial transmission reservoirs
Cited by: 85
Author(s): Ana Carolina M. Junqueira, Aakrosh Ratan, Enzo Acerbi, Daniela I. Drautz–Moses, Balakrishnan N. V. Premkrishnan, Paul Igor Costea, Bodo Linz, Rikky W. Purbojati, Daniel F. Paulo, Nicolas E. Gaultier, Poorani Subramanian, Nur A. Hasan, Rita R. Colwell, Peer Bork, Ana Maria Lima de Azeredo-Espin, Donald A. Bryant, Stephan C. Schuster
Software Mentions: 7
Published: over 8 years ago

10.1002/ece3.4052

Phylogenetic signal in tooth wear dietary niche proxies
Cited by: 23
Author(s): Danielle Fraser, Ryan J. Haupt, W. Andrew Barr
Software Mentions: 7
Published: about 8 years ago

10.1186/s13000-021-01118-y

Identification of immune-infiltrating cell-related biomarkers in hepatocellular carcinoma based on gene co-expression network analysis
Cited by: 6
Author(s): Yinghui Hou, Guizhi Zhang
Software Mentions: 7
Published: almost 5 years ago

10.1186/s12862-020-01681-w

Species delimitation in the cyanolichen genus Rostania
Cited by: 10
Author(s): Alica Košuthová, Johannes Bergsten, Martin Westberg, Mats Wedin
Software Mentions: 7
Published: almost 6 years ago

10.3390/brainsci10020109

Chronic Chemogenetic Stimulation of the Nucleus Accumbens Produces Lasting Reductions in Binge Drinking and Ameliorates Alcohol-Related Morphological and Transcriptional Changes
Cited by: 27
Author(s): Dar'ya Pozhidayeva, Sean P. Farris, Calla M Goeke, Evan Firsick, Kayla G. Townsley, Marina Guizzetti, Angela R. Ozburn
Software Mentions: 7
Published: over 6 years ago

10.1128/mSystems.00264-19

A Genome-Based Species Taxonomy of the <i>Lactobacillus</i> Genus Complex
Cited by: 46
Author(s): Stijn Wittouck, Sander Wuyts, Conor J. Meehan, Vera van Noort, Sarah Lebeer
Software Mentions: 7
Published: over 6 years ago

10.1093/gigascience/giaa157

biotoolsSchema: a formalized schema for bioinformatics software description
Cited by: 7
Author(s): Jon C. Ison, Hans Ienasescu, Emil Karol Rydza, Piotr Jaroslaw Chmura, Kristoffer Rapacki, Alban Gaignard, Veit Schwämmle, Jacques van Helden, Matúš Kalaš, Hervé Ménager
Software Mentions: 7
Published: over 5 years ago

10.3389/fcell.2021.648279

Prognostic Value of a Novel Signature With Nine Hepatitis C Virus-Induced Genes in Hepatic Cancer by Mining GEO and TCGA Databases
Cited by: 5
Author(s): Jianming Wei, Bo Wang, Xibo Gao, Daqing Sun
Software Mentions: 7
Published: almost 5 years ago

10.1186/s12859-016-0970-4

MetICA: independent component analysis for high-resolution mass-spectrometry based non-targeted metabolomics
Cited by: 22
Author(s): Youzhong Liu, Kirill S. Smirnov, Marianna Lucio, Régis D. Gougeon, Hervé Alexandre, Philippe Schmitt‐Kopplin
Software Mentions: 7
Published: over 10 years ago

10.1126/sciadv.abf7129

Endogenous variation in ventromedial prefrontal cortex state dynamics during naturalistic viewing reflects affective experience
Cited by: 55
Author(s): Luke J. Chang, Eshin Jolly, Jin Hyun Cheong, Kristina M. Rapuano, Nathan Greenstein, Pin-Hao A. Chen, Jeremy R. Manning
Software Mentions: 7
Published: about 5 years ago

10.3389/fgene.2020.590660

Identification of Key Genes and Potential New Biomarkers for Ovarian Aging: A Study Based on RNA-Sequencing Data
Cited by: 14
Author(s): Lingwei Ma, Huan Lu, Runhua Chen, Meng Wu, Yan Jin, Jinjin Zhang, Shixuan Wang
Software Mentions: 7
Published: over 5 years ago

10.7717/peerj.11430

Identification of Vitamin D-related gene signature to predict colorectal cancer prognosis
Cited by: 1
Author(s): Luping Bu, Fengxing Huang, Mengting Li, Yanan Peng, Haizhou Wang, Meng Zhang, Linfa Peng, Lan Liu, Qiu Zhao
Software Mentions: 7
Published: about 5 years ago

10.1101/2021.03.07.21252875

Age-dependent impact of the major common genetic risk factor for COVID-19 on severity and mortality
Cited by: 21
Author(s): Teruyuki Nakanishi, Sara Pigazzini, Frauke Degenhardt, Mattia Cordioli, Guillaume Butler‐Laporte, Douglas Maya-Miles, Beatriz Nafr_a-Jim_nez, Youssef Bouysran, Mari Niemi, Adriana Palom, David Ellinghaus, Atlas Khan, Manuel Mart_nez-Bueno, Selina Rolker, Sara Amitano, Luisa Roade, FinnGen, Francesca Fava, Christoph D. Spinner, Daniele Prati, David Bernardo, Féderico García, Gilles Darcis, Israel Fern_ndez-Cadenas, Jan Cato Holter, Jesús M. Bañales, Robert Frithiof, Krzysztof Kiryluk, Stefano Duga, Rosanna Asselta, Alexandre C. Pereira, Manuel Romero-G_mez, Luís Bujanda, Johannes R. Hov, Isabelle Migeotte, Alessandra Renieri, Anna M. Planas, Kerstin U. Ludwig, María Buti, Souad Rahmouni, Marta E. Alarc_n-Riquelme, Eva C. Schulte, André Franke, Tom H. Karlsen, Luca Valenti, Hugo Zeberg, J. Brent Richards, Andrea Ganna
Software Mentions: 7
Published: over 5 years ago

10.1186/s12864-021-07711-1

Identification of cis-regulatory motifs in first introns and the prediction of intron-mediated enhancement of gene expression in Arabidopsis thaliana
Cited by: 6
Author(s): Georg Back, Dirk Walther
Software Mentions: 7
Published: about 5 years ago

10.1007/s00216-021-03261-3

Need for speed: evaluation of dilute and shoot-mass spectrometry for accelerated metabolic phenotyping in bioprocess development
Cited by: 5
Author(s): Alexander M. Reiter, Laura Herbst, Wolfgang Wiechert, Marco Oldiges
Software Mentions: 7
Published: about 5 years ago

10.1371/journal.pone.0217708

Nest characteristics determine nest microclimate and affect breeding output in an Antarctic seabird, the Wilson’s storm-petrel
Cited by: 13
Author(s): Rosanne J. Michielsen, Anne N. M. A. Ausems, Dariusz Jakubas, Michał Pętlicki, Joanna Plenzler, Judy Shamoun‐Baranes, Katarzyna Wojczulanis‐Jakubas
Software Mentions: 7
Published: about 7 years ago

10.1186/s12859-019-2899-x

Efficient estimation of grouped survival models
Cited by: 0
Author(s): Zhiguo Li, Jiaxing Lin, Alexander B. Sibley, Tracy Truong, Katherina C. Chua, Yu Jiang, Janice McCarthy, Deanna L. Kroetz, Andrew S. Allen, Kouros Owzar
Software Mentions: 7
Published: about 7 years ago

10.3389/fgene.2021.739470

Construction on of a Ferroptosis-Related lncRNA-Based Model to Improve the Prognostic Evaluation of Gastric Cancer Patients Based on Bioinformatics
Cited by: 19
Author(s): Jing Pan, Xinyue Zhang, Xuedong Fang, Zhuoyuan Xin
Software Mentions: 7
Published: almost 5 years ago

10.18632/oncotarget.27808

Identification of novel prognostic markers of survival time in high-risk neuroblastoma using gene expression profiles
Cited by: 6
Author(s): Abdulazeez Giwa, Azeez Ayomide Fatai, Junaid Gamieldien, Alan Christoffels, Hocine Bendou
Software Mentions: 7
Published: over 5 years ago

10.1371/journal.pone.0179557

Plio-Pleistocene phylogeography of the Southeast Asian Blue Panchax killifish, Aplocheilus panchax
Cited by: 21
Author(s): Samantha V. Beck, Gary R. Carvalho, Axel Barlow, Lukas Rüber, Heok Hui Tan, Estu Nugroho, Daisy Wowor, Siti Azizah Mohd Nor, Fabian Herder, Zainal A. Muchlisin, Mark de Bruyn
Software Mentions: 7
Published: almost 9 years ago

10.1186/s12859-021-04043-5

OmicLoupe: facilitating biological discovery by interactive exploration of multiple omic datasets and statistical comparisons
Cited by: 4
Author(s): Jakob Willforss, Valentina Siino, Fredrik Levander
Software Mentions: 7
Published: over 5 years ago

10.3389/fonc.2021.654185

Overexpression of GINS4 Is Associated With Tumor Progression and Poor Survival in Hepatocellular Carcinoma
Cited by: 6
Author(s): Ziying Zhang, Peng Chen, Hui Xie, Peiguo Cao
Software Mentions: 7
Published: over 5 years ago

10.1128/mBio.03601-20

Ketogenic Diets Induced Glucose Intolerance and Lipid Accumulation in Mice with Alterations in Gut Microbiota and Metabolites
Cited by: 15
Author(s): Yue Li, Yifan Yang, Jing Zhang, Tianyi Jiang, Ziyi Zhang, Zhiyi Wang, Mengxue Gong, Liping Zhao, Chenhong Zhang
Software Mentions: 7
Published: about 5 years ago

10.3389/fpls.2017.01005

Dominant Groups of Potentially Active Bacteria Shared by Barley Seeds become Less Abundant in Root Associated Microbiome
Cited by: 56
Author(s): Luhua Yang, Jasmin Danzberger, Anne Schöler, Peter Schröder, Michael Schloter, Viviane Radl
Software Mentions: 7
Published: about 9 years ago

10.1371/journal.pone.0205076

Non-significant p-values? Strategies to understand and better determine the importance of effects and interactions in logistic regression
Cited by: 25
Author(s): Zarina I. Vakhitova, Clair Alston-Knox
Software Mentions: 7
Published: over 7 years ago

10.3389/fonc.2021.709796

Helicobacter pylori Infection–Related Long Non-Coding RNA Signatures Predict the Prognostic Status for Gastric Cancer Patients
Cited by: 7
Author(s): Zhuoyuan Xin, Luping Zhang, Mingqing Liu, Yachen Wang, Yingli Zhang, Wenjie Zhao, Yongxiao Sun, Lei Shi, Na Xu, Nan Zhang, Hong Xu
Software Mentions: 7
Published: almost 5 years ago

10.3389/fonc.2021.584884

Tumor Microenvironmental Competitive Endogenous RNA Network and Immune Cells Act as Robust Prognostic Predictor of Acute Myeloid Leukemia
Cited by: 16
Author(s): Yuanrong Cheng, Xiaoran Wang, Peiyan Qi, Chengxiu Liu, Shoubi Wang, Qi Wan, Yurun Liu, Yangfeng Su, Lin Jin, Ying Liu, Chaoyang Li, Xuan Sang, Yang Liu, Chang Liu, Hucheng Duan, Zhichong Wang
Software Mentions: 7
Published: about 5 years ago

10.1534/g3.117.300479

Multivariate Analysis of the Cotton Seed Ionome Reveals a Shared Genetic Architecture
Cited by: 13
Author(s): Duke Pauli, Gregory R. Ziegler, Min Ren, Matthew A. Jenks, Douglas J. Hunsaker, Min Zhang, Ivan Baxter, Michael A. Gore
Software Mentions: 7
Published: about 8 years ago

10.3390/ijms21239218

Transcriptome Remodeling in Gradual Development of Inverse Resistance between Paclitaxel and Cisplatin in Ovarian Cancer Cells
Cited by: 9
Author(s): Jolanta Szenajch, Alicja Szabelska‐Berȩsewicz, Aleksandra Świercz, Joanna Zyprych-Walczak, Idzi Siatkowski, Michał Góralski, Agnieszka Synowiec, Luiza Handschuh
Software Mentions: 7
Published: over 5 years ago

10.1128/mSystems.01381-20

Biogeography, Assembly Patterns, Driving Factors, and Interactions of Archaeal Community in Mangrove Sediments
Cited by: 24
Author(s): Zhifeng Zhang, Jie Pan, Yue-Ping Pan, Meng Li
Software Mentions: 7
Published: almost 5 years ago

10.1186/s12935-021-02154-w

Study of cellular heterogeneity and differential dynamics of autophagy in human embryonic kidney development by single-cell RNA sequencing
Cited by: 2
Author(s): Wenjin Chen, Xiuwu Pan, Jian Chu, Da Xu, Jia-Xin Chen, Weijie Chen, Linhui Wang, Xingang Cui
Software Mentions: 7
Published: almost 5 years ago

10.1038/srep30794

Genome-wide Identification and Structural, Functional and Evolutionary Analysis of WRKY Components of Mulberry
Cited by: 33
Author(s): Vinay Kumar Baranwal, Nisha Negi, Paramjit Khurana
Software Mentions: 7
Published: almost 10 years ago

10.1038/s41598-017-03503-4

Fuel loads acquired at a stopover site influence the pace of intercontinental migration in a boreal songbird
Cited by: 80
Author(s): Camila Gómez, Nicholas J. Bayly, D. Ryan Norris, Stuart A. Mackenzie, Kenneth V. Rosenberg, Philip D. Taylor, Keith A. Hobson, Carlos Daniel Cadena
Software Mentions: 7
Published: about 9 years ago

10.1186/gb-2008-9-7-r118

MeV+R: using MeV as a graphical user interface for Bioconductor applications in microarray analysis
Cited by: 86
Author(s): Vu T. Chu, Raphaël Gottardo, Adrian E. Raftery, Roger E. Bumgarner, Ka Yee Yeung
Software Mentions: 7
Published: over 18 years ago

10.1186/s13059-021-02309-y

Deep sequencing of pre-translational mRNPs reveals hidden flux through evolutionarily conserved alternative splicing nonsense-mediated decay pathways
Cited by: 11
Author(s): Carrie Kovalak, Scott Donovan, Alicia A. Bicknell, Mihir Metkar, Melissa J. Moore
Software Mentions: 7
Published: about 5 years ago

10.1093/gigascience/giaa068

Watchdog 2.0: New developments for reusability, reproducibility, and workflow execution
Cited by: 8
Author(s): Michael Kluge, Marie-Sophie Friedl, Amrei L Menzel, Caroline C. Friedel
Software Mentions: 7
Published: about 6 years ago

10.1038/s41598-021-98926-5

Quantitative assessment of multiple fish species around artificial reefs combining environmental DNA metabarcoding and acoustic survey
Cited by: 22
Author(s): Masaaki Sato, Nariaki Inoue, Ryogen Nambu, Naoki Furuichi, Tsutomu Imaizumi, Masayuki Ushio
Software Mentions: 7
Published: over 4 years ago

10.1186/s12862-021-01821-w

Phylogenetic history influences convergence for a specialized ecology: comparative skull morphology of African burrowing skinks (Squamata; Scincidae)
Cited by: 7
Author(s): Natasha Stepanova, Aaron M. Bauer
Software Mentions: 7
Published: about 5 years ago

10.7554/eLife.49658

Nanopore direct RNA sequencing maps the complexity of Arabidopsis mRNA processing and m6A modification
Cited by: 278
Author(s): Matthew T Parker, Katarzyna Knop, Anna V. Sherwood, Nicholas J. Schurch, Katarzyna Mackinnon, Peter D Gould, Anthony Hall, Geoffrey J. Barton, Gordon G. Simpson
Software Mentions: 7
Published: over 6 years ago

10.7554/eLife.28275

Concentration dependent chromatin states induced by the bicoid morphogen gradient
Cited by: 76
Author(s): Colleen E Hannon, Shelby A. Blythe, Eric Wieschaus
Software Mentions: 7
Published: almost 9 years ago

10.1371/journal.pone.0236226

Genome-wide analysis of the polyamine oxidase gene family in wheat (Triticum aestivum L.) reveals involvement in temperature stress response
Cited by: 10
Author(s): Fatemeh Gholizadeh, Ghader Mirzaghaderi
Software Mentions: 7
Published: almost 6 years ago

10.3390/genes11020226

Integrative Analysis Identifies Candidate Tumor Microenvironment and Intracellular Signaling Pathways that Define Tumor Heterogeneity in NF1
Cited by: 10
Author(s): Jineta Banerjee, Robert J. Allaway, Jaclyn N. Taroni, Aaron Baker, Xiaochun Zhang, Chang In Moon, Christine A. Pratilas, Jaishri O. Blakeley, Justin Guinney, Angela C. Hirbe, Casey S. Greene
Software Mentions: 7
Published: over 6 years ago

10.3389/fimmu.2021.687291

Genetic Prioritization, Therapeutic Repositioning and Cross-Disease Comparisons Reveal Inflammatory Targets Tractable for Kidney Stone Disease
Cited by: 5
Author(s): Hai Fang, Lulu Jiang
Software Mentions: 7
Published: almost 5 years ago

10.1186/s12859-019-3016-x

NPA: an R package for computing network perturbation amplitudes using gene expression data and two-layer networks
Cited by: 6
Author(s): Florian Martin, Sylvain Gubian, Marja Talikka, Julia Hoeng, Manuel C. Peitsch
Software Mentions: 7
Published: almost 7 years ago

10.1371/journal.pone.0205128

The degree of altriciality and performance in a cognitive task show correlated evolution
Cited by: 1
Author(s): Pilar Chiappa, Suneeta Singh, Francisco Pellicer
Software Mentions: 7
Published: over 7 years ago

10.3389/fpsyt.2021.668297

Estimating the Prevalence and Genetic Risk Mechanisms of ARFID in a Large Autism Cohort
Cited by: 26
Author(s): Tanner Koomar, Taylor Thomas, Natalie R. Pottschmidt, Michael Lutter, Jacob J. Michaelson
Software Mentions: 7
Published: about 5 years ago

10.3389/fimmu.2020.585168

Distinct Age-Related Epigenetic Signatures in CD4 and CD8 T Cells
Cited by: 40
Author(s): Bin Hu, Rohit R. Jadhav, Claire E. Gustafson, Sabine Le Saux, Zhongde Ye, Xuanying Li, Lu Tian, Cornelia M. Weyand, Jörg J. Goronzy
Software Mentions: 7
Published: over 5 years ago

10.1371/journal.pone.0250496

Optimizing the P balance: How do modern maize hybrids react to different starter fertilizers?
Cited by: 7
Author(s): Thea Mi Weiß, Willmar L. Leiser, Alice-Jacqueline Reineke, Dongdong Li, Wenxin Liu, Volker Hahn, Tobias Würschum
Software Mentions: 7
Published: about 5 years ago

10.1186/s13073-020-00741-6

Single-cell RNA sequencing reveals the tumor microenvironment and facilitates strategic choices to circumvent treatment failure in a chemorefractory bladder cancer patient
Cited by: 93
Author(s): Hye Won Lee, Wingyan Chung, Hae‐Ock Lee, Da Eun Jeong, Areum Jo, Ji Hyun Lim, Jeong Hee Hong, Do‐Hyun Nam, Byong Chang Jeong, Se Hoon Park, Kyeung Min Joo, Woong-Yang Park
Software Mentions: 7
Published: about 6 years ago

10.3389/fnins.2021.682247

Decreased MEF2A Expression Regulated by Its Enhancer Methylation Inhibits Autophagy and May Play an Important Role in the Progression of Alzheimer’s Disease
Cited by: 8
Author(s): Hui Li, Rui Wang, Xuqi Guo, Yugang Jiang
Software Mentions: 7
Published: about 5 years ago

10.1038/s41598-020-67221-0

Diversity hotspot and unique community structure of foraminifera in the world’s deepest marine blue hole – Sansha Yongle Blue Hole
Cited by: 13
Author(s): Qingxia Li, Yanli Lei, Raphaёl Morard, Tiegang Li, Baodong Wang
Software Mentions: 7
Published: about 6 years ago

10.3390/insects11050278

Thermal Tolerance of Fruit-Feeding Butterflies (Lepidoptera: Nymphalidae) in Contrasting Mountaintop Environments
Cited by: 9
Author(s): Vanessa Diniz e Silva, Marina do Vale Beirão, Danon Clemes Cardoso
Software Mentions: 7
Published: about 6 years ago

10.1007/s00125-017-4437-6

Assessment of glucose regulation in pregnancy after gastric bypass surgery
Cited by: 25
Author(s): Christian Göbl, Latife Bozkurt, Andrea Tura, Michael Leutner, Laura Andrei, Lukas Fahr, Peter Husslein, Wolfgang Eppel, Alexandra Kautzky–Willer
Software Mentions: 7
Published: almost 9 years ago

10.1186/s12920-015-0153-6

Gene-expression signature functional annotation of breast cancer tumours in function of age
Cited by: 4
Author(s): Pascal Jézéquel, Zein Sharif, Hamza Lasla, Wilfried Gouraud, Catherine Guérin‐Charbonnel, Loı̈c Campion, Stéphane Chrétien, Mario Campone
Software Mentions: 7
Published: over 10 years ago

10.1038/s41598-021-95302-1

The implications of lag times between nitrate leaching losses and riverine loads for water quality policy
Cited by: 12
Author(s): R. W. McDowell, Zachary P. Simpson, Anne-Gäelle Ausseil, Z. Etheridge, Richard M. Law
Software Mentions: 7
Published: almost 5 years ago

10.7554/eLife.61138

The biphasic and age-dependent impact of klotho on hallmarks of aging and skeletal muscle function
Cited by: 15
Author(s): Zachary Clemens, Sruthi Sivakumar, Abish Pius, Amrita Sahu, Sunita Shinde, Hikaru Mamiya, Nathaniel Luketich, Jian Cui, Purushottam D. Dixit, Joerg D. Hoeck, Sebastian Kreuz, Michael Franti, Aaron Barchowsky, Fabrisia Ambrosio
Software Mentions: 7
Published: about 5 years ago

10.1038/s42003-019-0628-7

Oribatid mites show that soil food web complexity and close aboveground-belowground linkages emerged in the early Paleozoic
Cited by: 19
Author(s): Ina Schaefer, Tancredi Caruso
Software Mentions: 7
Published: over 6 years ago

10.3390/ijms21165923

Oxidant-Induced Alterations in the Adipocyte Transcriptome: Role of the Na,K-ATPase Oxidant Amplification Loop
Cited by: 7
Author(s): Komal Sodhi, James Denvir, Jiang Liu, Juan Sanabria, Yiliang Chen, Roy L. Silverstein, Zijian Xie, Nader G. Abraham, Joseph I. Shapiro
Software Mentions: 7
Published: almost 6 years ago

10.1038/s41437-019-0251-x

Genetic and genomic analysis of the seed-filling process in maize based on a logistic model
Cited by: 14
Author(s): Yin Su, Pengcheng Li, Yongsheng Xu, Jun Li, Tiantian Yang, Jie Wei, Shaohang Xu, Junjie Yu, Huiying Fang, Li Xue, Dejun Hao, Zefeng Yang, Chenwu Xu
Software Mentions: 7
Published: almost 7 years ago

10.3390/ijms21134629

Differences in Gene Expression Profile of Primary Tumors in Metastatic and Non-Metastatic Papillary Thyroid Carcinoma—Do They Exist?
Cited by: 5
Author(s): Sylwia Szpak‐Ulczok, Aleksandra Pfeifer, Dagmara Rusinek, Małgorzata Oczko-Wojciechowska, M. Kowalska, Tomasz Tyszkiewicz, Marta Cieślicka, Daria Handkiewicz-Junak, Krzysztof Fujarewicz, Dariusz Lange, Ewa Chmielik, Ewa Zembala‐Nożyńska, Sebastian Student, Agnieszka Kotecka-Blicharz, Aneta Kluczewska-Gałka, Barbara Jarząb, Agnieszka Czarniecka, Michał Jarząb, Jolanta Krajewska
Software Mentions: 7
Published: almost 6 years ago

10.1371/journal.pone.0174606

News exposure predicts anti-Muslim prejudice
Cited by: 35
Author(s): John H. Shaver, Chris G. Sibley, Danny Osborne, Joseph Bulbulia
Software Mentions: 7
Published: about 9 years ago

10.1155/2014/851425

Large-Scale Genomic Analysis of Codon Usage in Dengue Virus and Evaluation of Its Phylogenetic Dependence
Cited by: 22
Author(s): Edgar E. Lara-Ramírez, Ma Isabel Salazar, María de Jesús López-López, Juan Santiago Salas-Benito, Alejandro Sánchez-Varela, Xianwu Guo
Software Mentions: 7
Published: over 12 years ago

10.3389/fnins.2012.00187

Systems Biology, Bioinformatics, and Biomarkers in Neuropsychiatry
Cited by: 43
Author(s): Ali Alawieh, Fadi A. Zaraket, Jianliang Li, Stefania Mondello, Amaly Nokkari, Mahdi Razafsha, Bilal H. Fadlallah, Rose‐Mary Boustany, Firas Kobeissy
Software Mentions: 7
Published: over 14 years ago

10.1186/s12935-019-1028-2

Expression profile analysis identifies IER3 to predict overall survival and promote lymph node metastasis in tongue cancer
Cited by: 10
Author(s): Fang Xiao, Yinhua Dai, Yujiao Hu, Mengmeng Lu, Qun Dai
Software Mentions: 7
Published: over 6 years ago

10.3390/microorganisms8060798

Comparing the Influence of Assembly Processes Governing Bacterial Community Succession Based on DNA and RNA Data
Cited by: 8
Author(s): Xiu Jia, Francisco Dini‐Andreote, Joana Falcão Salles
Software Mentions: 7
Published: about 6 years ago

10.1186/s40462-020-0194-0

Effects of age on foraging behavior in two closely related albatross species
Cited by: 18
Author(s): Caitlin K. Frankish, Andrea Manica, Richard A. Phillips
Software Mentions: 7
Published: over 6 years ago

10.1002/ecy.2666

The hydraulic efficiency–safety trade‐off differs between lianas and trees
Cited by: 47
Author(s): Masha T. van der Sande, Lourens Poorter, Stefan A. Schnitzer, Bettina M. J. Engelbrecht, Lars Markesteijn
Software Mentions: 7
Published: about 7 years ago

10.1186/s13690-021-00687-0

Use of artificial intelligence for public health surveillance: a case study to develop a machine Learning-algorithm to estimate the incidence of diabetes mellitus in France
Cited by: 4
Author(s): Romana Haneef, Sofiane Kab, Rok Hrzic, Sonsoles Fuentes, Sandrine Fosse-Edorh, E. Cosson, Anne Gallay
Software Mentions: 7
Published: almost 5 years ago

10.1007/s00125-017-4329-9

The kynurenine:tryptophan ratio as a predictor of incident type 2 diabetes mellitus in individuals with coronary artery disease
Cited by: 53
Author(s): Eirik Wilberg Rebnord, Elin Strand, Øivind Midttun, G.F.T. Svingen, Monika H. E. Christensen, Per Magne Ueland, Gunnar Mellgren, Pål Rasmus Njølstad, Grethe S. Tell, Ottar Nygård, Eva Ringdal Pedersen
Software Mentions: 7
Published: about 9 years ago

10.1515/tnsci-2021-0002

<i>IKBIP</i> is a novel EMT-related biomarker and predicts poor survival in glioma
Cited by: 9
Author(s): Ying Yang, Jin Wang, Shi‐Hai Xu, Wen Lv, Fei Shi, Aijun Shan
Software Mentions: 7
Published: over 5 years ago

10.1186/s12862-016-0728-7

Evolution of the locomotory system in eels (Teleostei: Elopomorpha)
Cited by: 7
Author(s): Cathrin Pfaff, Roberto Zorzin, Jürgen Kriwet
Software Mentions: 7
Published: almost 10 years ago

10.1038/s41598-017-02932-5

Transcriptomic analysis of short-fruit 1 (sf1) reveals new insights into the variation of fruit-related traits in Cucumis sativus
Cited by: 25
Author(s): Lina Wang, Chuanai Cao, Shuangshuang Zheng, Haiyang Zhang, Panjing Liu, Qian Ge, Jingrui Li, Zhonghai Ren
Software Mentions: 7
Published: about 9 years ago