ArticleBioinformatics (Oxford, England)2016
cit: hypothesis testing software for mediation analysis in genomic applications.
Article in Bioinformatics (Oxford, England), 2016. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 37 papers.
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The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
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Who cites it
37 citing papers in PubMed.
- Tau seeds induce neurofibrillary tangle formation across brain regions via individual-specific connectivity.Neuron · 2026Article
- Multiomic single-cell perturbation screens reveal critical lncRNA regulators of senescence.Nature aging · 2026Article
- Discriminating flue-cured tobacco cultivars based on sensory quality and their underlying volatile and chemical profiles.Frontiers in plant science · 2026Article
- TAS2R38 taster variants-linked MGAM expression in Alzheimer's disease: a novel target for precision drug repurposing.Frontiers in aging neuroscience · 2026Article
- Egg-laying ChickenGTEx resource deciphers context-specific regulatory effects on fertility traits.Nature communications · 2025Article
- Integrating genetic and transcriptomic data to identify genes underlying obesity risk loci.International journal of obesity (2005) · 2025Article
- Genetic integration with cell-specific nucleosome positioning resolves causal relationships underlying chromatin accessibility profiles.bioRxiv : the preprint server for biology · 2025Article
- DNA methylation: a potential mediator between air pollution exposures and asthma control.Clinical epigenetics · 2025Article
- TAS2R38-Linked MGAM Expression in Alzheimer's Disease: A Novel Target for Precision Drug Repurposing.medRxiv : the preprint server for health sciences · 2025Article
- Multiomics analyses of the complex interplay between genetic variants, DNA methylation, and gene expression in COVID-19.American journal of physiology. Heart and circulatory physiology · 2025Article
- Caregiver-child interaction and early childhood development among preschool children in rural China: the possible role of blood epigenome-wide DNA methylation.BMC genomics · 2025Article
- Population-scale skeletal muscle single-nucleus multi-omic profiling reveals extensive context specific genetic regulation.bioRxiv : the preprint server for biology · 2024Article
- Blood DNA methylomic signatures associated with CSF biomarkers of Alzheimer's disease in the EMIF-AD study.Alzheimer's & dementia : the journal of the Alzheimer's Association · 2024Article
- Prediagnosis recognition of acute ischemic stroke by artificial intelligence from facial images.Aging cell · 2024Article
- Single cell transcriptomes and multiscale networks from persons with and without Alzheimer's disease.Nature communications · 2024Article
- Integrated genetic and epigenetic analyses uncovered GLP1R association with metabolically healthy obesity.International journal of obesity (2005) · 2024Article
- Genome-wide methylomic regulation of multiscale gene networks in Alzheimer's disease.Alzheimer's & dementia : the journal of the Alzheimer's Association · 2023Article
- Effects of copy number variations on longevity in late-onset Alzheimer's disease patients: insights from a causality network analysis.Frontiers in aging neuroscience · 2023Article
- Trans-genetic effects of circular RNA expression quantitative trait loci and potential causal mechanisms in autism.Molecular psychiatry · 2022Article
- A review of causal discovery methods for molecular network analysis.Molecular genetics & genomic medicine · 2022Review
Corrections and comments
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Authors and funding
3 authors.
Funding
Abstract
motivationThe challenges of successfully applying causal inference methods include: (i) satisfying underlying assumptions, (ii) limitations in data/models accommodated by the software and (iii) low power of common multiple testing approaches.
resultsThe causal inference test (CIT) is based on hypothesis testing rather than estimation, allowing the testable assumptions to be evaluated in the determination of statistical significance. A user-friendly software package provides P-values and optionally permutation-based FDR estimates (q-values) for potential mediators. It can handle single and multiple binary and continuous instrumental variables, binary or continuous outcome variables and adjustment covariates. Also, the permutation-based FDR option provides a non-parametric implementation.
conclusionSimulation studies demonstrate the validity of the cit package and show a substantial advantage of permutation-based FDR over other common multiple testing strategies. AVAILABILITY AND IMPLEMENTATION: The cit open-source R package is freely available from the CRAN website (https://cran.r-project.org/web/packages/cit/index.html) with embedded C ++ code that utilizes the GNU Scientific Library, also freely available (http://www.gnu.org/software/gsl/). CONTACT: joshua.millstein@usc.edu SUPPLEMENTARY INFORMATION: Supplementary data are available at Bioinformatics online.
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Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.