pypi: of | Projects | Ecosyste.ms: Papers

10.1002/ece3.7992

Using Delaunay triangulation to sample whole‐specimen color from digital images
Cited by: 5
Author(s): Jennifer J Valvo, J. David Aponte, Mitch J Daniel, Kenna Dwinell, Helen Rodd, David Houle, Kimberly A. Hughes
Software Mentions: 12
Published: over 2 years ago

10.7717/peerj.9017

Population structure and microbial community diversity of two common tetillid sponges in a tropical reef lagoon
Cited by: 10
Author(s): Jake Ivan P. Baquiran, Michael Angelou L. Nada, Niño Posadas, Dana P. Manogan, Patrick C. Cabaitan, Cecilia Conaco
Software Mentions: 9
Published: about 4 years ago

10.1136/jitc-2020-000588

Monocyte-derived APCs are central to the response of PD1 checkpoint blockade and provide a therapeutic target for combination therapy
Cited by: 30
Author(s): Sjoerd Schetters, Elizabeth Rodríguez, Laura Kruijssen, Matheus H.W. Crommentuijn, Louis Boon, Jan Van den Bossche, Joke M. M. den Haan, Yvette van Kooyk
Software Mentions: 8
Published: almost 4 years ago

10.3389/fmicb.2020.610269

Zebra Mussel Holobionts Fix and Recycle Nitrogen in Lagoon Sediments
Cited by: 15
Author(s): Ugo Marzocchi, Stefano Bonaglia, Anastasija Zaiko, Grazia Marina Quero, Irma Vybernaite‐Lubiene, Tobia Politi, Aurelija Samuilovienė, Mindaugas Žilius, Marco Bartoli, Ulisse Cardini
Software Mentions: 8
Published: over 3 years ago

10.1371/journal.pgen.1006995

Environmental perturbations lead to extensive directional shifts in RNA processing
Cited by: 24
Author(s): Allison L. Richards, Donovan Watza, Anthony Findley, Adnan Alazizi, Xiaoquan Wen, Athma A. Pai, Roger Piqué-Regi, Francesca Luca
Software Mentions: 8
Published: over 6 years ago

10.1002/1878-0261.12381

A pan‐cancer atlas of cancer hallmark‐associated candidate driver lnc <scp>RNA</scp> s
Cited by: 19
Author(s): Yulan Deng, Shangyi Luo, Xinxin Zhang, Chaoxia Zou, Huating Yuan, Gaoming Liao, Liwen Xu, Chunyu Deng, Yujia Lan, Tingting Zhao, Xu Gao, Yun Xiao, Xia Li
Software Mentions: 8
Published: over 5 years ago

10.1371/journal.pgen.1005908

Insight into Genotype-Phenotype Associations through eQTL Mapping in Multiple Cell Types in Health and Immune-Mediated Disease
Cited by: 83
Author(s): James E. Peters, Paul Lyons, James C. Lee, Alison F. Richard, Mary D Fortune, Paul Newcombe, Sylvia Richardson, Kenneth G. C. Smith
Software Mentions: 6
Published: about 8 years ago

10.1186/s12879-015-0786-2

Identification of circulating biomarkers in sera of Plasmodium knowlesi-infected malaria patients – comparison against Plasmodium vivax infection
Cited by: 15
Author(s): Yeng Chen, Choon Kit Chan, Jesinda P Kerishnan, Yee Ling Lau, Yin-Ling Irene Wong, Subash C. B. Gopinath
Software Mentions: 6
Published: over 9 years ago

10.1111/idh.12364

Is plaque regrowth inhibited by dentifrice?
Cited by: 11
Author(s): Cees Valkenburg, F. van der Weijden, Dagmar Else Slot
Software Mentions: 6
Published: over 5 years ago

10.1186/s13071-020-04265-1

Molecular analysis of polymorphic species of the genus Marshallagia (Nematoda: Ostertagiinae)
Cited by: 9
Author(s): Abdurakhim Kuchboev, Khanifakhon Sobirova, R. Karimova, Oybek Amirov, Georg von Samson‐Himmelstjerna, Jürgen Krücken
Software Mentions: 6
Published: over 3 years ago

10.3389/fmolb.2021.644557

Reconstruction and Analysis of the Immune-Related LINC00987/A2M Axis in Lung Adenocarcinoma
Cited by: 8
Author(s): Jiakang Ma, Xinhua Lin, Xueting Wang, Qing-Qing Min, Tonglian Wang, Chaozhi Tang
Software Mentions: 6
Published: about 3 years ago

10.1371/journal.pone.0200390

Molecular marker sequences of cattle Cooperia species identify Cooperia spatulata as a morphotype of Cooperia punctata
Cited by: 18
Author(s): Sabrina Ramünke, Fernando de Almeida Borges, Elke von Son-de Fernex, Georg von Samson‐Himmelstjerna, Jürgen Krücken
Software Mentions: 6
Published: almost 6 years ago

10.3389/fmicb.2021.701186

Divergent Genomic Adaptations in the Microbiomes of Arctic Subzero Sea-Ice and Cryopeg Brines
Cited by: 9
Author(s): Josephine Z. Rapp, Matthew B. Sullivan, Jody W. Deming
Software Mentions: 6
Published: almost 3 years ago

10.1186/1471-2105-12-92

Statistical Test of Expression Pattern (STEPath): a new strategy to integrate gene expression data with genomic information in individual and meta-analysis studies
Cited by: 5
Author(s): Paolo Martini, Davide Risso, Gabriele Sales, Chiara Romualdi, Gerolamo Lanfranchi, Stefano Cagnin
Software Mentions: 6
Published: about 13 years ago

10.1038/s41598-018-24931-w

Exposure to toxic metals triggers unique responses from the rat gut microbiota
Cited by: 85
Author(s): Joshua B. Richardson, Blair C. R. Dancy, Cassandra L. Horton, Young S. Lee, Michael S. Madejczyk, Zhenjiang Zech Xu, Gail Ackermann, Gregory Humphrey, Gustavo Palacios, Rob Knight, John A. Lewis
Software Mentions: 5
Published: about 6 years ago

10.7554/eLife.53839

Cancer systems immunology
Cited by: 12
Author(s): Nathan E. Reticker-Flynn, Edgar G. Engleman
Software Mentions: 5
Published: almost 4 years ago

10.1002/cam4.2927

Identification of key lncRNAs in the tumorigenesis of intraductal pancreatic mucinous neoplasm by coexpression network analysis
Cited by: 11
Author(s): Jun Ding, Yang Li, Yong Zhang, Bin Fan, Qinghe Li, Jian Zhang
Software Mentions: 5
Published: about 4 years ago

10.3390/diagnostics10050271

The Effects of Early Bispectral Index to Predict Poor Neurological Function in Cardiac Arrest Patients: A Systematic Review and Meta-Analysis
Cited by: 5
Author(s): Chun-Yu Chang, Chien‐Sheng Chen, Yung-Jiun Chien, Po‐Chen Lin, Meng‐Yu Wu
Software Mentions: 5
Published: about 4 years ago

10.3390/s20113328

Creating the Internet of Augmented Things: An Open-Source Framework to Make IoT Devices and Augmented and Mixed Reality Systems Talk to Each Other
Cited by: 31
Author(s): Óscar Blanco-Novoa, Paula Fraga‐Lamas, Miguel Vilar-Montesinos, Tiago M. Fernández‐Caramés
Software Mentions: 5
Published: almost 4 years ago

10.1371/journal.pone.0243446

Genomic and morphological evidence of distinct populations in the endemic common (weedy) seadragon Phyllopteryx taeniolatus (Syngnathidae) along the east coast of Australia
Cited by: 9
Author(s): O. Selma Klanten, Michelle R. Gaither, Samuel E. Greaves, Kade Mills, Kristine O’Keeffe, John Turnbull, Rob McKinnon, David J. Booth
Software Mentions: 5
Published: over 3 years ago

10.1002/advs.201901672

Comparison of Arachis monticola with Diploid and Cultivated Tetraploid Genomes Reveals Asymmetric Subgenome Evolution and Improvement of Peanut
Cited by: 38
Author(s): Dongmei Yin, Changmian Ji, Qingxin Song, Wan–Ke Zhang, Xingguo Zhang, Kunkun Zhao, Charles Y. Chen, Chuan Tang Wang, He Guo, Zhe Liang, Xingli Ma, Zhongfeng Li, Yueyi Tang, Yuejun Wang, Ké Li, Longlong Ning, Hui Zhang, Kai Zhao, Xuming Li, Haiyan Yu, Lei Yan, Mingcheng Wang, Liming Ma, Hongkun Zheng, Yijing Zhang, Jinsong Zhang, Wei Hu, Z Jeffrey Chen
Software Mentions: 5
Published: over 4 years ago

10.7554/eLife.20937

Enforcement of developmental lineage specificity by transcription factor Oct1
Cited by: 14
Author(s): Zuolian Shen, Jinsuk Kang, Arvind Shakya, Marcin Tabaka, Elke A. Jarboe, Aviv Regev, Dean Tantin
Software Mentions: 5
Published: almost 7 years ago

10.1186/s13054-019-2358-0

39th International Symposium on Intensive Care and Emergency Medicine
Cited by: 7
Author(s): Giuseppe Carrà, Francesca Marta Elli, Larissa R. Brunner Huber, Fabián Güiza, Bogdan-Andrei Ianosi, Rass, Bart Depreitere, G Meyfrodidt, Giuseppe Citerio, Raimund Helbok
Software Mentions: 5
Published: about 5 years ago

10.1038/s41598-019-45995-2

Temporal Stability of the Ruminal Bacterial Communities in Beef Steers
Cited by: 27
Author(s): Brooke A. Clemmons, Cameron Martino, Liesel G Schneider, Josh Lefler, Mallory Embree, Phillip R. Myer
Software Mentions: 5
Published: almost 5 years ago

10.1038/s41419-019-1821-9

C-Jun drives melanoma progression in PTEN wild type melanoma cells
Cited by: 21
Author(s): Melanie Kappelmann‐Fenzl, Claudia Gebhard, Alexander Matthies, Silke Kuphal, Michael Rehli, Anja Boßerhoff
Software Mentions: 5
Published: almost 5 years ago

10.2196/23530

Cystic Fibrosis Point of Personalized Detection (CFPOPD): An Interactive Web Application
Cited by: 2
Author(s): Christopher Wolfe, Teresa Pestian, Emrah Gecili, Weiji Su, Ruth H. Keogh, John Pestian, Michael Seid, Peter J. Diggle, Assem G. Ziady, John Clancy, Daniel H. Grossoehme, Rhonda Szczesniak, Cole Brokamp
Software Mentions: 5
Published: over 3 years ago

10.1371/journal.pcbi.1007520

A novel network control model for identifying personalized driver genes in cancer
Cited by: 39
Author(s): Weifeng Guo, Shao-Wu Zhang, Tao Zeng, Yan Li, Jianxi Gao, Luonan Chen
Software Mentions: 5
Published: over 4 years ago

10.7717/peerj.5908

Assessing distinct patterns of cognitive aging using tissue-specific brain age prediction based on diffusion tensor imaging and brain morphometry
Cited by: 85
Author(s): Geneviève Richard, Knut-Kristian Kolskår, Anne-Marthe Sanders, Tobias Kaufmann, Anders Petersen, Nhat Trung Doan, Jennifer Monereo Sánchez, Dag Alnæs, Kristine M. Ulrichsen, Erlend S. Dørum, Ole A. Andreassen, Jan Egil Nordvik, Lars T. Westlye
Software Mentions: 5
Published: over 5 years ago

10.1186/1471-2105-9-88

Comparison of normalisation methods for surface-enhanced laser desorption and ionisation (SELDI) time-of-flight (TOF) mass spectrometry data
Cited by: 43
Author(s): Wouter Meuleman, Judith Y. M. N. Engwegen, Marie-Christine W. Gast, Jos H. Beijnen, Marcel J. T. Reinders, Lodewyk Wessels
Software Mentions: 5
Published: about 16 years ago

10.3389/fcell.2021.665265

TP53 Mutational Status-Based Genomic Signature for Prognosis and Predicting Therapeutic Response in Pancreatic Cancer
Cited by: 4
Author(s): Feng Zhang, Wenhui Zhong, Honghao Li, Kaijun Huang, Min Yu, Yu-bin Liu
Software Mentions: 5
Published: almost 3 years ago

10.3389/fgene.2014.00152

Bioinformatics for precision medicine in oncology: principles and application to the SHIVA clinical trial
Cited by: 73
Author(s): Nicolas Servant, Julien Roméjon, Pierre Gestraud, Philippe La Rosa, Georges Lucotte, Séverine Lair, Virginie Bernard, Bruno Zeitouni, Fanny Coffin, Gérôme Jules-Clément, Florent Yvon, Alban Lermine, Patrick Poullet, Stéphane Liva, Stuart Pook, Tatiana Popova, Camille Barette, François D. Prud’homme, Jean Gabriel Dick, Maud Kamal, Christophe Le Tourneau, Emmanuel Barillot, Philippe Hupé
Software Mentions: 5
Published: almost 10 years ago

10.1371/journal.pone.0109012

Identification of Host-Immune Response Protein Candidates in the Sera of Human Oral Squamous Cell Carcinoma Patients
Cited by: 32
Author(s): Yeng Chen, Siti Nuraishah Azman, Jesinda P Kerishnan, Rosnah Binti Zain, Yu Nieng Chen, Yin-Ling Irene Wong, Subash C. B. Gopinath
Software Mentions: 5
Published: over 9 years ago

10.3389/fonc.2021.608608

Current Evidence of the Efficacy and Safety of Neoadjuvant EGFR-TKIs for Patients With Non-small Cell Lung Cancer
Cited by: 5
Author(s): Xiaoshun Shi, Xiaoying Dong, Jianxue Zhai, Xiguang Liu, Da-Yong Lu, Zhen Ni, Hua Wu, Kaican Cai
Software Mentions: 5
Published: almost 3 years ago

10.3389/fvets.2020.563140

Real-Time Standard Analysis of Disease Investigation (SADI)—A Toolbox Approach to Inform Disease Outbreak Response
Cited by: 0
Author(s): Paul Bingham, Masako Wada, Mary van Andel, Andrew McFadden, R.L. Sanson, Mark Stevenson
Software Mentions: 5
Published: over 3 years ago

10.1038/s41438-021-00487-1

Combined genomic, transcriptomic, and metabolomic analyses provide insights into chayote (Sechium edule) evolution and fruit development
Cited by: 34
Author(s): Anzhen Fu, Qing Wang, Jianlou Mu, Lili Ma, Changlong Wen, Xiaoyan Zhao, Lipu Gao, Jian Li, Kai Shi, Yunxiang Wang, Xuechuan Zhang, Xuewen Zhang, Fengling Wang, Donald Grierson, Jinhua Zuo
Software Mentions: 5
Published: over 3 years ago

10.1371/journal.pone.0191006

A census of P. longum’s phytochemicals and their network pharmacological evaluation for identifying novel drug-like molecules against various diseases, with a special focus on neurological disorders
Cited by: 33
Author(s): Neha Choudhary, Vikram Singh
Software Mentions: 5
Published: over 6 years ago

10.1111/1755-0998.13013

Evaluating next‐generation sequencing (NGS) methods for routine monitoring of wild bees: Metabarcoding, mitogenomics or NGS barcoding
Cited by: 18
Author(s): Morgan Gueuning, Dominik Ganser, Simon Blaser, Matthias Albrecht, Eva Knop, Christophe Praz, Juerg E. Frey
Software Mentions: 5
Published: about 5 years ago

10.1186/s13072-017-0160-2

Ubiquitin C-terminal hydrolase isozyme L1 is associated with shelterin complex at interstitial telomeric sites
Cited by: 6
Author(s): Aleksandar Ilić, Sumin Lu, Vikram Bhatia, Farhana Begum, Thomas Klonisch, Prasoon Agarwal, Wayne Xu, James R. Davie
Software Mentions: 4
Published: over 6 years ago

10.1371/journal.pcbi.1006899

Gene set meta-analysis with Quantitative Set Analysis for Gene Expression (QuSAGE)
Cited by: 11
Author(s): Hailong Meng, Gur Yaari, Christopher R. Bolen, Stefan Avey, Steven H. Kleinstein
Software Mentions: 4
Published: about 5 years ago

10.7717/peerj.7552

Oceanographic habitat and the coral microbiomes of urban-impacted reefs
Cited by: 4
Author(s): Stephanie M. Rosales, Christopher D. Sinigalliano, Maribeth L. Gidley, Paul R. Jones, Lewis J. Gramer
Software Mentions: 4
Published: over 4 years ago

10.7717/peerj.7138

Could do better! A high school market survey of fish labelling in Sydney, Australia, using DNA barcodes
Cited by: 12
Author(s): Andrew Mitchell, Anna Rothbart, Greta J. Frankham, Rebecca N. Johnson, Linda E. Neaves
Software Mentions: 4
Published: almost 5 years ago

10.1371/journal.pgen.1007087

Comprehensive molecular profiling of 718 Multiple Myelomas reveals significant differences in mutation frequencies between African and European descent cases
Cited by: 64
Author(s): Zarko Manojlovic, Austin Christofferson, Winnie S. Liang, Jessica Aldrich, Megan Washington, Shukmei Wong, Daniel C. Rohrer, Scott D. Jewell, Rick A. Kittles, Mary DeRome, Daniel Auclair, David W. Craig, Jonathan J. Keats, John D. Carpten
Software Mentions: 4
Published: over 6 years ago

10.1002/cam4.3513

Efficacy of intravesical therapies on the prevention of recurrence and progression of non‐muscle‐invasive bladder cancer: A systematic review and network meta‐analysis
Cited by: 27
Author(s): Junlin Lu, Qi‐Dong Xia, Yilong Lu, Zheng Liu, Peng Zhou, Henglong Hu, Shaogang Wang
Software Mentions: 4
Published: over 3 years ago

10.1007/s00056-020-00223-9

Does playing a wind instrument influence tooth position and facial morphology?
Cited by: 4
Author(s): F.N. van der Weijden, Reinder Kuitert, Frank Lobbezoo, Cees Valkenburg, G.A. van der Weijden, Dagmar Else Slot
Software Mentions: 4
Published: about 4 years ago

10.1371/journal.pone.0214483

Cross-continental phylogeography of two Holarctic Nymphalid butterflies, Boloria eunomia and Boloria selene
Cited by: 19
Author(s): Jana Marešová, Jan Christian Habel, Gabriel Nève, Marcin Sielezniew, Alena Sucháčková Bartoňová, Agata Kostro‐Ambroziak, Zdeněk Faltýnek Fric
Software Mentions: 4
Published: about 5 years ago

10.1371/journal.pone.0223514

Diagnostic accuracy of midkine on hepatocellular carcinoma: A meta-analysis
Cited by: 8
Author(s): Bo-Han Zhang, Bo Li, Lingxiang Kong, Lvnan Yan, Jiayin Yang
Software Mentions: 4
Published: over 4 years ago

10.1002/ece3.7928

Aposematic signaling and seasonal variation in dorsal pelage in a venomous mammal
Cited by: 2
Author(s): K. A. I. Nekaris, Marco Campera, Anna R Watkins, Ariana Weldon, Katherine Hedger, Thaís Q. Morcatty
Software Mentions: 4
Published: almost 3 years ago

10.3390/metabo10010001

Metatranscriptomic Analysis of the Mouse Gut Microbiome Response to the Persistent Organic Pollutant 2,3,7,8-Tetrachlorodibenzofuran
Cited by: 11
Author(s): Robert G. Nichols, Jingtao Zhang, Jingwei Cai, Iain A. Murray, Imhoi Koo, Philip B. Smith, Gary H. Perdew, Andrew D. Patterson
Software Mentions: 4
Published: over 4 years ago

10.1371/journal.pone.0096243

IMPACT_S: Integrated Multiprogram Platform to Analyze and Combine Tests of Selection
Cited by: 20
Author(s): Emanuel Maldonado, Kartik Sunagar, Daniela Almeida, Vı́tor Vasconcelos, Agostinho Antunes
Software Mentions: 4
Published: over 9 years ago

10.1371/journal.pone.0140839

Climatic and Landscape Influences on Fire Regimes from 1984 to 2010 in the Western United States
Cited by: 31
Author(s): Zhi Hua Liu, Michael C. Wimberly
Software Mentions: 4
Published: over 8 years ago

10.1155/2020/5603580

Paternal Resistance Training Induced Modifications in the Left Ventricle Proteome Independent of Offspring Diet
Cited by: 4
Author(s): Ivo Vieira de Sousa Neto, Ramires Alsamir Tibana, Jonato Prestes, Leonardo Gomes de Oliveira da Silva, Jeeser Alves de Almeida, Octávio L. Franco, Edilamar Menezes de Oliveira, Fabrício Azevedo Voltarelli, João Luíz Quagliotti Durigan, Marcelo Valle de Sousa, Carlos André Ornelas Ricart, Katyelle Botelho, Mariana S. Castro, Wagner Fontes, Rita de Cássia Marqueti
Software Mentions: 4
Published: about 4 years ago

10.1093/jncics/pky082

Markers of Immune Activation and Inflammation, and Non-Hodgkin Lymphoma: A Meta-Analysis of Prospective Studies
Cited by: 28
Author(s): Solomon B. Makgoeng, Rachel Bolanos, Christie Y. Jeon, Robert E. Weiss, Onyebuchi A. Arah, Elizabeth C. Breen, Otoniel Martı́nez-Maza, Shehnaz K. Hussain
Software Mentions: 4
Published: over 5 years ago

10.1111/j.1755-0998.2011.03041.x

DNA barcoding of oomycetes with cytochrome c oxidase subunit I and internal transcribed spacer
Cited by: 459
Author(s): G.P. Robideau, A. W. A. M. de Cock, Michael D. Coffey, Hermann Voglmayr, Henk J. Brouwer, Kanak Bala, David W. Chitty, N. L. Désaulniers, Quinn Eggertson, Claire M. M. Gachon, Chia-Hui Hu, Frithjof C. Küpper, Tara L. Rintoul, Ehab Sarhan, E.C.P. Verstappen, Yonghong Zhang, P.J.M. Bonants, Jean Beagle Ristaino, C. André Lévesque
Software Mentions: 4
Published: almost 13 years ago

10.3390/s21134322

Semantic Data Mining in Ubiquitous Sensing: A Survey
Cited by: 2
Author(s): Grzegorz J. Nalepa, Szymon Bobek, Krzysztof Kutt, Martin Atzmueller
Software Mentions: 4
Published: almost 3 years ago

10.1016/j.bja.2020.05.061

Intrathecal hydrophilic opioids for abdominal surgery: a meta-analysis, meta-regression, and trial sequential analysis
Cited by: 39
Author(s): Mark V. Koning, Markus Klimek, K. Rijs, Robert Jan Stolker, M. Heesen
Software Mentions: 4
Published: over 3 years ago

10.1038/s41598-021-84044-9

Identification of candidate repurposable drugs to combat COVID-19 using a signature-based approach
Cited by: 18
Author(s): Sinead M. O’Donovan, Ali Sajid Imami, Hunter M. Eby, Nicholas Henkel, Justin Creeden, Sophie Asah, Xiaolu Zhang, Xiaojun Wu, Rawan Alnafisah, R. Travis Taylor, James Reigle, Alexander W. Thorman, Behrouz Shamsaei, Jarek Meller, Robert E. McCullumsmith
Software Mentions: 4
Published: about 3 years ago

10.1038/s41598-017-10861-6

Small ocean temperature increases elicit stage-dependent changes in DNA methylation and gene expression in a fish, the European sea bass
Cited by: 73
Author(s): Dafni Anastasiadi, Noèlia Díaz, Francesc Piferrer
Software Mentions: 4
Published: over 6 years ago

10.1002/ece3.4610

Genetic diversity and differentiation among Prosopis alba (Leguminosae) populations from dry valleys of Bolivia with different levels of human disturbance and altitude
Cited by: 5
Author(s): Cecilia Bessega, Carolina Luciana Pometti, Ramiro Pablo López, Daniel M. Larrea‐Alcázar, Renée H. Fortunato, Beatriz Ofelia Saidman, Juan C. Vilardi
Software Mentions: 4
Published: over 5 years ago

10.1038/s41598-018-29982-7

The influence of latitude, geographic distance, and habitat discontinuities on genetic variation in a high latitude montane species
Cited by: 13
Author(s): John A. Hindley, Brendan A. Graham, Paulo C. Pulgarín‐R, Theresa M. Burg
Software Mentions: 4
Published: almost 6 years ago

10.1371/journal.pone.0144702

Archaeal and Bacterial Communities Associated with the Surface Mucus of Caribbean Corals Differ in Their Degree of Host Specificity and Community Turnover Over Reefs
Cited by: 23
Author(s): Pedro R. Frade, Katharina Roll, Kristin Bergauer, Gerhard J. Herndl
Software Mentions: 4
Published: over 8 years ago

10.1007/s10822-020-00329-7

Flexi-pharma: a molecule-ranking strategy for virtual screening using pharmacophores from ligand-free conformational ensembles
Cited by: 9
Author(s): Isaías Lans, Karen Palacio-Rodríguez, Claudio N. Cavasotto, Pilar Cossio
Software Mentions: 4
Published: almost 4 years ago

10.1371/journal.pone.0244966

Clinical and pharmacokinetic/dynamic outcomes of prolonged infusions of beta-lactam antimicrobials: An overview of systematic reviews
Cited by: 18
Author(s): Pierre Thabet, Anchal Joshi, Erika MacDonald, Brian Hutton, Wei Cheng, Adrienne Stevens, Salmaan Kanji
Software Mentions: 4
Published: over 3 years ago

10.1371/journal.pone.0109291

Systematic Analysis of Blood Cell Transcriptome in End-Stage Chronic Respiratory Diseases
Cited by: 28
Author(s): Julie Chesné, Richard Danger, K. Botturi, Martine Reynaud‐Gaubert, Sacha Mussot, M. Stern, Isabelle Danner-Boucher, Jean‐François Mornex, Christophe Pison, C. Dromer, Romain Kessler, Marcel Dahan, Olivier Brugière, Jérôme Le Pavec, Frédèric Perros, Marc Humbert, Carine Gomez, Sophie Brouard, A. Magnan
Software Mentions: 4
Published: over 9 years ago

10.1186/gb-2005-6-6-r54

Cited by: 148
Author(s): Nils Rostoks, Justin O. Borevitz, Pete E. Hedley, Joanne Russell, Sharon Mudie, Jenny Morris, Linda Cardle, David Marshall, Robbie Waugh
Software Mentions: 4
Published: over 19 years ago

10.1371/journal.pone.0058241

Allometric Convergence in Savanna Trees and Implications for the Use of Plant Scaling Models in Variable Ecosystems
Cited by: 20
Author(s): Andrew T. Tredennick, Lisa Patrick Bentley, Niall P. Hanan
Software Mentions: 4
Published: about 11 years ago

10.1371/journal.pone.0141588

The Effects of Intravenous Immunoglobulins in Women with Recurrent Miscarriages: A Systematic Review of Randomised Trials with Meta-Analyses and Trial Sequential Analyses Including Individual Patient Data
Cited by: 50
Author(s): Pia Egerup, Jane Lindschou, Christian Gluud, Ole Bjarne Christiansen
Software Mentions: 4
Published: over 8 years ago

10.1186/s12859-021-04147-y

Systematic interrogation of mutation groupings reveals divergent downstream expression programs within key cancer genes
Cited by: 1
Author(s): Michal R. Grzadkowski, Hannah D. Holly, Julia Somers, Emek Demir
Software Mentions: 4
Published: about 3 years ago

10.1186/s13059-020-02198-7

The Tetracentron genome provides insight into the early evolution of eudicots and the formation of vessel elements
Cited by: 17
Author(s): Pingli Liu, Xi Zhang, Jian‐Feng Mao, Yan-Ming Hong, Rengang Zhang, E Yilan, Shuai Nie, Kai‐Hua Jia, Chen-Kun Jiang, Jian He, Weiwei Shen, Qizouhong He, Wenqing Zheng, Samar H. Abbas, Pawan Kumar Jewaria, Xue Tian, Changjun Liu, Xueyu Jiang, Yafang Yin, Bo Liu, Li Wang, Biao Jin, Yongpeng Ma, Zongbo Qiu, Frantǐsek Baluška, Jozef Šamaj, Xin-Qiang He, Shihui Niu, Jianbo Xie, Lei Xie, Huimin Xu, Hongzhi Kong, Song Ge, Richard A. Dixon, Yuannian Jiao, Jinxing Lin
Software Mentions: 4
Published: over 3 years ago

10.3389/fendo.2019.00121

Survival and Clinicopathological Significance of SIRT1 Expression in Cancers: A Meta-Analysis
Cited by: 12
Author(s): Min Sun, Mengyu Du, Wenhua Zhang, Sisi Xiong, Xingrui Gong, Peijie Lei, Jin Zha, Hongrui Zhu, Heng Li, Dong Huang, Xinsheng Gu
Software Mentions: 4
Published: about 5 years ago

10.3389/fnhum.2020.00346

Brain Network Modularity Predicts Improvements in Cognitive and Scholastic Performance in Children Involved in a Physical Activity Intervention
Cited by: 18
Author(s): Laura Chaddock-Heyman, Timothy B. Weng, Caitlin Kienzler, Robert Weisshappel, Eric S. Drollette, Lauren B. Raine, Daniel R. Westfall, Shih‐Chun Kao, Pauline L. Baniqued, Darla M. Castelli, Charles H. Hillman, Arthur F. Kramer
Software Mentions: 4
Published: over 3 years ago

10.1371/journal.pgen.1003959

Low Frequency Variants, Collapsed Based on Biological Knowledge, Uncover Complexity of Population Stratification in 1000 Genomes Project Data
Cited by: 31
Author(s): Carrie Moore, John R. Wallace, Daniel Wolfe, Alex T. Frase, Sarah A. Pendergrass, Kenneth M. Weiss, Marylyn D. Ritchie
Software Mentions: 4
Published: over 10 years ago

10.1186/s12862-020-01635-2

Ecological, genetic and evolutionary drivers of regional genetic differentiation in Arabidopsis thaliana
Cited by: 17
Author(s): Antonio R. Castilla, Belén Méndez‐Vigo, Arnald Marcer, Joaquín Martínez‐Minaya, David Conesa, F. Xavier Picó, Carlos Alonso‐Blanco
Software Mentions: 4
Published: almost 4 years ago

10.1186/s12874-021-01352-4

Symptom clusters among cancer survivors: what can machine learning techniques tell us?
Cited by: 6
Author(s): Koen Ilja Neijenhuijs, Carel F.W. Peeters, Henk van Weert, Pim Cuijpers, I. Verdonck-de Leeuw
Software Mentions: 4
Published: over 2 years ago

10.1371/journal.pone.0122339

The Active Tamoxifen Metabolite Endoxifen (4OHNDtam) Strongly Down-Regulates Cytokeratin 6 (CK6) in MCF-7 Breast Cancer Cells
Cited by: 4
Author(s): Thomas Helland, Jennifer Gjerde, Simon N. Dankel, Ingvild S. Fenne, Linn Skartveit, Andreas Drangevåg, Olivera Bozickovic, Marianne Hauglid Flågeng, Håvard Søiland, Gunnar Mellgren, Ernst A. Lien
Software Mentions: 4
Published: about 9 years ago

10.3389/fcell.2020.00380

Paternal Resistance Training Modulates Calcaneal Tendon Proteome in the Offspring Exposed to High-Fat Diet
Cited by: 8
Author(s): Ivo Vieira de Sousa Neto, Ramires Alsamir Tibana, Leonardo Gomes de Oliveira da Silva, Eliene Martins de Lira, Gleyce Pires Gonçalves do Prado, Jeeser Alves de Almeida, Octávio Luiz Franco, João Luíz Quagliotti Durigan, Adetola B Adesida, Marcelo Valle de Sousa, Carlos André Ornelas Ricart, Hylane Luiz Damascena, Mariana S. Castro, Wagner Fontes, Jonato Prestes, Rita de Cássia Marqueti
Software Mentions: 4
Published: almost 4 years ago

10.1371/journal.pone.0094328

Network Analysis of Inflammatory Genes and Their Transcriptional Regulators in Coronary Artery Disease
Cited by: 54
Author(s): Jiny Nair, Madankumar Ghatge, Vijay V. Kakkar, Jayashree Shanker
Software Mentions: 4
Published: about 10 years ago

10.1186/s13040-018-0171-y

Connecting genetics and gene expression data for target prioritisation and drug repositioning
Cited by: 20
Author(s): Enrico Ferrero, Pankaj Agarwal
Software Mentions: 4
Published: almost 6 years ago

10.1371/journal.pone.0078546

Whole-Genome Pathway Analysis on 132,497 Individuals Identifies Novel Gene-Sets Associated with Body Mass Index
Cited by: 4
Author(s): Matthew A. Simonson, Matthew B. McQueen, Matthew C. Keller
Software Mentions: 4
Published: over 10 years ago

10.1186/s12862-018-1173-6

Admixture, evolution, and variation in reproductive isolation in the Boechera puberula clade
Cited by: 8
Author(s): M. Schilling, Zachariah Gompert, Fay‐Wei Li, Michael D. Windham, Paul G. Wolf
Software Mentions: 3
Published: about 6 years ago

10.1186/1471-2105-14-20

Testing robustness of relative complexity measure method constructing robust phylogenetic trees for Galanthus L. Using the relative complexity measure
Cited by: 4
Author(s): Yasin Bakış, Hasan H. Otu, Nivart Taşçı, Cem Meydan, Neş’e Bilgin, Sırrı Yüzbaşıoğlu, Osman Uğur Sezerman
Software Mentions: 3
Published: over 11 years ago

10.1371/journal.pcbi.1007296

Ten simple rules for helping newcomers become contributors to open projects
Cited by: 17
Author(s): Dan Sholler, Igor Steinmacher, Denae Ford, Mara Averick, Mike Hoye, Greg Wilson
Software Mentions: 3
Published: over 4 years ago

10.1007/s00394-016-1356-0

Red and processed meat consumption and risk of bladder cancer: a dose–response meta-analysis of epidemiological studies
Cited by: 47
Author(s): Alessio Crippa, Susanna C. Larsson, Andrea Discacciati, Alicja Wolk, Nicola Orsini
Software Mentions: 3
Published: over 7 years ago

10.7717/peerj.1702

Influence of whole-wheat consumption on fecal microbial community structure of obese diabetic mice
Cited by: 34
Author(s): José F. García-Mazcorro, Ivan Ivanov, David A. Mills, Giuliana Noratto
Software Mentions: 3
Published: about 8 years ago

10.1007/s00394-020-02345-7

Egg consumption and cardiovascular risk: a dose–response meta-analysis of prospective cohort studies
Cited by: 35
Author(s): Justyna Godos, Agnieszka Micek, Tomasz Brzostek, Estefanía Toledo, Licia Iacoviello, Arne Astrup, Oscar H. Franco, Fabio Galvano, Giuseppe Grosso
Software Mentions: 3
Published: over 3 years ago

10.1186/s12872-020-01354-y

Relationship between fluoroquinolones and the risk of aortic diseases: a meta-analysis of observational studies
Cited by: 15
Author(s): Xiao Ce Dai, Xin Yang, Lan Ma, Guan Min Tang, Yan Pan, Hui Lin Hu
Software Mentions: 3
Published: over 4 years ago

10.1186/s13071-019-3615-4

DNA methylation and hydroxymethylation profiles reveal possible role of highly methylated TLR signaling on Fasciola gigantica excretory/secretory products (FgESPs) modulation of buffalo dendritic cells
Cited by: 8
Author(s): Xuefang Mei, Wei Shi, Yao‐Yao Zhang, Bin Zhu, Yu-Rui Wang, Lin-jing Hou, Wei Zhao, Jian Li, Dongying Wang, Honglin Luo, Weiyi Huang
Software Mentions: 3
Published: almost 5 years ago

10.1093/database/bau112

HGV&TB: a comprehensive online resource on human genes and genetic variants associated with tuberculosis
Cited by: 3
Author(s): Ruchika Sahajpal, Gaurav Kandoi, Heena Dhiman, Sweety Raj, Vinod Scaria, Deeksha Bhartiya, Yasha Hasija
Software Mentions: 3
Published: over 9 years ago

10.15252/emmm.202012104

Chromatin accessibility landscape of pediatric T‐lymphoblastic leukemia and human T‐cell precursors
Cited by: 10
Author(s): Büşra Erarslan-Uysal, Joachim Kunz, Tobias Rausch, Paulina Richter-Pechańska, Ianthe Aem van Belzen, Viktoras Frismantas, Beat Bornhäuser, Diana Ordoñez-Rueada, Malte Paulsen, Vladimı́r Beneš, Martin Stanulla, Martin Schrappe, Gunnar Cario, Gabriele Escherich, Kseniya Bakharevich, Renate Kirschner-Schwabe, Cornelia Eckert, Tsvetomir Loukanov, Matthias Gorenflo, Sebastian M. Waszak, Jean‐Pierre Bourquin, Martina U. Muckenthaler, Jan O. Korbel, Andreas E. Kulozik
Software Mentions: 3
Published: almost 4 years ago

10.1186/s13148-020-00876-8

Epigenome-wide DNA methylation analysis of small cell lung cancer cell lines suggests potential chemotherapy targets
Cited by: 34
Author(s): Julia Krushkal, Thomas Silvers, William C. Reinhold, Dmitriy Sonkin, Suleyman Vural, John W. Connelly, Sudhir Varma, Paul S. Meltzer, Mark W. Kunkel, Annamaria Rapisarda, David M. Evans, Yves Pommier, Beverly A. Teicher
Software Mentions: 3
Published: almost 4 years ago

10.1371/journal.pgen.1005166

Systematic Profiling of Poly(A)+ Transcripts Modulated by Core 3’ End Processing and Splicing Factors Reveals Regulatory Rules of Alternative Cleavage and Polyadenylation
Cited by: 207
Author(s): Wencheng Li, Bo You, Mainul Hoque, Dinghai Zheng, Wenting Luo, Zhe Ji, Ji Yeon Park, Samuel Gunderson, Auinash Kalsotra, James L. Manley, Bin Tian
Software Mentions: 3
Published: about 9 years ago

10.3390/vaccines9040341

Factors Influencing the Efficacy of COVID-19 Vaccines: A Quantitative Synthesis of Phase III Trials
Cited by: 22
Author(s): Luigino Calzetta, Beatrice Ludovica Ritondo, Angelo Coppola, Maria Gabriella Matera, Nicola Di Daniele, Paola Rogliani
Software Mentions: 3
Published: about 3 years ago

10.7717/peerj.9187

Application of High Resolution Melt analysis (HRM) for screening haplotype variation in a non-model plant genus: Cyclopia (Honeybush)
Cited by: 8
Author(s): Nicholas C. Galuszynski, Alastair J. Potts
Software Mentions: 3
Published: almost 4 years ago

10.1016/j.dib.2020.106337

Standardized data to support conservation prioritization for sharks and batoids (Elasmobranchii)
Cited by: 2
Author(s): Rikke Oegelund Nielsen, Rita da Silva, Jacqueline Juergens, Johanna Staerk, Line L. Sørensen, John A Jackson, Simeon Q. Smeele, Dalia Amor Conde
Software Mentions: 3
Published: over 3 years ago

10.1155/2018/2178610

A Network Pharmacology Approach to Uncover the Potential Mechanism of Yinchensini Decoction
Cited by: 32
Author(s): Guo-Ming Chen, Chuyao Huang, Yunyun Liu, Tengyu Chen, Ru Huang, Miaozhen Liang, Jie Zhang, Haowen Xu
Software Mentions: 3
Published: over 5 years ago

10.1371/journal.pone.0228811

Environmental DNA from plastic and textile marine litter detects exotic and nuisance species nearby ports
Cited by: 26
Author(s): Aitor Ibabe, Fernando Rayón, José Luis Martínez, Eva García‐Vázquez
Software Mentions: 3
Published: almost 4 years ago

10.1371/journal.pone.0002126

Systematic Identification of mRNAs Recruited to Argonaute 2 by Specific microRNAs and Corresponding Changes in Transcript Abundance
Cited by: 162
Author(s): David G. Hendrickson, Daniel J. Hogan, Daniel Herschlag, James E. Ferrell, Patrick O. Brown
Software Mentions: 3
Published: about 16 years ago

10.1097/MD.0000000000027323

Chinese herbal medicines for mild cognitive impairment
Cited by: 1
Author(s): Si-Chun Gu, Limin Zhang, Chunxu Wang, Yan-Jie Qu, Jingyi Ma, Rong-Rong Zhen, Chao Gu, Can-Xing Yuan
Software Mentions: 3
Published: over 2 years ago

10.1371/journal.pone.0257194

Experiences of transgender and non-binary youth accessing gender-affirming care: A systematic review and meta-ethnography
Cited by: 30
Author(s): Seán Kearns, Thilo Kroll, Donal O’Shea, K. W. Neff
Software Mentions: 3
Published: over 2 years ago

10.1097/MD.0000000000026756

Salivary peptest for laryngopharyngeal reflux and gastroesophageal reflux disease
Cited by: 4
Author(s): Zihao Guo, Jiali Jiang, Hao Wu, Jinxia Zhu, Shutian Zhang, Chuan Zhang
Software Mentions: 3
Published: over 2 years ago

10.1186/s12877-017-0575-4

Effectiveness and safety of beta blockers in the management of hypertension in older adults: a systematic review to help reduce inappropriate prescribing
Cited by: 23
Author(s): Anna Vögele, Tim Johansson, Anna Renom‐Guiteras, David Reeves, Anja Rieckert, Lisa Schlender, Anne-Lisa Teichmann, Andreas Sönnichsen, Yolanda V Martínez
Software Mentions: 3
Published: over 6 years ago

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