phone 8005490449
email bhaskar.shukla@cimap.res.in
Welcome to lncRNADetector1.0

A pipeline for lncRNA identification and analysis

Workflow

1. Submit job

Submit

Upload Fasta file and get result on the browser or through email

2. Processing the task

Run to process the input and wait for the result

3. Visualize

View processed result

Use the Task ID to fetch your result. See the processed result online

4. Download

The processed result can be downloaded in a tab separated file. The intermediate steps could also be downloaded as a zip file


MAPslnc1.0: A Repository of Medicinal and Aromatic Plant lncRNAs


  • gallery 1
  • Ocimum basilicum
    Family : Lamiaceae

    Commonly known as sweet basil. It is mostly distributed in the tropical regions of the old world. The whole plant constitutes the raw drug.

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  • Mentha arvensis
    Family : Lamiaceae

    It is industrial crop that is widely cultivated for its essential oil from which menthol is crystallized.The oil itself has shown anti-microbial activity, justifying its use in pharmaceutical industry.

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  • Catharanthus roseus
    Family : Apocynaceae

    Commonly known as "Sadabahar' in India. Native to Madagascar, but now widely cultivated and naturalized in many tropical areas. It produces nearly 150 terpenoid indole alkaloids, many of which have therapeutic uses.

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  • Gloriosa superba
    Family : Colchicaceae

    Commonly known as Glory lily. Its tuberous roots constitute the raw drug. The roots and seeds yield colchicine.

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  • Papaver somniferum
    Family : Papaveraceae

    The opium poppy is an ancient medicinal plant known to produce many therapeutically important akaloids including morphine, codeine and papaverine.

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  • Taxus baccata
    Family : Taxaceae

    Taxus baccata is a conifer native to Europe. It is commonly known as yew. It is the source of anticancer phytomolecules.

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  • Withania somnifera
    Family : Solanaceae

    Withania somnifera is native of India and an important ancient plant, the roots of which have been employed in Indian traditional systems of medicine, Ayurveda and Unani.

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  • Plantago ovata
    Family : Plantaginaceae

    Commonly known as Isabgol. It is widely distributed from the Mediterranean region to India. The boat-shaped seeds constitute the raw drug. Mainly used to treat constipation.

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  • Mentha spicata
    Family : Lamiaceae

    Commonly known as spearmint. It is indegenous to northern England, but now it is found across the world.The whole plant is used in trade

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  • Aloe vera
    Family : Liliaceae

    It is native to North Africa. The dried leaves constitute the raw drug. The plant has medicinal use in treatment of spleen enlargement, epilepsy and jaundice. Aloe vera gel is used as a cosmetic.

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  • Lippia alba
    Family : Verbenaceae

    Commonly known as Bushy lippia. It is native to southern and central America. The plant is medicinally useful and the leaves are also utilized for flavoring.

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  • Acorus calamus
    Family : Acoraceae

    Commonly known as Bach in India. The rhizomes constitute the raw drug in Ayurveda and are useful for treating various ailments.

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  • Andrographis paniculata
    Family : Acanthaceae

    Commonly known as Kalmegh It is an important medicinal plant used in Ayurveda. The whole plant constitute the raw drug and is useful for treating fever.

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  • Centella asiatica
    Family : Apiaceae

    Commonly known as Mandukaparni.The whole plant constitute the raw drug. In Ayurveda it is prescribed as an intellect-promoting drug.

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  • Rauvolfia serpentina
    Family : Apocynaceae

    Commonly known as Sarpagandha. The roots constitute the raw drug. It is useful for treatment of high blood pressure and mental disorders.

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  • Tinospora cordifolia
    Family : Menispermaceae

    Commonly known as Giloe or Gurch. It is an important medicinal plant in Ayurveda. The step pieces constitute the raw drug. It is mainly used for treating fever, jaundice, cough and rheumatism.

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  • Mucuna pruriens
    Family : Fabaceae

    Commonly known as Kavach. Its seeds constitute the raw drug. It is useful for treating round worms and urinary problems.

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  • Plumbago zeylanica
    Family : ‎Plumbaginaceae

    Commonly known as Chitrak. The root and root bark constitute the raw drug. It is useful for treating several ailments.

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  • Mentha x piperita
    Family : Lamiaceae

    Commonly known as Peppermint. It is a hybrid mint, a cross between watermint and spearmint. It is an important aromatic plant used in the flavour and fragrance industry.

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  • Crocus sativus
    Family : Iridaceae

    Commonly known as Kesar or Saffron crocus. It is an important spice that grows at high altitude (around 1600 m). The flower(Style and Stigma) are the traded parts.

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  • Hippophae rhamnoides
    Family : Elaeagnaceae

    Commonly known as Sea-buckthorn. It is an important medicinal plant having nutraceutical uses. The berries are the most useful plant part.



MEET OUR TEAM
  • member 1

    Er. Bhaskar Shukla

  • member 2

    Dr. Ashok Sharma

  • member 3

    Dr. Sanchita Gupta

  • member 4

    Dr. Gaurava Srivastava

  • member 5

    Dr. Ashutosh K. Shukla

  • member 6

    Dr. Ajit K. Shasany


Help Contents


Step by Step guide

1.Introduction

  • lncRNADetector 1.0 (long non-coding Identifying Tool) software is a unique tool to identify long non-coding RNA in one go. It can discriminate the long non-coding transcripts, more accurately by incorporating the series of filtering steps. Here, we provide an online version of lncRNApipe 1.0.

2.Installation

  • Install Active Perl 5.28 and Cygwin for Windows platform:
    Get Active Perl 5.28 at https://www.activestate.com/products/perl/downloads/ or install with your operating system’s package manager.
    Get Cygwin at https://cygwin.com/install.html. You can follow the guide https://cygwin.com/install.html to install Cygwin step by step.
  • Get Coding Potential Calculator at http://cpc.gao-lab.org/download/
  • Install blastx,2.2.28+

3.Submission Process

    How to submit the RNA transcript sequences online ?

  • There are two ways to submit RNA transcript sequences:
  • 1) Paste RNA sequences in fasta format into the input text box at the homepage.
  • 2) Upload fasta file of the sequences need to be identified using the upload button at the homepage

4.Visualize and download the result

  • After finishing identification process, results will be shown on browser. Also, lncRNADetector 1.0 will assign an unique Task ID for each jobrequest. Users can also retrieve results by either email-id or by inputting the Task ID in the homepage.
  • You can also download the result table file in tab delimetered file(.txt) format.

5.Download Data Set

PlantlncRNAsPlantlncRNAs
test-data-set 1Downloadtest-data-set2Download

6.Download Source Code

Download Source Code: lncRNADetector 1.0