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miRQuest

Submitted by ChenLiang on Fri, 09/02/2016 - 21:59

This report describes the miRQuest - a novel middleware available in a Web server that allows the end user to do the miRNA research in a user-friendly way. It is known that there are many prediction tools for microRNA (miRNA) identification that use different programming languages and methods to realize this task. It is difficult to understand each tool and apply it to diverse datasets and organisms available for miRNA analysis. miRQuest can easily be used by biologists and researchers with limited experience with bioinformatics.

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5
Average: 4.5 (2 votes)

GED

Submitted by ChenLiang on Fri, 09/02/2016 - 21:59

Reproductive infertility affects seventh of couples, which is most attributed to the obstacle of gametogenesis. Characterizing the epigenetic modification factors involved in gametogenesis is fundamental to understand the molecular mechanisms and to develop treatments for human infertility. Although the genetic factors have been implicated in gametogenesis, no dedicated bioinformatics resource for gametogenesis is available.

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Average: 5 (1 vote)

PlantcircBase

Submitted by ChenLiang on Sun, 09/10/2017 - 20:11

Abstract is not available.[1]






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Average: 5 (1 vote)

Wormnet

Submitted by ChenLiang on Fri, 09/02/2016 - 21:59

An integrated gene network for Caenorhabditis elegans using data from multiple genome-wide screens encompasses most protein-coding genes and can accurately predict their phenotypes.[1]

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Average: 5 (1 vote)

Exp. Verified microRNA-Target

Submitted by ChenLiang on Fri, 09/02/2016 - 21:59

Recent studies have indicated that microRNA (miRNA) may play an oncogenic or tumor suppressor role in human cancer. To study the regulatory role of miRNAs in tumorigenesis, an integrated platform has been set up to provide a user friendly interface for query. The main advantage of the present platform is that all the miRNA target genes' information and disease records are drawn from experimentally verified or high confidence records.

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Average: 5 (1 vote)

Mirin

Submitted by ChenLiang on Fri, 09/02/2016 - 21:59

Exploring microRNA (miRNA) regulations and protein-protein interactions could reveal the molecular mechanisms responsible for complex biological processes. Mirin is a web-based application suitable for identifying functional modules from protein-protein interaction networks regulated by aberrant miRNAs under user-defined biological conditions such as cancers. The analysis involves combining miRNA regulations, protein-protein interactions between target genes, as well as mRNA and miRNA expression profiles provided by users.

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Average: 5 (2 votes)

miRandb

Submitted by ChenLiang on Mon, 01/09/2017 - 11:45

Recent discovery of thousands of small and large noncoding RNAs, in parallel to technical improvements enabling scientists to study the transcriptome in much higher depth, has resulted in massive data generation. This burst of information prompts the development of easily accessible resources for storage, retrieval and analysis of raw and processed data, and hundreds of Web-based tools dedicated to these tasks have been made available.

Rating: 
5
Average: 5 (2 votes)

miRDis

Submitted by ChenLiang on Fri, 01/13/2017 - 10:33

Small RNA sequencing is the most widely used tool for microRNA (miRNA) discovery, and shows great potential for the efficient study of miRNA cross-species transport, i.e., by detecting the presence of exogenous miRNA sequences in the host species. Because of the increased appreciation of dietary miRNAs and their far-reaching implication in human health, research interests are currently growing with regard to exogenous miRNAs bioavailability, mechanisms of cross-species transport and miRNA function in cellular biological processes.

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Average: 5 (1 vote)

RNA Editing Plus

Submitted by ChenLiang on Tue, 01/09/2018 - 17:05

Adenosine-to-inosine (A-to-I) editing by adenosine deaminase acting on the RNA (ADAR) proteins is one of the most frequent modifications during post- and co-transcription. To facilitate the assignment of biological functions to specific editing sites, we designed an automatic online platform to annotate A-to-I RNA editing sites in pre-mRNA splicing signals, microRNAs (miRNAs) and miRNA target untranslated regions (3' UTRs) from human (Homo sapiens) high-throughput sequencing data and predict their effects based on large-scale bioinformatic analysis.

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Average: 5 (1 vote)

AtCircDB

Submitted by ChenLiang on Tue, 01/09/2018 - 17:16

Circular RNAs are widely existing in eukaryotes. However, there is as yet no tissue-specific Arabidopsis circular RNA database, which hinders the study of circular RNA in plants. Here, we used 622 Arabidopsis RNA sequencing data sets from 87 independent studies hosted at NCBI SRA and developed AtCircDB to systematically identify, store and retrieve circular RNAs. By analyzing back-splicing sites, we characterized 84685 circular RNAs, 30648 tissue-specific circular RNAs and 3486 microRNA-circular RNA interactions.

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5
Average: 5 (2 votes)

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