Hello,
The Wiki mentions that the allowed data includes TF chip-seq experiments. Are histone modification chip-seq experiments usable in the predictive model?
Thanks,
Rajiv.
Created by Rajiv Movva rmovva Hi Rajiv,
You cannot use histone modification data. In fact only data provided in Synapse is allowed to be used. That means you cannot use any external TF ChIP-seq data either. Please see the challenge rules here https://www.synapse.org/#!Synapse:syn6131484/wiki/402038. I am listing the relevant lines here
- In order to assess the performance of the participating methods under specific settings, participants can use any combination of the five types of data as provided in the Synapse Files Section for developing predictive models. These 5 types are TF ChIP-seq data, DNA sequence, DNA shape, DNase-seq and RNA-seq that are provided through Synapse (see the Challenge Data Description). NOTE: Participants need not use all five data types but no outside or additional datasets/data types may be used beyond the five specified above and supplied with this Challenge. An exception to this rule is the use of sequence features derived from DNA sequence. E.g. participants can use experimentally or computationally derived sequence motifs or other types of features derived from DNA sequence from any source. We provide links to a few such popular resources in the Challenge Resources section.
- The use of any type of experimental data that measures TF-binding events in the held-out cell types is forbidden.
Thanks,
Anshul.