download seems corrupted + hg38 liftOver

[mvheetve]

Hi there,

I downloaded regBase_prediction.gz but the file seems corrupted. When executing I get an 'unexpected EOF' message.

Here's the end of my file:
$ zcat regBase_prediction.gz | tail -3
Y 28727346 28727347 T A 0.04943112 0.6325 0.9904585 14.2273 0.5943396 15.3231
Y 28727346 28727347 T C 0.085212514 0.8865 0.9889593 13.8026 0.3223787 11.4485
Y 28727346 28727347 T G 0.033566605 0.4964 0.987854 13.5297 0.5784

If I'm not mistaken chrY in hg19 counts >59 million and 28 million bases. ref: https://www.ncbi.nlm.nih.gov/grc/human/data?asm=GRCh37.p13

I will download the file again and see if that helps, but could the authors in the meantime provide:

1. an md5sum of their filles, to check for succesful transfer
2. the last few correct lines of the regBase_prediction.gz file

In addition I'm making a liftover to hg38. It would be very helpful if the authors could provide such a file themselves. Either via liftover or, better yet, by rerunning their model on hg38 directly.

[jcorominas]

Hello,
I will actually be really interested on having the data for GRCh38. There is any plan to share GRCh38 data from a liftover or from running the model with GRCh38?
Lots of thanks.

[m-pauper]

I'd like to add to this issue, an update for genome version 38 would be great, although I imagine that in order to rebuild the model it will be necessary that all the annotations (LINSIGHT, FATHMM, etc.) become available for 38.

Maybe a liftover from the authors could be a good solution.

Thanks!

[m-pauper]

For future reference, the authors have since published VarNote . From there, it seems regBase is actually available for hg38 here: http://2792wttzz8.xuduan.vip/VarNoteDB/