Ecosyste.ms: Papers

10.18632/aging.102820

Development and validation of a prognostic classifier based on HIF-1 signaling for hepatocellular carcinoma
Cited by: 22
Author(s): Feiwen Deng, Chen Dong, Xiaoli Wei, Shilin Lu, Xuan Luo, Jincan He, Junting Liu, Tiebao Meng, Anli Yang, Huanwei Chen
Software Mentions: 4
Published: almost 5 years ago

10.1038/s41598-018-27707-4

Comprehensive analysis of lung cancer pathology images to discover tumor shape and boundary features that predict survival outcome
Cited by: 71
Author(s): Shidan Wang, Alyssa Chen, Lin Yang, Ling Cai, Yang Xie, Junya Fujimoto, Adi F. Gazdar, Guanghua Xiao
Software Mentions: 4
Published: over 6 years ago

10.1038/s41598-018-33911-z

Prediction of high anti-angiogenic activity peptides in silico using a generalized linear model and feature selection
Cited by: 33
Author(s): José Liñares-Blanco, Ana B. Porto-Pazos, Alejandro Pazos, Carlos Fernández-Lozano
Software Mentions: 4
Published: about 6 years ago

10.1186/s12014-021-09318-w

Circulating proteins associated with allergy development in infants—an exploratory analysis
Cited by: 5
Author(s): Marit Stockfelt, Mun‐Gwan Hong, Bill Hesselmar, Ingegerd Adlerberth, Agnes E. Wold, Jochen M. Schwenk, Anna‐Carin Lundell, Anna Rudin
Software Mentions: 4
Published: over 3 years ago

10.1038/s41598-018-37449-y

Identification of Sex-Specific Transcriptome Responses to Polychlorinated Biphenyls (PCBs)
Cited by: 8
Author(s): Almudena Espín-Pérez, Dennie G. A. J. Hebels, Hannu Kiviranta, Panu Rantakokko, Panagiotis Georgiadis, Maria Botsivali, Ingvar A. Bergdahl, Domenico Palli, Florentin Späth, Anders Johansson, Marc Chadeau‐Hyam, Soterios A. Kyrtopoulos, Jos Kleinjans, Theo M. C. M. de Kok
Software Mentions: 4
Published: almost 6 years ago

10.1186/s12967-019-1824-4

Identification of an immune signature predicting prognosis risk of patients in lung adenocarcinoma
Cited by: 123
Author(s): Qian Song, Jun Shang, Zaixing Yang, Lanlin Zhang, Chufan Zhang, Jianing Chen, Xianghua Wu
Software Mentions: 4
Published: over 5 years ago

10.1038/s41598-019-40403-1

A multimodal approach to cardiovascular risk stratification in patients with type 2 diabetes incorporating retinal, genomic and clinical features
Cited by: 19
Author(s): Ahmed E. Fetit, Alex S.F. Doney, Stephen Hogg, Ruixuan Wang, Tom MacGillivray, Joanna M. Wardlaw, Fergus Doubal, Gareth J. McKay, Stephen J. McKenna, Emanuele Trucco
Software Mentions: 4
Published: over 5 years ago

10.3389/fcell.2021.670854

Integrative Analysis of DNA Methylation and Transcriptome Identifies a Predictive Epigenetic Signature Associated With Immune Infiltration in Gliomas
Cited by: 7
Author(s): Jianlei Zhang, Yin Jiang, Li Luo, Dongzhou Huang, Dongfeng Zhai, Ge Wang, Ning Xu, Minqiang Yang, Ying Song, Guopei Zheng, Qiong Zhang
Software Mentions: 4
Published: over 3 years ago

10.1038/s41598-018-37748-4

Association Between Radiomics Signature and Disease-Free Survival in Conventional Papillary Thyroid Carcinoma
Cited by: 28
Author(s): Vivian Youngjean Park, Kyunghwa Han, Eun Jung Lee, Min Jung Kim, Hee Jung Moon, Jung Hyun Yoon, Jin Young Kwak
Software Mentions: 4
Published: over 5 years ago

10.1038/s41598-019-45283-z

Hepatic tumor classification using texture and topology analysis of non-contrast-enhanced three-dimensional T1-weighted MR images with a radiomics approach
Cited by: 61
Author(s): Asuka Oyama, Yasuaki Hiraoka, Ippei Obayashi, Yusuke Saikawa, Shigeru Furui, Kenshiro Shiraishi, Shinobu Kumagai, Tatsuya Hayashi, J. Kotoku
Software Mentions: 4
Published: over 5 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

10.1186/s12859-014-0394-y

MPAgenomics: an R package for multi-patient analysis of genomic markers
Cited by: 2
Author(s): Quentin Grimonprez, Alain Célisse, Samuel Blanck, Meyling Cheok, Martin Figeac, Guillemette Marot
Software Mentions: 4
Published: almost 10 years ago

10.1002/ctm2.206

Progress and applications of mass cytometry in sketching immune landscapes
Cited by: 21
Author(s): Ting Zhang, Antony R. Warden, Yiyang Li, Yiyang Li
Software Mentions: 4
Published: about 4 years ago

10.1186/s12859-020-3344-x

Dynamic incorporation of prior knowledge from multiple domains in biomarker discovery
Cited by: 15
Author(s): Xin Guan, George C. Runger, Li Liu
Software Mentions: 4
Published: over 4 years ago

10.1038/s41598-019-56249-6

Identification of circulating microRNA signatures as potential biomarkers in the serum of elk infected with chronic wasting disease
Cited by: 10
Author(s): Jessy A. Slota, Sarah J. Medina, Megan Klassen, Damian Gorski, Christine Mesa, Catherine Robertson, Gordon Mitchell, Michael B. Coulthart, Sandra Pritzkow, Claudio Soto, Stephanie A. Booth
Software Mentions: 4
Published: almost 5 years ago

10.1038/s41598-020-57542-5

Large-scale Analyses of Disease Biomarkers and Apremilast Pharmacodynamic Effects
Cited by: 11
Author(s): И. В. Медведева, Matthew E. Stokes, Dominic Eisinger, Samuel T. LaBrie, Jing Ai, Matthew Trotter, Peter Schäfer, Robert Yang
Software Mentions: 4
Published: almost 5 years ago

10.1002/cam4.1303

Identification of a novel gene pairs signature in the prognosis of gastric cancer
Cited by: 42
Author(s): Pailan Peng, Xiangyu Zhou, Guo-Dong Yi, Pengfei Chen, Fan Wang, Weiguo Dong
Software Mentions: 4
Published: almost 7 years ago

10.1002/cam4.4104

Improving the overall survival prognosis prediction accuracy: A 9‐gene signature in CRC patients
Cited by: 6
Author(s): Wenbo Zheng, Yijia Lu, Xiaochuang Feng, Chuanxin Yang, Ling Qiu, Haijun Deng, Qi Xue, Kai Sun
Software Mentions: 4
Published: over 3 years ago

10.1038/s41598-020-72045-z

A data-driven medication score predicts 10-year mortality among aging adults
Cited by: 3
Author(s): Paavo Häppölä, Aki S. Havulinna, Tõnis Tasa, Nina Mars, Markus Perola, Mikko Kallela, Lili Milani, Seppo Koskinen, Veikko Salomaa, Benjamin M. Neale, Aarno Palotie, Mark J. Daly, Samuli Ripatti
Software Mentions: 4
Published: about 4 years ago

10.1038/s41598-020-73700-1

Transcriptome-wide analysis and modelling of prognostic alternative splicing signatures in invasive breast cancer: a prospective clinical study
Cited by: 16
Author(s): Linbang Wang, Yuanyuan Wang, Bao Su, Ping Yü, Jiahui He, Lei Meng, Qin Xiao, Junling Sun, Kai Zhou, Yuzhou Xue, Jinxiang Tan
Software Mentions: 4
Published: about 4 years ago

10.1002/cam4.4022

A pharmacophore‐based classification better predicts the outcomes of HER2‐negative breast cancer patients receiving the anthracycline‐ and/or taxane‐based neoadjuvant chemotherapy
Cited by: 1
Author(s): Xuan Li, Hefen Sun, Qiqi Liu, Yang Liu, Yifeng Hou, Wei Jin
Software Mentions: 4
Published: over 3 years ago

10.1016/j.ajpath.2017.11.007

Fibroblasts Promote Inflammation and Pain via IL-1α Induction of the Monocyte Chemoattractant Chemokine (C-C Motif) Ligand 2
Cited by: 22
Author(s): Hannah L Paish, Nicolas Stewart Kalson, Graham R. Smith, Alicia del Carpio Pons, Thomas E. Baldock, Nicholas I. Smith, Katarzyna Swist-Szulik, David J. Weir, Michelle Bardgett, David J. Deehan, Derek A. Mann, Lee A. Borthwick
Software Mentions: 4
Published: over 6 years ago

10.1038/s41598-020-77259-9

A novel methylation signature predicts radiotherapy sensitivity in glioma
Cited by: 5
Author(s): Yuemei Feng, Guanzhang Li, Zhongcheng Shi, Xu Yan, Zhiliang Wang, Haiyan Jiang, Ye Chen, Renpeng Li, You Zhai, Yuanhao Chang, Wei Zhang, Fang Yuan
Software Mentions: 4
Published: almost 4 years ago

10.3389/fgene.2021.699385

Analysis of Immune–Stromal Score-Based Gene Signature and Molecular Subtypes in Osteosarcoma: Implications for Prognosis and Tumor Immune Microenvironment
Cited by: 3
Author(s): Dingzhao Zheng, Kai-Chun Yang, Xinjiang Chen, Yongwu Li, Yongchun Chen
Software Mentions: 4
Published: about 3 years ago

10.3389/fgene.2021.647521

Exploration of Prognostic Biomarkers for Lung Adenocarcinoma Through Bioinformatics Analysis
Cited by: 9
Author(s): Zhengliang Tu, Xue He, Liping Zeng, Di Meng, Runzhou Zhuang, Jiangang Zhao, Wanrong Dai
Software Mentions: 4
Published: over 3 years ago

10.1002/cam4.1397

Development and validation of an individualized diagnostic signature in thyroid cancer
Cited by: 16
Author(s): Li-ou Han, Xinyu Li, Mingming Cao, Yan Cao, Lihong Zhou
Software Mentions: 4
Published: over 6 years ago

10.3389/fgene.2021.670405

Construction of a Nine-MicroRNA-Based Signature to Predict the Overall Survival of Esophageal Cancer Patients
Cited by: 2
Author(s): Xiaobin Zhang, Yi He, Haiyong Gu, Zhichao Liu, Bin Li, Yang Yang, Jie Hao, Hua Ren
Software Mentions: 4
Published: over 3 years ago

10.3390/nu12103099

Contributions of Emotional Overload, Emotion Dysregulation, and Impulsivity to Eating Patterns in Obese Patients with Binge Eating Disorder and Seeking Bariatric Surgery
Cited by: 16
Author(s): Farid Benzerouk, Zoubir Djerada, Éric Bertin, Sarah Barrière, Fabien Gierski, Arthur Kaladjian
Software Mentions: 4
Published: about 4 years ago

10.18632/aging.202400

A DNA methylation age predictor for zebrafish
Cited by: 27
Author(s): Benjamin Mayne, Darren Korbie, Lisa M Kenchington, Ben J Ezzy, Oliver Berry, Simon Jarman
Software Mentions: 4
Published: almost 4 years ago

10.3389/fgene.2019.00493

Genome-Wide Analysis of Lung Adenocarcinoma Identifies Novel Prognostic Factors and a Prognostic Score
Cited by: 10
Author(s): Donglai Chen, Yueqiang Song, Fuquan Zhang, Xiaofan Wang, Erjia Zhu, Xi Zhang, Gening Jiang, Siguang Li, Chang Chen, Yongbing Chen
Software Mentions: 4
Published: over 5 years ago

10.1038/s41598-021-86921-9

Systematic prediction of drug resistance caused by transporter genes in cancer cells
Cited by: 4
Author(s): Yao Shen, Zhipeng Yan
Software Mentions: 4
Published: over 3 years ago

10.3389/fgene.2021.736423

Comprehensive Analysis of Splicing Factor and Alternative Splicing Event to Construct Subtype-Specific Prognosis-Predicting Models for Breast Cancer
Cited by: 4
Author(s): He Zhang, Baoai Han, Xingxing Han, Yuying Zhu, Hui Liu, Zhiyong Wang, Yanfen Cui, Ran Tian, Zicong Gao, Ruinan Tian, Sixin Ren, Xiaoyan Zuo, Jianfei Tian, Fei Zhang, Ruifang Niu
Software Mentions: 4
Published: about 3 years ago

10.1038/s41598-021-88845-w

Multitask fMRI and machine learning approach improve prediction of differential brain activity pattern in patients with insomnia disorder
Cited by: 7
Author(s): Mi Hyun Lee, Nambeom Kim, Jaeeun Yoo, Hang-Keun Kim, Young-Don Son, Young-Bo Kim, Seong Min Oh, Soohyun Kim, Hayoung Lee, Jeong Eun Jeon, Yu Jin Lee
Software Mentions: 4
Published: over 3 years ago

10.3389/fgene.2019.01119

Tumor Characterization in Breast Cancer Identifies Immune-Relevant Gene Signatures Associated With Prognosis
Cited by: 46
Author(s): Jie Li, Cun Liu, Yi Chen, Chundi Gao, Miyuan Wang, Xiaoran Ma, Wenfeng Zhang, Jing Zhuang, Yan Yao
Software Mentions: 4
Published: about 5 years ago

10.3389/fgene.2020.612840

Machine Learning Approaches Identify Genes Containing Spatial Information From Single-Cell Transcriptomics Data
Cited by: 3
Author(s): Phillipe Loher, Nestoras Karathanasis
Software Mentions: 4
Published: almost 4 years ago

10.3389/fgene.2020.00989

Identification of the Prognostic Value of Immune-Related Genes in Esophageal Cancer
Cited by: 16
Author(s): Xiong Guo, Yujun Wang, Han Zhang, Chuan Qin, Anqi Cheng, Jianjun Li, Xinglong Dai, Ziwei Wang
Software Mentions: 4
Published: over 4 years ago

10.1186/s40644-021-00395-6

Radiomic nomogram based on MRI to predict grade of branching type intraductal papillary mucinous neoplasms of the pancreas: a multicenter study
Cited by: 14
Author(s): Shuai Cui, Tianyu Tang, Qiuming Su, Yajie Wang, Zhenyu Shu, Wei Yang, Xiangyang Gong
Software Mentions: 4
Published: over 3 years ago

10.18632/aging.103624

POC1A acts as a promising prognostic biomarker associated with high tumor immune cell infiltration in gastric cancer
Cited by: 6
Author(s): Jun Q. Lu, Xiaoyan Huang, Yaohui Wang, Jian‐Wei Xie, Jia-Bin Wang, Jiumao Lin, Qi‐Yue Chen, Long‐Long Cao, Ping Li, Chang‐Ming Huang, Chao‐Hui Zheng
Software Mentions: 4
Published: about 4 years ago

10.1038/s41598-021-98008-6

Modelling COVID-19 severity in the Republic of Ireland using patient co-morbidities, socioeconomic profile and geographic location, February to November 2020
Cited by: 6
Author(s): Martin Boudou, Coilín ÓhAiseadha, Patricia Garvey, Jean O’Dwyer, Paul Hynds
Software Mentions: 4
Published: about 3 years ago

10.1186/s12967-021-02991-3

Analysis of immune cell components and immune-related gene expression profiles in peripheral blood of patients with type 1 diabetes mellitus
Cited by: 7
Author(s): Jian Lin, Yuanhua Lu, Bizhou Wang, Peng Jiao, Jie Ma
Software Mentions: 4
Published: over 3 years ago

10.18632/aging.203079

Identification and validation of a novel eight mutant-derived long non-coding RNAs signature as a prognostic biomarker for genome instability in low-grade glioma
Cited by: 12
Author(s): Aierpati Maimaiti, Xixian Wang, Yinan Pei, Nuerbiye Nuermaimaiti, Abudireheman Tuersunniyazi, Yaeraili Abula, Zhaohai Feng, Lei Jiang, Xin Shi, Maimaitijiang Kasimu
Software Mentions: 4
Published: over 3 years ago

10.3389/fgene.2021.652601

Construction and Comprehensive Prognostic Analysis of a lncRNA–miRNA–mRNA Regulatory Network and Tumor Immune Cell Infiltration in Colorectal Cancer
Cited by: 8
Author(s): Xiong Guo, Xiaolong Liang, Yujun Wang, Anqi Cheng, Chuan Qin, Han Zhang, Ziwei Wang
Software Mentions: 4
Published: over 3 years ago

10.7150/thno.35573

Genome-wide discovery and validation of diagnostic DNA methylation-based biomarkers for hepatocellular cancer detection in circulating cell free DNA
Cited by: 54
Author(s): Ryan A. Hlady, Zhao Xiao, Xiaoyu Pan, Ju Dong Yang, Fowsiyo Ahmed, Samuel O. Antwi, Nasra H. Giama, Tushar Patel, Lewis R. Roberts, Chen Liu, Keith D. Robertson
Software Mentions: 4
Published: almost 6 years ago

10.1186/s12967-019-2109-7

Prognostic nomogram for bladder cancer with brain metastases: a National Cancer Database analysis
Cited by: 14
Author(s): Zhixian Yao, Zhong Zheng, Ke Wu, Ren‐Jie Wang, Xingyu Mu, Feng Sun, Xiang Wang, Shivank Garg, Wenyin Shi, Yongzhong He, Zhihong Liu
Software Mentions: 4
Published: almost 5 years ago

10.1186/s12935-021-01915-x

Establishment and validation of a prognostic signature for lung adenocarcinoma based on metabolism‐related genes
Cited by: 26
Author(s): Wenwen Wang, Kidane Siele Embaye, Qing Yang, Lingzhi Qin, Chao Zhang, Liwei Liu, Xiaoqian Zhan, Fengdi Zhang, Xi Wang, Shenghui Qin
Software Mentions: 4
Published: over 3 years ago

10.1084/jem.20201189

αβγδ T cells play a vital role in fetal human skin development and immunity
Cited by: 17
Author(s): René Reitermaier, Thomas Krausgruber, Nikolaus Fortelny, Tanya Ayub, Pablo A. Vieyra‐Garcia, Philip Kienzl, Peter Wolf, Anke Scharrer, Christian Fiala, Marita Kölz, Manuela Hiess, Martin Vierhapper, Christopher Schuster, Andreas Spittler, Christof Worda, Wolfgang Weninger, Christoph Bock, Wolfgang Eppel, Adelheid Elbe‐Bürger
Software Mentions: 4
Published: almost 4 years ago

10.18632/aging.202173

A novel immune-related genes prognosis biomarker for hepatocellular carcinoma
Cited by: 7
Author(s): Kunpeng Wang, Xinyi Chen, Chong Jin, Jinggang Mo, Hao Jiang, Bin Yi, Xiang Chen
Software Mentions: 4
Published: almost 4 years ago

10.7150/ijms.49576

Prognosis Prediction for Colorectal Cancer Patients: A Risk Score Based on The Metabolic-Related Genes
Cited by: 1
Author(s): Yongqu Lu, Xin Zhou, Zhenzhen Liu, Wendong Wang, Siyi Lu, Wei Fu
Software Mentions: 4
Published: almost 4 years ago

10.1016/j.ijrobp.2016.08.013

Functional Data Analysis Applied to Modeling of Severe Acute Mucositis and Dysphagia Resulting From Head and Neck Radiation Therapy
Cited by: 14
Author(s): Jamie Dean, Kee H. Wong, Liam Welsh, Ann-Britt Jones, Ulrike Schick, Jung Hun Oh, Aditya Apte, Kate Newbold, Shreerang A. Bhide, Kevin Harrington, Joseph O. Deasy, Christopher M. Nutting, S. Gulliford
Software Mentions: 4
Published: about 8 years ago

10.29252/.22.6.374

Application of Sparse Linear Discriminant Analysis and Elastic Net for Diagnosis of IgA Nephropathy: Statistical and Biological Viewpoints
Cited by: 6
Author(s): Tahereh Mohammadi Majd, Shiva Kalantari, Hadi Raeisi Shahraki, Mohsen Nafar, Afshin Almasi, Shiva Samavat, Mahmoud Parvin, Amir Hossein Hashemian
Software Mentions: 4
Published: about 6 years ago

10.3390/ijerph17145217

Association of Genetic and Environmental Factors with Non-Alcoholic Fatty Liver Disease in a Chinese Han Population
Cited by: 5
Author(s): Zheng Li, Cheng-Yin Ye, Li Wang, Jinmei Li, Lei Yang
Software Mentions: 4
Published: over 4 years ago

10.3390/ijerph17197271

Factors Associated with E-Cigarette Use in U.S. Young Adult Never Smokers of Conventional Cigarettes: A Machine Learning Approach
Cited by: 9
Author(s): Nkiruka C. Atuegwu, Cheryl Oncken, Reinhard Laubenbacher, Mario F. Perez, Eric M. Mortensen
Software Mentions: 4
Published: about 4 years ago

10.3390/ijms22010135

Circulating tRNA Fragments as a Novel Biomarker Class to Distinguish Acute Stroke Subtypes
Cited by: 13
Author(s): Thủy Nguyễn, M. Leontien van der Bent, Marieke J.H. Wermer, Ido R. van den Wijngaard, Erik W. van Zwet, Bas de Groot, Paul H.A. Quax, Nyika D. Kruyt, A. Yaël Nossent
Software Mentions: 4
Published: almost 4 years ago

10.1155/2021/5554342

Development and Validation of a Robust Immune-Related Prognostic Signature for Gastric Cancer
Cited by: 7
Author(s): Junyu Huo, Liqun Wu, Yunjin Zang
Software Mentions: 4
Published: over 3 years ago

10.18632/aging.203322

Identification of prognostic long non-coding RNA signature with potential drugs in hepatocellular carcinoma
Cited by: 0
Author(s): Fang Hao, Nan Wang, Xiang Wang, Yongjun Chen, Junqing Wang
Software Mentions: 4
Published: over 3 years ago

10.7554/eLife.63852

Psychosocial experiences modulate asthma-associated genes through gene-environment interactions
Cited by: 10
Author(s): Justyna Resztak, Allison K. Farrell, Henriette Mair-Meijers, Adnan Alazizi, Xiaoquan Wen, Derek E. Wildman, Samuele Zilioli, Richard B. Slatcher, Roger Piqué-Regi, Francesca Luca
Software Mentions: 4
Published: over 3 years ago

10.3389/fgene.2020.01017

Identification of a Novel Signature and Construction of a Nomogram Predicting Overall Survival in Clear Cell Renal Cell Carcinoma
Cited by: 5
Author(s): Xiangkun Wu, Zhijian Zhao, Aisha Khan, Chao Cai, Daojun Lv, Danan Gu, Yongda Liu
Software Mentions: 4
Published: about 4 years ago

10.7554/eLife.69808

Common host variation drives malaria parasite fitness in healthy human red cells
Cited by: 15
Author(s): Emily R. Ebel, Frans A. Kuypers, Carrie Lin, Dmitri A. Petrov, Elizabeth S. Egan
Software Mentions: 4
Published: about 3 years ago

10.7554/eLife.66128

High social status males experience accelerated epigenetic aging in wild baboons
Cited by: 48
Author(s): Jordan A Anderson, Rachel A Johnston, Amanda J. Lea, Fernando A. Campos, Tawni Voyles, Mercy Akinyi, Susan C. Alberts, Elizabeth A. Archie, Jenny Tung
Software Mentions: 4
Published: over 3 years ago

10.7554/eLife.31437

The formation of the light-sensing compartment of cone photoreceptors coincides with a transcriptional switch
Cited by: 29
Author(s): Janine M Daum, Özkan Keles, Sjoerd J.B. Holwerda, Hubertus Kohler, Filippo M. Rijli, Michael Stadler, Botond Roska
Software Mentions: 4
Published: about 7 years ago

10.1155/2020/7397132

Prognostic Correlation of an Autophagy-Related Gene Signature in Patients with Head and Neck Squamous Cell Carcinoma
Cited by: 17
Author(s): Cai Yang, Hongxiang Mei, Liang Peng, Fulin Jiang, Bingjie Xie, Juan Li
Software Mentions: 4
Published: almost 4 years ago

10.1371/journal.pgen.1004890

Altered Chromatin Occupancy of Master Regulators Underlies Evolutionary Divergence in the Transcriptional Landscape of Erythroid Differentiation
Cited by: 41
Author(s): Jacob C. Ulirsch, Jessica Lacy, Xiuli An, Narla Mohandas, Tarjei S. Mikkelsen, Vijay G. Sankaran
Software Mentions: 4
Published: almost 10 years ago

10.1371/journal.pgen.1004137

Accurate and Robust Genomic Prediction of Celiac Disease Using Statistical Learning
Cited by: 97
Author(s): Gad Abraham, Jason A. Tye‐Din, Oneil G. Bhalala, Adam Kowalczyk, Justin Zobel, Michael Inouye
Software Mentions: 4
Published: almost 11 years ago

10.1371/journal.pmed.1002194

Patterns of Immune Infiltration in Breast Cancer and Their Clinical Implications: A Gene-Expression-Based Retrospective Study
Cited by: 401
Author(s): H. Raza Ali, L Chlon, Paul D.P. Pharoah, Florian Markowetz, Carlos Caldas
Software Mentions: 4
Published: almost 8 years ago

10.1155/2020/6657013

Identification of a Prognostic Risk Signature of Kidney Renal Clear Cell Carcinoma Based on Regulating the Immune Response Pathway Exploration
Cited by: 2
Author(s): Guangzhen Wu, Yingkun Xu, Chenglin Han, Zilong Wang, Jiayi Li, Qifei Wang, Xiangyu Che
Software Mentions: 4
Published: almost 4 years ago

10.1186/s13058-021-01454-3

Biomarkers of mammographic density in premenopausal women
Cited by: 2
Author(s): Mathilde His, Martín Lajous, Liliana Gómez-Flores-Ramos, Adriana Monge, Laure Dossus, Vivian Viallon, Audrey Gicquiau, Carine Biessy, Marc J. Gunter, Sabina Rinaldi
Software Mentions: 4
Published: over 3 years ago

10.1155/2021/5169052

Regularized Weighted Nonparametric Likelihood Approach for High-Dimension Sparse Subdistribution Hazards Model for Competing Risk Data
Cited by: 1
Author(s): Leili Tapak, Michael R. Kosorok, Majid Majid Sadeghifar, Omid Hamidi, Saeid Afshar, Hassan Doosti
Software Mentions: 4
Published: about 3 years ago

10.1371/journal.pone.0212846

Predicting one-year outcome in first episode psychosis using machine learning
Cited by: 28
Author(s): Samuel P Leighton, Rajeev Krishnadas, Kelly K. Chung, Alison Blair, Sheona Brown, Suzy Clark, Kathryn Sowerbutts, Matthias Schwannauer, Jonathan Cavanagh, Andrew Gumley
Software Mentions: 4
Published: over 5 years ago

10.1371/journal.pone.0180221

Using machine learning and surface reconstruction to accurately differentiate different trajectories of mood and energy dysregulation in youth
Cited by: 0
Author(s): Amelia Versace, Vinod Kumar Sharma, Michele Bertocci, Genna Bebko, Satish Iyengar, Amanda Dwojak, Lisa Bonar, Susan B. Perlman, Claudiu Schirda, Michael J. Travis, Mary Kay Gill, Vaibhav A. Diwadkar, Jeffrey L. Sunshine, Scott K. Holland, Robert A. Kowatch, Boris Birmaher, David Axelson, Thomas Frazier, L. Eugene Arnold, Mary A. Fristad, Eric A. Youngstrom, Sarah M. Horwitz, Robert L. Findling, Mary L. Phillips
Software Mentions: 4
Published: over 7 years ago

10.1155/2020/6795392

Comparison of Variable Selection Methods for Time-to-Event Data in High-Dimensional Settings
Cited by: 3
Author(s): Julia Gilhodes, Florence Dalenc, Jocelyn Gal, Christophe Zemmour, Eve Leconte, Jean‐Marie Boher, Thomas Filleron
Software Mentions: 4
Published: over 4 years ago

10.1371/journal.pone.0120995

A Panel of Novel Biomarkers Representing Different Disease Pathways Improves Prediction of Renal Function Decline in Type 2 Diabetes
Cited by: 54
Author(s): Michelle J Pena, Andreas Heinzel, Georg Heinze, A. Alkhalaf, Stephan J. L. Bakker, Tri Q. Nguyen, Roel Goldschmeding, Henk J. G. Bilo, Paul Perco, Bernd Mayer, Dick de Zeeuw, Hiddo J L Heerspink
Software Mentions: 4
Published: over 9 years ago

10.1111/bpa.12595

Epigenomic signature of adrenoleukodystrophy predicts compromised oligodendrocyte differentiation
Cited by: 18
Author(s): Agatha Schlüter, Juan Sandoval, Stéphane Fourcade, Ángel Díaz‐Lagares, Montserrat Ruíz, Patrizia Casaccia, Manel Esteller, Aurora Pujol
Software Mentions: 4
Published: over 6 years ago

10.18632/aging.103753

Eight immune-related genes predict survival outcomes and immune characteristics in breast cancer
Cited by: 2
Author(s): Xu Han, Gangjian Wang, Lili Zhu, Liu Hong, Bingjie Li
Software Mentions: 4
Published: over 4 years ago

10.1371/journal.pone.0207917

Spatial variability of biogeochemistry in shallow coastal benthic communities of Potter Cove (Antarctica) and the impact of a melting glacier
Cited by: 13
Author(s): Ralf Hoffmann, Francesca Pasotti, Susana Vázquez, Nene Lefaible, Anders Torstensson, Walter P. Mac Cormack, Frank Wenzhöfer, Ulrike Braeckman
Software Mentions: 4
Published: almost 6 years ago

10.1371/journal.pone.0214282

DNA methylation among firefighters
Cited by: 13
Author(s): Jin Zhou, Timothy G. Jenkins, Alesia M. Jung, Kyoung Sook Jeong, Jing Zhai, Elizabeth T. Jacobs, Stephanie Griffin, Devi Dearmon-Moore, Sally R. Littau, Wayne F. Peate, Nathan A. Ellis, Peter Lance, Yin Chen, Jefferey L. Burgess
Software Mentions: 4
Published: over 5 years ago

10.1371/journal.pone.0143627

Total Binding Affinity Profiles of Regulatory Regions Predict Transcription Factor Binding and Gene Expression in Human Cells
Cited by: 17
Author(s): Elena Grassi, Ettore Zapparoli, Ivan Molineris, Paolo Provero
Software Mentions: 4
Published: almost 9 years ago

10.3389/fgene.2021.591623

Identification of Prognostic Biomarkers and Correlation With Immune Infiltrates in Hepatocellular Carcinoma Based on a Competing Endogenous RNA Network
Cited by: 3
Author(s): Zhaoxia Pu, Yuanyuan Zhu, Xiaofang Wang, Yun Zhong, Fang Peng, Yiya Zhang
Software Mentions: 4
Published: over 3 years ago

10.1371/journal.pone.0223692

Elevated serum alpha-1 antitrypsin is a major component of GlycA-associated risk for future morbidity and mortality
Cited by: 12
Author(s): Scott C. Ritchie, Johannes Kettunen, Marta Brożyńska, Artika P. Nath, Aki S. Havulinna, Satu Männistö, Markus Perola, Veikko Salomaa, Mika Ala‐Korpela, Gad Abraham, Peter Würtz, Michael Inouye
Software Mentions: 4
Published: about 5 years ago

10.1371/journal.pone.0187542

Effects of glucose availability in Lactobacillus sakei; metabolic change and regulation of the proteome and transcriptome
Cited by: 10
Author(s): Anette McLeod, Ellen Færgestad Mosleth, Ida Rud, Filipe Branco dos Santos, Lars-Gustav Snipen, Kristian Hovde Liland, Lars Axelsson
Software Mentions: 4
Published: about 7 years ago

10.1371/journal.pgen.1007473

RES complex is associated with intron definition and required for zebrafish early embryogenesis
Cited by: 23
Author(s): Juan Pablo Fernández, Miguel A. Moreno-Mateos, André Gohr, Liyun Miao, Shun Hang Chan, Manuel Irimia, Antonio J. Giráldez
Software Mentions: 4
Published: over 6 years ago

10.1371/journal.pgen.1003926

Fine-Mapping the Genetic Association of the Major Histocompatibility Complex in Multiple Sclerosis: HLA and Non-HLA Effects
Cited by: 235
Author(s): Nikolaos A. Patsopoulos, Lisa F. Barcellos, Rogier Q. Hintzen, Catherine Schaefer, Cornelia M. van Duijn, Janelle A. Noble, Towfique Raj, Pierre-Antoine Gourraud, Barbara Elaine Stranger, Jorge R. Oksenberg, Tomas Olsson, Bruce Taylor, Stephen Sawcer, David A. Hafler, Mary Carrington, Philip L. De Jager, Paul I. W. de Bakker
Software Mentions: 4
Published: about 11 years ago

10.1371/journal.pone.0170025

Underexpression of Specific Interferon Genes Is Associated with Poor Prognosis of Melanoma
Cited by: 12
Author(s): Aamir Zainulabadeen, Philip Yao, Habil Zare
Software Mentions: 4
Published: almost 8 years ago

10.3389/fgene.2020.614160

An Eight-CpG-based Methylation Classifier for Preoperative Discriminating Early and Advanced-Late Stage of Colorectal Cancer
Cited by: 1
Author(s): Ji Hu, Fu-Ying Zhao, Bin Huang, Ran Jing, Meiyuan Chen, Hailin Liu, You-Song Deng, Xia Zhao, Xiaofan Han
Software Mentions: 4
Published: almost 4 years ago

10.1371/journal.pcbi.1004790

Pathway-Based Genomics Prediction using Generalized Elastic Net
Cited by: 82
Author(s): Artem Sokolov, Daniel E. Carlin, Evan O. Paull, Robert Baertsch, Joshua M. Stuart
Software Mentions: 4
Published: over 8 years ago

10.1155/2017/1421409

Probing for Sparse and Fast Variable Selection with Model-Based Boosting
Cited by: 23
Author(s): Janek Thomas, Tobias Hepp, Andreas Mayr, Bernd Bischl
Software Mentions: 4
Published: almost 8 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

10.1371/journal.pone.0226595

Development of a long non-coding RNA signature for prediction of response to neoadjuvant chemoradiotherapy in locally advanced rectal adenocarcinoma
Cited by: 15
Author(s): Lorenzo Ferrando, Gabriella Cirmena, Anna Garuti, Stefano Scabini, Federica Grillo, Luca Mastracci, Edoardo Isnaldi, C. Marrone, Roberta Gonella, Roberto Murialdo, Roberto Fiocca, Emanuele Romairone, Alberto Ballestrero, Gabriele Zoppoli
Software Mentions: 4
Published: almost 5 years ago

10.1371/journal.pone.0255675

Machine-learning model selection and parameter estimation from kinetic data of complex first-order reaction systems
Cited by: 3
Author(s): László Zimányi, Áron Sipos, Ferenc Sarlós, Rita Nagypál, Géza I. Groma
Software Mentions: 4
Published: over 3 years ago

10.1155/2021/6533049

Effect of Aberrant Long Noncoding RNA on the Prognosis of Clear Cell Renal Cell Carcinoma
Cited by: 1
Author(s): Han Wu, Haixiao Wu, Peng Sun, Dezhi Zhu, Min Ma, Wentao Fan
Software Mentions: 4
Published: about 3 years ago

10.1371/journal.pone.0119265

Multimarker Proteomic Profiling for the Prediction of Cardiovascular Mortality in Patients with Chronic Heart Failure
Cited by: 14
Author(s): Gilles Lemesle, Florence Maury, Olivia Beseme, Lionel Ovart, Philippe Amouyel, Nicolas Lamblin, Pascal de Groote, Christophe Bauters, Florence Pinet
Software Mentions: 4
Published: over 9 years ago

10.1371/journal.pone.0171240

Expectation propagation for large scale Bayesian inference of non-linear molecular networks from perturbation data
Cited by: 5
Author(s): Zahra Narimani, Hamid Beigy, Ashar Ahmad, Ali Masoudi‐Nejad, Holger Fröhlich
Software Mentions: 4
Published: almost 8 years ago

10.18632/aging.104134

The value of a metabolic reprogramming-related gene signature for pancreatic adenocarcinoma prognosis prediction
Cited by: 12
Author(s): Zhen Tan, Yubin Lei, Jin Xu, Si Shi, Jie Hua, Bo Zhang, Qingcai Meng, Jiang Liu, Yiyin Zhang, Miaoyan Wei, Xianjun Yu, Chen Liang
Software Mentions: 4
Published: about 4 years ago

10.1371/journal.pcbi.1005627

A data-driven modeling approach to identify disease-specific multi-organ networks driving physiological dysregulation
Cited by: 7
Author(s): W. T. Anderson, Danielle DeCicco, James S. Schwaber, Rajanikanth Vadigepalli
Software Mentions: 4
Published: over 7 years ago

10.3390/nu11051032

Plasma Metabolites Associated with Coffee Consumption: A Metabolomic Approach within the PREDIMED Study
Cited by: 15
Author(s): Christopher Papandreou, Pablo Hernández‐Alonso, Mònica Bulló, Miguel Ruiz‐Canela, Edward Yu, Marta Guasch‐Ferré, Estefanía Toledo, Courtney Dennis, Amy Deik, Clary B. Clish, Cristina Razquín, Dolores Corella, Ramón Estruch, Emilio Ros, Montserrat Fitó, Fernando Arós, Miquel Fiol, José Lapetra, Cristina Ruano, Liming Liang, Miguel Ángel Martínez‐González, Frank B. Hu, Jordi Salas‐Salvadó
Software Mentions: 4
Published: over 5 years ago

10.1371/journal.pone.0106131

Gene Expression Profiling Reveals Epithelial Mesenchymal Transition (EMT) Genes Can Selectively Differentiate Eribulin Sensitive Breast Cancer Cells
Cited by: 47
Author(s): Zoltán Dezső, Judith Oestreicher, Amy Weaver, Stephanie Santiago, Sergei Agoulnik, Jesse C. Chow, Yoshiya Oda, Yasuhiro Funahashi
Software Mentions: 4
Published: about 10 years ago

10.1155/2017/7691937

IPF-LASSO: Integrative <mml:math xmlns:mml="http://www.w3.org/1998/Math/MathML" id="M1"><mml:mrow><mml:msub><mml:mrow><mml:mi>L</mml:mi></mml:mrow><mml:mrow><mml:mn fontstyle="italic">1</mml:mn></mml:mrow></mml:msub></mml:mrow></mml:math>-Penalized Regression with Penalty Factors for Prediction Based on Multi-Omics Data
Cited by: 66
Author(s): Anne‐Laure Boulesteix, Riccardo De Bin, Xiaoyu Jiang, Mathias Fuchs
Software Mentions: 4
Published: almost 8 years ago

10.1042/BSR20211241

Multi-omic analyses of hepatocellular carcinoma to determine immunological characteristics and key nodes in gene-expression network
Cited by: 3
Author(s): Zhihui Wang, Shuijun Zhang
Software Mentions: 4
Published: over 3 years ago

10.1042/BSR20201261

Construction of a novel prognostic-predicting model correlated to ovarian cancer
Cited by: 3
Author(s): Wei-Chun Tang, Jie Li, Xinxia Chang, Lizhou Jia, Qi Tang, Ying Wang, Yanli Zheng, Lichao Sun, Zhenqing Feng
Software Mentions: 4
Published: over 4 years ago

10.1371/journal.pcbi.1006520

Molecular characterization of breast and lung tumors by integration of multiple data types with functional sparse-factor analysis
Cited by: 13
Author(s): Tycho Bismeijer, Sander Canisius, Lodewyk Wessels
Software Mentions: 4
Published: about 6 years ago

10.1016/j.csbj.2020.06.001

Plasma lipidomic biomarker analysis reveals distinct lipid changes in vascular dementia
Cited by: 15
Author(s): Yue Liu, Daniel Kam Yin Chan, Anbupalam Thalamuthu, Wen Wang, Jiyang Jiang, Matthew Paradise, Teresa Lee, John D. Crawford, Matthew Wai Kin Wong, Ying Xu, Anne Poljak, Russell Pickford, Perminder S. Sachdev, Nady Braidy
Software Mentions: 4
Published: almost 5 years ago