From: Charles <charles.plessy@oist.jp>
Date: Fri, 4 Sep 2020 04:34:04 +0000 (+0900)
Subject: Café
X-Git-Url: https://source.charles.plessy.org/?a=commitdiff_plain;h=c46fcf5576017c0ae712ce3906c353e9957f2315;p=source%2F.git

Café
---

diff --git a/biblio/25940625.mdwn b/biblio/25940625.mdwn
new file mode 100644
index 00000000..4e6edbf0
--- /dev/null
+++ b/biblio/25940625.mdwn
@@ -0,0 +1,10 @@
+[[!meta title="Accurate identification of centromere locations in yeast genomes using Hi-C."]]
+[[!tag assembly software]]
+
+Varoquaux N, Liachko I, Ay F, Burton JN, Shendure J, Dunham MJ, Vert JP, Noble WS.
+
+Nucleic Acids Res. 2015 Jun 23;43(11):5331-9. doi:10.1093/nar/gkv424.
+
+Accurate identification of centromere locations in yeast genomes using Hi-C.
+
+[[!pmid 25940625 desc="Tested on yeast and Plasmodium falciparium.  First, detects regions enriched in Hi-C contacts.  Then, prioritises local maxima enriched in trans-contacts."]]
diff --git a/tags/assembly.mdwn b/tags/assembly.mdwn
index b999bbb0..259f50eb 100644
--- a/tags/assembly.mdwn
+++ b/tags/assembly.mdwn
@@ -51,6 +51,9 @@ that most contact points are due to local (same-chromosome) proximity.  Version
 2 of SALSA uses unitigs and the assembly graph as input ([[Ghurye and coll.,
 2019|biblio/31433799]]).
 
+The Hi-C data can also be used to call the location of centromeres ([[Varoquaux
+and coll., 2015|biblio/25940625]], Marie-Nelly and coll., 2014(not read)).
+
 Assemblies can be aligned with [[last-dotplot|LAST]] or, for SVG export and
 interactive browsing with D-GENIES ([[Cabanettes and Klopp
 2018|biblio/29888139]]).