cran: ROCR | Projects | Ecosyste.ms: Papers

10.1186/s13075-021-02484-0

Deep learning for detection of radiographic sacroiliitis: achieving expert-level performance
Cited by: 30
Author(s): Keno K. Bressem, Janis L. Vahldiek, Lisa C. Adams, Stefan M. Niehues, Hildrun Haibel, V. Rios Rodriguez, Murat Torğutalp, Mikhail Protopopov, Fabian Proft, Judith Rademacher, Joachim Sieper, Martín Rudwaleit, Bernd Hamm, Marcus R. Makowski, Kay-Geert A. Hermann, Denis Poddubnyy
Software Mentions: 4
Published: over 3 years ago

10.3389/fnhum.2021.622224

Predicting Student Performance Using Machine Learning in fNIRS Data
Cited by: 10
Author(s): Amanda Yumi Ambriola Oku, João Ricardo Sato
Software Mentions: 4
Published: almost 4 years ago

10.1186/s12865-019-0322-z

Subsets of mononuclear phagocytes are enriched in the inflamed colons of patients with IBD
Cited by: 45
Author(s): Hong Liu, Suryasarathi Dasgupta, Yu Fu, Brandi Bailey, Christian Roy, Eric S. Lightcap, Benjamin Faustin
Software Mentions: 4
Published: about 5 years ago

10.1038/s41598-018-23957-4

Differences in DNA Methylation and Functional Expression in Lactase Persistent and Non-persistent Individuals
Cited by: 28
Author(s): Milena Leseva, Richard J. Grand, Hagen Klett, Melanie Boerries, Hauke Busch, Alexandra M. Binder, Karin B. Michels
Software Mentions: 4
Published: over 6 years ago

10.1038/s41598-017-17143-1

Improving Gene Regulatory Network Inference by Incorporating Rates of Transcriptional Changes
Cited by: 16
Author(s): Jigar Desai, Ryan C. Sartor, Lovely Mae F Lawas, S. V. Krishna Jagadish, Colleen J. Doherty
Software Mentions: 4
Published: almost 7 years ago

10.1038/s41598-017-16352-y

First-trimester vaginal microbiome diversity: A potential indicator of preterm delivery risk
Cited by: 48
Author(s): Mohammed Monzoorul Haque, Mitali Merchant, Pinna Nishal Kumar, Anirban Dutta, Sharmila S. Mande
Software Mentions: 4
Published: almost 7 years ago

10.1186/1471-2105-14-125

Random forest methodology for model-based recursive partitioning: the mobForest package for R
Cited by: 65
Author(s): Nikhil Garge, Georgiy Bobashev, Barry Eggleston
Software Mentions: 4
Published: over 11 years ago

10.1371/journal.pcbi.0030058

Structural Descriptors of gp120 V3 Loop for the Prediction of HIV-1 Coreceptor Usage
Cited by: 84
Author(s): Oliver Sander, Tobias Sing, Iris E. Sommer, Andrew Low, Peter K. Cheung, P. Richard Harrigan, Thomas Lengauer, Francisco S. Domingues
Software Mentions: 4
Published: over 17 years ago

10.1038/srep34838

lncScore: alignment-free identification of long noncoding RNA from assembled novel transcripts
Cited by: 39
Author(s): Jian Zhao, Xiaofeng Song, Kai Wang
Software Mentions: 4
Published: about 8 years ago

10.1186/1471-2164-12-192

FungalRV: adhesin prediction and immunoinformatics portal for human fungal pathogens
Cited by: 64
Author(s): Rupanjali Chaudhuri, Faraz Alam Ansari, Muthukurussi Varieth Raghunandanan, Srinivasan Ramachandran
Software Mentions: 4
Published: over 13 years ago

10.1186/s12941-020-00408-5

Dysbiosis of urine microbiota in obstructive urinary retention patients revealed by next-generation sequencing
Cited by: 4
Author(s): Shan Jiang, Saisai Lu, Xiaomin Chen, Fengxia Li, Ce Zhu, Yuanyuan Zheng, Xiaobing Wang, Shihao Xu
Software Mentions: 4
Published: almost 4 years ago

10.1371/journal.pgen.1007376

Colorectal cancer mutational profiles correlate with defined microbial communities in the tumor microenvironment
Cited by: 59
Author(s): Michael B. Burns, Emmanuel Montassier, Juan E. Abrahante, Sambhawa Priya, David Niccum, Alexander Khoruts, Timothy K. Starr, Dan Knights, Ran Blekhman
Software Mentions: 4
Published: over 6 years ago

10.1098/rsos.171398

Isotopic niche reflects stress-induced variability in physiological status
Cited by: 41
Author(s): Agnes M. L. Karlson, Martin Reutgard, Andrius Garbaras, Elena Gorokhova
Software Mentions: 4
Published: almost 7 years ago

10.1371/journal.pntd.0003614

Ecological and Sociodemographic Determinants of House Infestation by Triatoma infestans in Indigenous Communities of the Argentine Chaco
Cited by: 37
Author(s): María Sol Gaspe, Yael Mariana Provecho, Marta Victoria Cardinal, María del Pilar Fernández, Ricardo E. Gürtler
Software Mentions: 4
Published: over 9 years ago

10.1371/journal.pone.0240948

Predictions from algorithmic modeling result in better decisions than from data modeling for soybean iron deficiency chlorosis
Cited by: 2
Author(s): Zhanyou Xu, Andreomar Kurek, Steven B. Cannon, William D. Beavis
Software Mentions: 4
Published: over 3 years ago

10.1371/journal.pone.0246027

Procalcitonin, C-reactive protein, neutrophil gelatinase-associated lipocalin, resistin and the APTT waveform for the early diagnosis of serious bacterial infection and prediction of outcome in critically ill children
Cited by: 5
Author(s): Maryke Nielsen, Paul Baines, Rebecca Jennings, Sarah Siner, Ruwanthi Kolamunnage-Donà, Paul Newland, Matthew Peak, Christine Chesters, Graham Jeffers, Colin Downey, Caroline Broughton, Lynsey McColl, Jennifer Preston, Anthony Mckeever, Stéphane Paulus, Nigel Cunliffe, Enitan D. Carrol
Software Mentions: 4
Published: almost 4 years ago

10.1371/journal.pone.0052021

Prospective Transcriptomic Pathway Analysis of Human Lymphatic Vascular Insufficiency: Identification and Validation of a Circulating Biomarker Panel
Cited by: 46
Author(s): Shin Lin, Jeanna Kim, Mi-Joung Lee, Leslie Roche, Nancy L. Yang, Philip S. Tsao, Stanley G. Rockson
Software Mentions: 4
Published: almost 12 years ago

10.1098/rsob.200052

Bioinformatical dissection of fission yeast DNA replication origins
Cited by: 1
Author(s): Koji Masuda, Claire Renard-Guillet, Katsuhiko Shirahige, Takashi Sutani
Software Mentions: 4
Published: over 4 years ago

10.1186/s12872-018-0941-y

Time trends in statin use and incidence of recurrent cardiovascular events in secondary prevention between 1999 and 2013: a registry-based study
Cited by: 17
Author(s): Nele Laleman, Séverine Henrard, Marjan van den Akker, Geert Goderis, Frank Buntinx, Gijs Van Pottelbergh, Bert Vaes
Software Mentions: 4
Published: about 6 years ago

10.3390/jcm9051418

Circulating MicroRNAs as Potential Predictors of Anthracycline-Induced Troponin Elevation in Breast Cancer Patients: Diverging Effects of Doxorubicin and Epirubicin
Cited by: 27
Author(s): Sonia Gioffré, Mattia Chiesa, Daniela Cardinale, Veronica Ricci, Chiara Vavassori, Carlo M. Cipolla, Serge Masson, Maria Teresa Sandri, Michela Salvatici, Fabio Ciceri, Roberto Latini, Lidia Staszewsky, Giulio Pompilio, Gualtiero I. Colombo, Yuri D’Alessandra
Software Mentions: 4
Published: over 4 years ago

10.1186/s12968-017-0387-x

A novel multiparametric imaging approach to acute myocarditis using T2-mapping and CMR feature tracking
Cited by: 30
Author(s): Bettina Baeßler, Melanie Treutlein, Frank Schaarschmidt, Christian Stehning, Bernhard Schnackenburg, Guido Michels, David Maintz, Alexander C. Bunck
Software Mentions: 4
Published: about 7 years ago

10.1117/1.JBO.25.11.116002

Statistical evaluation of reader variability in assessing the diagnostic performance of optical coherence tomography
Cited by: 1
Author(s): Sarah J. Erickson-Bhatt, Douglas G. Simpson, Stephen A. Boppart
Software Mentions: 4
Published: about 4 years ago

10.1371/journal.pone.0176176

Disturbance of a rare seabird by ship-based tourism in a marine protected area
Cited by: 10
Author(s): Timothy K. Marcella, Scott M. Gende, Daniel D. Roby, Arthur Allignol
Software Mentions: 4
Published: over 7 years ago

10.1186/s13073-021-00944-5

Transfer learning between preclinical models and human tumors identifies a conserved NK cell activation signature in anti-CTLA-4 responsive tumors
Cited by: 10
Author(s): Emily F. Davis-Marcisak, Allison A. Fitzgerald, Michael Kessler, Ludmila Danilova, Elizabeth M. Jaffee, Neeha Zaidi, Louis M. Weiner, Elana J. Fertig
Software Mentions: 4
Published: over 3 years ago

10.3389/fimmu.2018.02318

Commensal Escherichia coli Strains Can Promote Intestinal Inflammation via Differential Interleukin-6 Production
Cited by: 53
Author(s): Hatem Kittana, João Carlos Gomes-Neto, Kari Heck, Abby L. Geis, Rafael R. Segura Muñoz, Liz A. Cody, Robert Schmaltz, Laure B. Bindels, Rohita Sinha, Jesse M. Hostetter, Andrew K. Benson, Amanda E. Ramer‐Tait
Software Mentions: 4
Published: about 6 years ago

10.1371/journal.pone.0182356

BARD1 serum autoantibodies for the detection of lung cancer
Cited by: 18
Author(s): Maxim Pilyugin, Pascaline Descloux, Pierre Alain André, Viktória László, Balázs Döme, Balázs Hegedűs, Sylvain Sardy, Sam M. Janes, Andrea Bianco, Geoffrey J. Laurent, Irmgard Irminger-Finger
Software Mentions: 4
Published: over 7 years ago

10.1186/s13073-014-0125-z

Higher gene expression variability in the more aggressive subtype of chronic lymphocytic leukemia
Cited by: 51
Author(s): Simone Ecker, Véra Pancaldi, Daniel Rico, Alfonso Valencia
Software Mentions: 4
Published: almost 10 years ago

10.1186/s13059-019-1757-5

Multilayered control of exon acquisition permits the emergence of novel forms of regulatory control
Cited by: 14
Author(s): Nesli Avgan, Juli I. Wang, Javier Fernández-Chamorro, Robert J. Weatheritt
Software Mentions: 4
Published: over 5 years ago

10.1371/journal.pone.0041370

Identification of Catalytic Residues Using a Novel Feature that Integrates the Microenvironment and Geometrical Location Properties of Residues
Cited by: 12
Author(s): Lei Han, Yongjun Zhang, Jiangning Song, Ming S. Liu, Ziding Zhang
Software Mentions: 4
Published: over 12 years ago

10.1371/journal.pone.0118808

Prediction of Chemical Respiratory Sensitizers Using GARD, a Novel In Vitro Assay Based on a Genomic Biomarker Signature
Cited by: 31
Author(s): Andy Forreryd, Henrik Johansson, Ann-Sofie Albrekt, Carl Borrebaeck, Malin Lindstedt
Software Mentions: 4
Published: over 9 years ago

10.1371/journal.pone.0098122

A Bayesian Method to Incorporate Hundreds of Functional Characteristics with Association Evidence to Improve Variant Prioritization
Cited by: 30
Author(s): Sarah A. Gagliano, Michael R. Barnes, Michael E. Weale, Jo Knight
Software Mentions: 4
Published: over 10 years ago

10.1371/journal.pone.0072966

EGFR Exon-Level Biomarkers of the Response to Bevacizumab/Erlotinib in Non-Small Cell Lung Cancer
Cited by: 11
Author(s): Florent Baty, Sacha I. Rothschild, Martin Früh, Daniel Betticher, Cornelia Dröge, Richard Cathomas, Daniel Rauch, Oliver Gautschi, Lukas Bubendorf, Susanne Crowe, Francesco Zappa, Miklos Pless, Martin Brutsche
Software Mentions: 4
Published: about 11 years ago

10.1186/s12915-020-00783-7

Tropomyosin 1 genetically constrains in vitro hematopoiesis
Cited by: 8
Author(s): Christopher S. Thom, Chintan Jobaliya, Kimberly Lorenz, Jean Ann Maguire, Alyssa Gagne, Paul Gadue, Deborah L. French, Benjamin F. Voight
Software Mentions: 4
Published: over 4 years ago

10.1371/journal.pone.0185997

Mid-infrared spectroscopy of serum, a promising non-invasive method to assess prognosis in patients with ascites and cirrhosis
Cited by: 16
Author(s): Maëna Le Corvec, Caroline Jézéquel, Valérie Monbet, Nadia Fatih, Frédéric Charpentier, Hugues Tariel, Catherine Boussard‐Plédel, Bruno Bureau, Olivier Loréal, Olivier Sire, Édouard Bardou-Jacquet
Software Mentions: 4
Published: about 7 years ago

10.1186/1471-2407-14-739

MicroRNA expression as risk biomarker of breast cancer metastasis: a pilot retrospective case-cohort study
Cited by: 42
Author(s): Augusto L F Marino, Adriane Feijó Evangelista, René Aloísio da Costa Vieira, Taciane Macedo, Lígia Maria Kerr, Lucas Faria Abrahão-Machado, Adhemar Longatto‐Filho, Henrique C. S. Silveira, Márcia Maria Chiquitelli Marques
Software Mentions: 4
Published: about 10 years ago

10.3389/fmed.2020.00451

Evaluating Distribution and Prognostic Value of New Tumor-Infiltrating Lymphocytes in HCC Based on a scRNA-Seq Study With CIBERSORTx
Cited by: 13
Author(s): Lixing Li, Lu Shen, Jianchao Ma, Qiang Zhou, M Li, Hao Wu, Muyun Wei, Di Zhang, Ting Wang, Shengying Qin, Tonghai Xing
Software Mentions: 4
Published: about 4 years ago

10.3389/fgene.2016.00139

Comparing Analytic Methods for Longitudinal GWAS and a Case-Study Evaluating Chemotherapy Course Length in Pediatric AML. A Report from the Children's Oncology Group
Cited by: 2
Author(s): Marijana Vujkovic, Richard Aplenc, Todd A. Alonzo, Alan S. Gamis, Yimei Li
Software Mentions: 4
Published: over 8 years ago

10.3389/fcvm.2021.614204

Development and Validation of a Predictive Model for Coronary Artery Disease Using Machine Learning
Cited by: 7
Author(s): Chen Wang, Yue Zhao, Bingyu Jin, Xuedong Gan, Bin Liang, Yu‐Tao Xiang, Xiaokang Zhang, Zhibing Lu, Fang Zheng
Software Mentions: 4
Published: almost 4 years ago

10.3389/fbioe.2020.00206

Predicting the Risk of Melanoma Metastasis Using an Immune Risk Score in the Melanoma Cohort
Cited by: 4
Author(s): Yang Sheng, Cheng Yan-ping, Tong Liu, Ning Liu, Yufeng Liu, Geyu Liang
Software Mentions: 4
Published: over 4 years ago

10.1007/s00330-017-5031-5

Optimising preoperative risk stratification tools for prostate cancer using mpMRI
Cited by: 17
Author(s): Lars Anders Rokne Reisæter, Jurgen J. Fütterer, Are Losnegård, Yngve Nygård, Jan Ankar Monssen, Karsten Gravdal, Ole J. Halvorsen, Lars A. Akslen, Martin Biermann, Svein A. Haukaas, Jarle Rørvik, Christian Beisland
Software Mentions: 4
Published: about 7 years ago

10.1186/s12874-016-0254-8

Least absolute shrinkage and selection operator type methods for the identification of serum biomarkers of overweight and obesity: simulation and application
Cited by: 119
Author(s): Monica M. Vasquez, Chengcheng Hu, Denise J. Roe, Zhao Chen, Marilyn Halonen, Stefano Guerra
Software Mentions: 4
Published: about 8 years ago

10.1186/s12891-020-03335-w

Complications of bone transport technique using the Ilizarov method in the lower extremity: a retrospective analysis of 282 consecutive cases over 10 years
Cited by: 39
Author(s): Yanshi Liu, Maimaiaili Yushan, Zhenhui Liu, Jialin Liu, Chuang Ma, Aihemaitijiang Yusufu
Software Mentions: 3
Published: over 4 years ago

10.1186/s13321-016-0158-y

Rocker: Open source, easy-to-use tool for AUC and enrichment calculations and ROC visualization
Cited by: 69
Author(s): Sakari Lätti, Sanna Niinivehmas, Olli T. Pentikäinen
Software Mentions: 3
Published: about 8 years ago

10.1038/s41598-019-53973-x

Identification of Sero-Diagnostic Antigens for the Early Diagnosis of Johne’s Disease using MAP Protein Microarrays
Cited by: 6
Author(s): Lingling Li, John P. Bannantine, Joseph J. Campo, Arlo Randall, Yrjo T. Gröhn, Megan A. Schilling, Robab Katani, Jessica Radzio‐Basu, Laurel A. Easterling, Vivek Kapur
Software Mentions: 3
Published: almost 5 years ago

10.1371/journal.pone.0043557

Exploiting Protein-Protein Interaction Networks for Genome-Wide Disease-Gene Prioritization
Cited by: 87
Author(s): Emre Güney, Baldo Oliva
Software Mentions: 3
Published: about 12 years ago

10.1186/1471-2105-10-153

Tableau-based protein substructure search using quadratic programming
Cited by: 11
Author(s): Alex Stivala, Anthony Wirth, Peter J. Stuckey
Software Mentions: 3
Published: over 15 years ago

10.1186/1471-2105-11-446

Fast and accurate protein substructure searching with simulated annealing and GPUs
Cited by: 44
Author(s): Alex Stivala, Peter J. Stuckey, Anthony Wirth
Software Mentions: 3
Published: about 14 years ago

10.1186/1471-2105-11-285

Preferred analysis methods for Affymetrix GeneChips. II. An expanded, balanced, wholly-defined spike-in dataset
Cited by: 34
Author(s): Qianqian Zhu, Jeffrey C. Miecznikowski, Marc S. Halfon
Software Mentions: 3
Published: over 14 years ago

10.1371/journal.pone.0203903

Urinary steroid profiling in women hints at a diagnostic signature of the polycystic ovary syndrome: A pilot study considering neglected steroid metabolites
Cited by: 30
Author(s): Nasser Dhayat, Nesa Marti, Zahraa Kollmann, Amineh Troendle, Lia Bally, Geneviève Escher, Michael Groessl, Daniel Ackermann, Belén Ponte, Menno Pruijm, Michael Müller, Bruno Vogt, Martin Birkhäuser, Murielle Bochud, Christa E Flueck
Software Mentions: 3
Published: about 6 years ago

10.1186/s12885-020-07157-w

Network-based identification of biomarkers for colon adenocarcinoma
Cited by: 5
Author(s): Fuyan Hu, Qing Wang, Zhiyuan Yang, Zhen Zeng, Xiaoping Li
Software Mentions: 3
Published: over 4 years ago

10.1371/journal.pone.0055996

Assessing Regional and Interspecific Variation in Threshold Responses of Forest Breeding Birds through Broad Scale Analyses
Cited by: 14
Author(s): Yntze van der Hoek, Rosalind B. Renfrew, Lisa L. Manne
Software Mentions: 3
Published: almost 12 years ago

10.1016/j.csbj.2017.01.009

The effects of shared information on semantic calculations in the gene ontology
Cited by: 3
Author(s): Paul W. Bible, Hongwei Sun, María I. Morasso, Rasiah Loganantharaj, Lai Wei
Software Mentions: 3
Published: almost 8 years ago

10.1016/j.biocon.2014.03.020

Out of sight but not out of harm’s way: Human disturbance reduces reproductive success of a cavity-nesting seabird
Cited by: 39
Author(s): Hannah Watson, Mark Bolton, Patricia Monaghan
Software Mentions: 3
Published: over 10 years ago

10.1186/s13054-021-03544-2

Urinary metabolites predict mortality or need for renal replacement therapy after combat injury
Cited by: 12
Author(s): Sarah Gisewhite, Ian J. Stewart, Greg J. Beilman, Elizabeth R. Lusczek
Software Mentions: 3
Published: over 3 years ago

10.15252/msb.20156506

Integrative analyses reveal signaling pathways underlying familial breast cancer susceptibility
Cited by: 13
Author(s): Stephen R. Piccolo, Laura M. Hoffman, Thomas Conner, Gajendra Shrestha, Adam L. Cohen, Jeffrey R. Marks, Leigh Neumayer, Cori A. Agarwal, Mary C. Beckerle, Irene L. Andrulis, Avrum Spira, Philip J. Moos, Saundra S. Buys, W. Evan Johnson, Andrea Bild
Software Mentions: 3
Published: over 8 years ago

10.1186/s12864-016-3143-y

Mining kidney toxicogenomic data by using gene co-expression modules
Cited by: 21
Author(s): Mohamed Diwan M. AbdulHameed, Danielle L. Ippolito, Jonathan D. Stallings, Anders Wallqvist
Software Mentions: 3
Published: about 8 years ago

10.1093/bioinformatics/bty545

Kinome-wide identification of phosphorylation networks in eukaryotic proteomes
Cited by: 6
Author(s): Luca Parca, Bruno Ariano, Andrea Cabibbo, Martina Paoletti, Annalaura Tamburrini, Antonio Palmeri, Gabriele Ausiello, Manuela Helmer-Citterich
Software Mentions: 3
Published: over 6 years ago

10.1186/s13073-015-0228-1

A genome-wide approach to link genotype to clinical outcome by utilizing next generation sequencing and gene chip data of 6,697 breast cancer patients
Cited by: 65
Author(s): Lőrinc Sándor Pongor, M Kormos, Christos Hatzis, Lajos Pusztai, András Szabó, Balázs Győrffy
Software Mentions: 3
Published: about 9 years ago

10.1371/journal.pone.0011447

Identification of the Feline Humoral Immune Response to Bartonella henselae Infection by Protein Microarray
Cited by: 34
Author(s): Adam Vigil, Rocio Ortega, Aarti Jain, Rie Nakajima-Sasaki, Xiaolin Tan, Bruno B Chomel, Rickie W. Kasten, Jane E. Koehler, Philip L. Felgner
Software Mentions: 3
Published: over 14 years ago

10.1186/s10194-020-01157-8

Influence of headache pain intensity and frequency on migraine-related disability in chronic migraine patients treated with OnabotulinumtoxinA
Cited by: 22
Author(s): Marta Torres‐Ferrús, Víctor José Gallardo, Alicia Alpuente, Patricia Pozo‐Rosich
Software Mentions: 3
Published: over 4 years ago

10.1155/2014/162150

Evaluation of 11 Scoring Functions Performance on Matrix Metalloproteinases
Cited by: 10
Author(s): Jamal Shamsara
Software Mentions: 3
Published: almost 10 years ago

10.1371/journal.pone.0253855

Identification of average molecular weight (AMW) as a useful chemical descriptor to discriminate liver injury-inducing drugs
Cited by: 1
Author(s): Yuki Shimizu, Takuma Sasaki, Jun-ichi Takeshita, Michiko Watanabe, Ryota Shizu, Takeshi Hosaka, Kouichi Yoshinari
Software Mentions: 3
Published: over 3 years ago

10.1371/journal.pone.0214650

Temporal, spatial and household dynamics of Typhoid fever in Kasese district, Uganda
Cited by: 10
Author(s): Bernadette Basuta Mirembe, Stella Mazeri, Rebecca Callaby, Luke Nyakarahuka, Clovice Kankya, Adrian Muwonge
Software Mentions: 3
Published: over 5 years ago

10.1016/j.epidem.2018.02.004

Identifying genotype specific elevated-risk areas and associated herd risk factors for bovine tuberculosis spread in British cattle
Cited by: 8
Author(s): Richard Orton, Michael Deason, Paul R. Bessell, Darren M. Green, Rowland R. Kao, Liliana C. M. Salvador
Software Mentions: 3
Published: about 6 years ago

10.1186/1476-4598-13-114

Serum cytokine biomarker panels for discriminating pancreatic cancer from benign pancreatic disease
Cited by: 52
Author(s): Victoria Shaw, Brian Lane, Claire Jenkinson, Trevor F. Cox, William Greenhalf, Christopher Halloran, Joseph Tang, Robert Sutton, John P. Neoptolemos, Eithne Costello
Software Mentions: 3
Published: over 10 years ago

10.1186/1479-5876-11-74

In silico approaches for designing highly effective cell penetrating peptides
Cited by: 222
Author(s): Ankur Gautam, Kumardeep Chaudhary, Rahul Kumar, Arun Sharma, Pallavi Kapoor, Atul Tyagi, Gajendra P. S. Raghava
Software Mentions: 3
Published: over 11 years ago

10.3389/fgene.2013.00291

Network statistics of genetically-driven gene co-expression modules in mouse crosses
Cited by: 4
Author(s): Marie Pier Scott-Boyer, Benjamin Haibe‐Kains, Christian F. Deschepper
Software Mentions: 3
Published: almost 12 years ago

10.1186/s13059-015-0784-0

WU-CRISPR: characteristics of functional guide RNAs for the CRISPR/Cas9 system
Cited by: 248
Author(s): Nathan Wong, Wei Jun Liu, Xiaowei Wang
Software Mentions: 3
Published: about 9 years ago

10.1371/journal.pone.0149895

External Validation of Prediction Models for Pneumonia in Primary Care Patients with Lower Respiratory Tract Infection: An Individual Patient Data Meta-Analysis
Cited by: 16
Author(s): Alwin Schierenberg, Margaretha C. Minnaard, Rogier Hopstaken, Alma C van de Pol, Berna D L Broekhuizen, Niek J. de Wit, Johannes B. Reitsma, Saskia F. de Vries-van Vugt, Aleida W. Graffelman, Hasse Melbye, Timothy Rainer, Johann Steurer, Anette Holm, Ralph Gonzales, Geert Jan Dinant, Joris A H de Groot, Theo Verheij
Software Mentions: 3
Published: over 8 years ago

10.1371/journal.pone.0073957

In Silico Approach for Predicting Toxicity of Peptides and Proteins
Cited by: 982
Author(s): Sudheer Gupta, Pallavi Kapoor, Kumardeep Chaudhary, Ankur Gautam, Rahul Kumar, Gajendra P. S. Raghava
Software Mentions: 3
Published: about 11 years ago

10.1186/s12859-017-1537-8

GATK hard filtering: tunable parameters to improve variant calling for next generation sequencing targeted gene panel data
Cited by: 64
Author(s): Simona De Summa, Giovanni Malerba, Rosamaria Pinto, Antonio Mori, Vladan Mijatovic, Stefania Tommasi
Software Mentions: 3
Published: over 7 years ago

10.1186/2049-2618-1-31

Community differentiation of the cutaneous microbiota in psoriasis
Cited by: 315
Author(s): Alexander V. Alekseyenko, Guillermo I. Perez-Perez, Aieska de Souza, Bruce Strober, Zhan Gao, Monika Bihan, Kelvin Li, Barbara A. Methé, Martin J. Blaser
Software Mentions: 3
Published: almost 11 years ago

10.1016/j.ebiom.2014.10.003

An Endotoxin Tolerance Signature Predicts Sepsis and Organ Dysfunction at Initial Clinical Presentation
Cited by: 110
Author(s): Olga M. Pena, David G. Hancock, Ngan H. Lyle, Adam Linder, James A. Russell, Jianguo Xia, Christopher D. Fjell, John H. Boyd, Robert E. W. Hancock
Software Mentions: 3
Published: about 10 years ago

10.1371/journal.pone.0201925

MicroRNA regulation in blood cells of renal transplanted patients with interstitial fibrosis/tubular atrophy and antibody-mediated rejection
Cited by: 15
Author(s): Mareen Matz, Frederik Heinrich, Christine Lorkowski, Kaiyin Wu, Jens Klotsche, Qiang Zhang, Nils Lachmann, Pawel Durek, Klemens Budde, Mir‐Farzin Mashreghi
Software Mentions: 3
Published: over 6 years ago

10.1371/journal.pone.0118432

The Precision-Recall Plot Is More Informative than the ROC Plot When Evaluating Binary Classifiers on Imbalanced Datasets
Cited by: 2,230
Author(s): Takaya Saito, Marc Rehmsmeier
Software Mentions: 3
Published: over 9 years ago

10.1371/journal.pone.0057310

Improvement in Prediction of Coronary Heart Disease Risk over Conventional Risk Factors Using SNPs Identified in Genome-Wide Association Studies
Cited by: 22
Author(s): Jennifer L. Bolton, Marlene Stewart, James F. Wilson, Niall Anderson, Jackie F. Price
Software Mentions: 3
Published: over 11 years ago

10.1038/s41598-020-68383-7

A nomogram model for screening the risk of diabetes in a large-scale Chinese population: an observational study from 345,718 participants
Cited by: 9
Author(s): Mingyue Xue, Yinxia Su, Zuyong Feng, Shuxia Wang, Mingchen Zhang, Kai Wang, Hua Yao
Software Mentions: 3
Published: over 4 years ago

10.1186/gb-2012-13-6-r44

SWAN: Subset-quantile Within Array Normalization for Illumina Infinium HumanMethylation450 BeadChips
Cited by: 671
Author(s): Jovana Maksimovic, Lavinia Gordon, Alicia Oshlack
Software Mentions: 3
Published: almost 13 years ago

10.1186/1471-2105-10-388

DISPARE: DIScriminative PAttern REfinement for Position Weight Matrices
Cited by: 9
Author(s): Isabelle da Piedade, Man-Hung Eric Tang, Olivier Elemento
Software Mentions: 3
Published: almost 15 years ago

10.1155/2020/3074313

Urinary I-FABP, L-FABP, TFF-3, and SAA Can Diagnose and Predict the Disease Course in Necrotizing Enterocolitis at the Early Stage of Disease
Cited by: 22
Author(s): Štěpán Coufal, Alena Kokešová, Helena Tlaskalová‐Hogenová, Barbora Frýbová, J Šnajdauf, Michal Rygl, Miloslav Kverka
Software Mentions: 3
Published: over 4 years ago

10.7554/eLife.60220

Identifying molecular features that are associated with biological function of intrinsically disordered protein regions
Cited by: 37
Author(s): Taraneh Zarin, Bob Strome, Gang Peng, Iva Pritišanac, Julie D. Forman‐Kay, Alan M. Moses
Software Mentions: 3
Published: over 3 years ago

10.1186/gb-2007-8-6-r125

Correcting for sequence biases in present/absent calls
Cited by: 29
Author(s): Eugene F. Schuster, Eric Blanc, Linda Partridge, Janet M. Thornton
Software Mentions: 3
Published: almost 18 years ago

10.1186/1755-8794-7-S1-S3

Integrative analysis reveals disease-associated genes and biomarkers for prostate cancer progression
Cited by: 22
Author(s): Yin Li, Wanwipa Vongsangnak, Luonan Chen, Bairong Shen
Software Mentions: 3
Published: over 10 years ago

10.18632/oncotarget.22076

High-grade ovarian serous carcinoma patients exhibit profound alterations in lipid metabolism
Cited by: 48
Author(s): Elena Ioana Braicu, Silvia Darb‐Esfahani, Wolfgang Schmitt, Kaisa M. Koistinen, Laura Heiskanen, Päivi Pöhö, Jan Budczies, Marc Kuhberg, Manfred Dietel, Christian Frezza, Carsten Denkert, Jalid Sehouli, Mika Hilvo
Software Mentions: 3
Published: about 7 years ago

10.1038/s41598-021-98912-x

Performance of a scalable RNA extraction-free transcriptome profiling method for adherent cultured human cells
Cited by: 3
Author(s): Shreya Ghimire, Carley G. Stewart, Andrew L. Thurman, Alejandro A. Pezzulo
Software Mentions: 3
Published: about 3 years ago

10.1371/journal.pcbi.1003711

Enhanced Regulatory Sequence Prediction Using Gapped k-mer Features
Cited by: 421
Author(s): Mahmoud Ghandi, Dongwon Lee, M. Mohammad-Noori, M Beer
Software Mentions: 3
Published: over 10 years ago

10.1371/journal.pone.0105866

Efficacy of a New Educational Tool to Improve Handrubbing Technique amongst Healthcare Workers: A Controlled, Before-After Study
Cited by: 27
Author(s): Andrew J. Stewardson, Anne Iten, Véronique Camus, Angèle Gayet-Ageron, Darren Caulfield, Gerard Lacey, Didier Pittet
Software Mentions: 3
Published: about 10 years ago

10.1186/1471-2105-9-122

Strategies for measuring evolutionary conservation of RNA secondary structures
Cited by: 67
Author(s): Andreas Gruber, Stephan H. Bernhart, Ivo L. Hofacker, Stefan Washietl
Software Mentions: 3
Published: over 16 years ago

10.1371/journal.pcbi.1003908

Regression Analysis of Combined Gene Expression Regulation in Acute Myeloid Leukemia
Cited by: 58
Author(s): Yue Li, Minggao Liang, Zhaolei Zhang
Software Mentions: 3
Published: about 10 years ago

10.3389/fmicb.2018.02957

A miRNA Host Response Signature Accurately Discriminates Acute Respiratory Infection Etiologies
Cited by: 11
Author(s): Gregory Poore, Emily R Ko, Ashlee Valente, Ricardo Henao, Kelsey M. Sumner, Christopher S. Hong, Thomas W. Burke, Marshall Nichols, Micah T. McClain, Erich Huang, Geoffrey S. Ginsburg, Christopher W. Woods, Ephraim L. Tsalik
Software Mentions: 3
Published: almost 6 years ago

10.1371/journal.pgen.1008922

Unified inference of missense variant effects and gene constraints in the human genome
Cited by: 15
Author(s): Yi Huang
Software Mentions: 3
Published: over 4 years ago

10.3390/s18030862

First Evaluation of Infrared Thermography as a Tool for the Monitoring of Udder Health Status in Farms of Dairy Cows
Cited by: 48
Author(s): M. Zaninelli, Veronica Redaelli, F. Luzi, V. Bronzo, M.A. Mitchell, V. Dell’Orto, V. Bontempo, D. Cattaneo, G. Savoini
Software Mentions: 3
Published: over 6 years ago

10.3390/cancers13040632

MicroRNA Profile for Diagnostic and Prognostic Biomarkers in Thyroid Cancer
Cited by: 9
Author(s): Jong‐Lyul Park, Seon‐Kyu Kim, Sora Jeon, Chan Kwon Jung, Yong‐Sung Kim
Software Mentions: 3
Published: almost 4 years ago

10.1186/s12859-016-1392-z

Finding an appropriate equation to measure similarity between binary vectors: case studies on Indonesian and Japanese herbal medicines
Cited by: 13
Author(s): Sony Hartono Wijaya, Farit Mochamad Afendi, Irmanida Batubara, Latifah Kosim Darusman, Md. Altaf-Ul-Amin, Shigehiko Kanaya
Software Mentions: 3
Published: almost 8 years ago

10.1186/s12859-018-2251-x

An integrative network-based approach to identify novel disease genes and pathways: a case study in the context of inflammatory bowel disease
Cited by: 23
Author(s): Ryohei Eguchi, Mohammand Bozlul Karim, Pingzhao Hu, Tetsuo Sato, Naoaki Ono, Shigehiko Kanaya, Md. Altaf‐Ul‐Amin
Software Mentions: 3
Published: over 6 years ago

10.1371/journal.pcbi.1003203

The Individualized Genetic Barrier Predicts Treatment Response in a Large Cohort of HIV-1 Infected Patients
Cited by: 21
Author(s): Niko Beerenwinkel, Hesam Montazeri, Heike Schuhmacher, Patrick Knupfer, Viktor von Wyl, Hansjakob Furrer, Manuel Battegay, Bernard Hirschel, Matthias Cavassini, Pietro Vernazza, Enos Bernasconi, Sabine Yerly, Jürg Böni, Thomas Klimkait, Cristina Cellerai, Huldrych F. Günthard
Software Mentions: 3
Published: about 11 years ago

10.1186/1471-2105-11-205

Predicting conserved protein motifs with Sub-HMMs
Cited by: 9
Author(s): Kevin Horan, Christian R. Shelton, Thomas Girke
Software Mentions: 3
Published: over 14 years ago

10.1042/BSR20200790

Identification of feature autophagy-related genes in patients with acute myocardial infarction based on bioinformatics analyses
Cited by: 4
Author(s): Yajuan Du, Enfa Zhao, Yushun Zhang
Software Mentions: 3
Published: over 4 years ago

10.1177/0885066620988831

Point-of-Care Lung Ultrasound for COVID-19: Findings and Prognostic Implications From 105 Consecutive Patients
Cited by: 23
Author(s): Kosuke Yasukawa, Taro Minami, David R. Boulware, Ayako Shimada, Ernest A. Fischer
Software Mentions: 3
Published: almost 4 years ago

10.1038/s41598-018-30859-y

ZNF542P is a pseudogene associated with LDL response to simvastatin treatment
Cited by: 9
Author(s): Kyungpil Kim, Elizabeth Theusch, Yu‐Lin Kuang, Andréa C. Dosé, Katrina Mitchel, Celia Cubitt, Yii‐Der I. Chen, Ronald M. Krauss, Marisa W. Medina
Software Mentions: 3
Published: over 6 years ago

Projects: cran: ROCR

Papers Mentioning ROCR 596