iEnhancer-2L: a two-layer predictor for identifying enhancers and their strength by pseudo k-tuple nucleotide composition

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ReadMe

  For the convenience of users, particularly for the vast majority of experimental scientists, a publicly accessible web-server for iEnhancer-2L has been established. Moreover, to maximize users' convenience, given below a step-by-step guide on how to use it to get the desired results without the need to through the above mathematical details.

  Step 1. Open the web-server by clicking the link at http://bliulab.net/iEnhancer-2L/ and you will see its top page of iEnhancer-2L. Click on the ReadMe button to see a brief introduction about the server.

  Step 2. You can either type or copy and paste the query sequences into the input box at the center of iEnhancer-2L, or directly upload your input data by the Browse button. The input sequence should be in the FASTA format. A potential sequence in FASTA format consists of a single initial line beginning with the symbol ">" in the first column, followed by lines of sequence data in which nucleotides are represented using single-letter codes. Except for the mandatory symbol ">", all the other characters in the single initial line are optional and only used for the purpose of identification and description. The sequence ends if another line starting with the symbol ">" appears; this indicates the start of another sequence. Example sequences in FASTA format can be seen by clicking on the Example button right above the input box.

  Step 3. Click on the Submit button to see the predicted results. The predicted results will be shown on the screen. For example, if using the query sequences in the Example window, you will see the following on the screen: (1) the 1st query sequence contains 9 strong enhancers: sub-sequences 1-200, 2-201, 3-202, 4-203, 5-204, 6-205, 7-206, 8-207, and 9-208; (2) the 2nd query sequence contains one weak enhancer at sub-sequence 1-200; (3) the 3rd query sequence contains one weak enhancer at sub-sequence 1-200; (4) the 4th query sequence contains no enhancer; (5) the 5th query sequence contains no enhancer. All these predicted results are fully consistent with experimental observations.

  Step 4. You can also download the predicted results into a file by clicking the Download button on the aforementioned screen.


Copyright@By Bin Liu's lab, Beijing Institute of Technology.

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