**Email sent to participants on 9/6/2016** Dear ENCODE-DREAM Challenge Participants,   We would like to inform you of several updates that have been made in the ENCODE-DREAM in vivo transcription factor binding site prediction challenge.   1) The submission queue for the final scoring round is now open!! Note that for each final round TF/cell type combination, you can submit predictions as many times as you like, but the scoring will be done only on the last submission you/your team made on or before the September 30th close of the final scoring round. Teams will get an email notification once they have made a submission that will indicate if the submission is valid or not. But you will not receive any feedback on the performance of any final round submission. Also the "Final round submission status section" (Section 5) on the wiki will be updated with date and valid status of every submission, but no scores.   2) For final submission, please note that when submitting models, please submit them to the ?ENCODE-DREAM Transcription Factor Binding Site Prediction Challenge (FINAL ROUND)? queue, noted in Section 3.4, step 6: https://www.synapse.org/#!Synapse:syn6131484/wiki/402044   3) For final submission, please remember to use the final round submission template which is different from the leaderboard template (in that it includes coordinates across the whole genome). The templates are provided in Section 3.4 on the wiki https://www.synapse.org/#!Synapse:syn6131484/wiki/402044   4) For final round submissions, remember to name your files appropriately (starting with the F prefix). File naming instructions are in Section 3.4 on the wiki https://www.synapse.org/#!Synapse:syn6131484/wiki/402044   5) Note that the TF/cell type combinations that you need to submit for the final round are different from the ones in the leaderboard round. See https://www.synapse.org/#!Synapse:syn6131484/wiki/402034 for the full list.   6) The leaderboard round will remain open throughout the challenge. You can continue submitting to the leaderboard round as you have been; using the appropriate template file, submission queue and file naming convention. Note that the number of submissions remains capped to 10 for each TF/cell type combination in the leaderboard round.   7) This week, we will be updating the leaderboard scoring scripts to incorporate the integrated score that will also be used in the final scoring round. We will also release the code for the integrated scoring over the weekend.   8) Finally, we have decided to extend the Challenge beyond the September 30 deadline to encourage broader engagement in the community. We have gotten feedback that the Challenge is difficult and on a short time frame, thus we will run a second phase of the Challenge that will run until January 7, 2017. The Challenge will proceed as planned until September 30, where final submissions will be scored and the top performing teams will be invited to give a presentation at the Recomb/ISCB Conference. This will end the first phase of the Challenge. Starting on October 1, 2016, we will reset the submission queues for the leaderboard and the final scoring round. You will be allowed another 10 submissions per TF for the leaderboard round and allowed 1 final submission (scored on the last submission made).   If you have further questions or need clarifications, please post your questions to the Discussion Forum on the Challenge website.   We encourage everyone to attend the Recomb/ISCB Conference on Regulatory & Systems Genomics with DREAM Challenges & Cytoscape workshop: https://www.iscb.org/recomb-regsysgen2016   Good luck with your final submissions!!   Kind Regards, The ENCODE-DREAM Challenge Organizing Team.