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Integrated analysis of DNA methylome and transcriptome identified CREB5 as a novel risk gene contributing to recurrent pregnancy loss.

EBioMedicine | 2018

Aberrant DNA methylation is considered to be a potential cause of recurrent pregnancy loss (RPL), while potential mechanism has not yet been elucidated.

Pubmed ID: 30100398 RIS Download

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This is a list of tools and resources that we have found mentioned in this publication.


QUMA (tool)

RRID:SCR_010907

You can easily align, visualize and quantify bisulfite sequence data for CpG methylation analysis.

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Systems Transcriptional Activity Reconstruction (tool)

RRID:SCR_005622

A next-generation web-based application that aims to provide an integrated solution for both visualization and analysis of deep-sequencing data, along with simple access to public datasets.

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ChAMP (tool)

RRID:SCR_012891

Software package that includes quality control metrics, a selection of normalization methods and novel methods to identify differentially methylated regions and to highlight copy number aberrations.

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New England Biolabs (tool)

RRID:SCR_013517

An Antibody supplier

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Vector NTI (tool)

RRID:SCR_014265

Software suite of sequence analysis and design tools that help manage, view, analyze, transform, share, and publicize various types of molecular biology data within one analysis environment. Users can analyze and compare sequences, design cloning and other vector related experiments, and curate and organize data and collections. Different classes for different user and experimental focuses are available.

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DESeq2 (tool)

RRID:SCR_015687

Software package for differential gene expression analysis based on the negative binomial distribution. Used for analyzing RNA-seq data for differential analysis of count data, using shrinkage estimation for dispersions and fold changes to improve stability and interpretability of estimates.

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SP1 (D4C3) Rabbit mAb (antibody)

RRID:AB_11220235

This monoclonal targets SP1

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R Project for Statistical Computing (software resource)

RRID:SCR_001905

Software environment and programming language for statistical computing and graphics. R is integrated suite of software facilities for data manipulation, calculation and graphical display. Can be extended via packages. Some packages are supplied with the R distribution and more are available through CRAN family.It compiles and runs on wide variety of UNIX platforms, Windows and MacOS.

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FlowJo (software resource)

RRID:SCR_008520

Software for single-cell flow cytometry analysis. Its functions include management, display, manipulation, analysis and publication of the data stream produced by flow and mass cytometers.

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