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downloadgn-docs-c23058b5a32b9b1a691bb9a1183b7f8b85866948.tar.gz
Update news.md
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@@ -83,60 +83,8 @@
functions.
(Updated Dec 19, 2018 by RW Williams)
-
- **2018-09-12: GeneNetwork 1 will be supported in 2018 but GeneNetwork
- 2 will become the main production server**
-
- [GeneNetwork 2](http://gn2.genenetwork.org) is ready for testing and
- research projects. GeneNetwork 1 (GN1) and GeneNetwork 2 (GN2) share
- the a single database, but they use different code and algorithms for
- mapping and data analysis. There are some benefits of using GN2,
- including more powerful linear mixed model mapping methods that
- account for kinship structure.
-
- The interface of GN2 is still a work in progress. Please send any
- suggestion, requests, or bug reports to rwilliams@uthsc.edu.
-
- **2018-09-12: Notes on new BXD names**.
-
- 1. [BXD73](http://jaxmice.jax.org/strain/007117),
- [BXD73a](http://jaxmice.jax.org/strain/007124) (original known as
- *BXD80*), and [BXD73b](http://jaxmice.jax.org/strain/007146)
- (originally known as *BXD103*) are genetically very similar.
- [BXD73](http://jaxmice.jax.org/strain/007117) and *BXD80* are
- genetically identical at 82264 of 100290 markers (82% identical by
- descent). [BXD73](http://jaxmice.jax.org/strain/007117) keeps its
- original name and JAX identifier number (JR\#7117), whereas
- *BXD80* is now referred to as
- [BXD73a](http://jaxmice.jax.org/strain/007124) (JR\#7124).
- [BXD73](http://jaxmice.jax.org/strain/007117) and BXD103 are
- genetically identical at 90917 of 100290 markers (90.6% identical
- by descent). *BXD103* is now referred to as
- [BXD73b](http://jaxmice.jax.org/strain/007146) (JR\#7146).
- 2. [BXD48](http://jaxmice.jax.org/strain/007097) and
- [BXD48a](http://jaxmice.jax.org/strain/007139) (originally known
- as *BXD96*) are sister substrains, and are genetically identical
- at 93485 of 100290 markers (93.2% identical by descent).
- [BXD48](http://jaxmice.jax.org/strain/007097) retains its original
- name and JAX identifier number (JAX JR\#7097) whereas BXD96 is now
- referred to as [BXD48a](http://jaxmice.jax.org/strain/007139)
- (JR\#7139).
- 3. [BXD65](http://jaxmice.jax.org/strain/007110),
- [BXD65a](http://jaxmice.jax.org/strain/007140) (originally known
- as *BXD97*), and [BXD65b](http://jaxmice.jax.org/strain/009677)
- (originally known as *BXD92*) are sister substrains.
- [BXD65](http://jaxmice.jax.org/strain/007110) and *BXD97* are
- genetically identical at 92225 of 100290 markers (92% identical by
- descent). *BXD97* is now referred to as
- [BXD65a](http://jaxmice.jax.org/strain/007140) (JR\#7140).
- [BXD65](http://jaxmice.jax.org/strain/007110) and *BXD92* are
- genetically identical at 6155 of 6459 markers (95.3% identical by
- descent). [BXD65](http://jaxmice.jax.org/strain/007110) retains
- its original name and JAX identifier (JR\#7110) whereas *BXD92* is
- now referred to as [BXD65b](http://jaxmice.jax.org/strain/009677)
- (JR\#9677).
-
-**2019-12-01: LSRU CC Male Midbrain RNA-Seq (Dec19) TPM Log2.** profiling by array entered into GeneNetwork.
+
+ **2019-12-01: LSRU CC Male Midbrain RNA-Seq (Dec19) TPM Log2.** profiling by array entered into GeneNetwork.
- [LSRU CC Male Midbrain RNA-Seq (Dec19) TPM Log2](http://genenetwork.org/webqtl/main.py?FormID=sharinginfo&GN_AccessionId=361)
@@ -203,6 +151,58 @@
This dataset is publicly available in most cases. For more information
on how to access the data please refer to the link above.
+
+ **2018-09-12: GeneNetwork 1 will be supported in 2018 but GeneNetwork
+ 2 will become the main production server**
+
+ [GeneNetwork 2](http://gn2.genenetwork.org) is ready for testing and
+ research projects. GeneNetwork 1 (GN1) and GeneNetwork 2 (GN2) share
+ the a single database, but they use different code and algorithms for
+ mapping and data analysis. There are some benefits of using GN2,
+ including more powerful linear mixed model mapping methods that
+ account for kinship structure.
+
+ The interface of GN2 is still a work in progress. Please send any
+ suggestion, requests, or bug reports to rwilliams@uthsc.edu.
+
+ **2018-09-12: Notes on new BXD names**.
+
+ 1. [BXD73](http://jaxmice.jax.org/strain/007117),
+ [BXD73a](http://jaxmice.jax.org/strain/007124) (original known as
+ *BXD80*), and [BXD73b](http://jaxmice.jax.org/strain/007146)
+ (originally known as *BXD103*) are genetically very similar.
+ [BXD73](http://jaxmice.jax.org/strain/007117) and *BXD80* are
+ genetically identical at 82264 of 100290 markers (82% identical by
+ descent). [BXD73](http://jaxmice.jax.org/strain/007117) keeps its
+ original name and JAX identifier number (JR\#7117), whereas
+ *BXD80* is now referred to as
+ [BXD73a](http://jaxmice.jax.org/strain/007124) (JR\#7124).
+ [BXD73](http://jaxmice.jax.org/strain/007117) and BXD103 are
+ genetically identical at 90917 of 100290 markers (90.6% identical
+ by descent). *BXD103* is now referred to as
+ [BXD73b](http://jaxmice.jax.org/strain/007146) (JR\#7146).
+ 2. [BXD48](http://jaxmice.jax.org/strain/007097) and
+ [BXD48a](http://jaxmice.jax.org/strain/007139) (originally known
+ as *BXD96*) are sister substrains, and are genetically identical
+ at 93485 of 100290 markers (93.2% identical by descent).
+ [BXD48](http://jaxmice.jax.org/strain/007097) retains its original
+ name and JAX identifier number (JAX JR\#7097) whereas BXD96 is now
+ referred to as [BXD48a](http://jaxmice.jax.org/strain/007139)
+ (JR\#7139).
+ 3. [BXD65](http://jaxmice.jax.org/strain/007110),
+ [BXD65a](http://jaxmice.jax.org/strain/007140) (originally known
+ as *BXD97*), and [BXD65b](http://jaxmice.jax.org/strain/009677)
+ (originally known as *BXD92*) are sister substrains.
+ [BXD65](http://jaxmice.jax.org/strain/007110) and *BXD97* are
+ genetically identical at 92225 of 100290 markers (92% identical by
+ descent). *BXD97* is now referred to as
+ [BXD65a](http://jaxmice.jax.org/strain/007140) (JR\#7140).
+ [BXD65](http://jaxmice.jax.org/strain/007110) and *BXD92* are
+ genetically identical at 6155 of 6459 markers (95.3% identical by
+ descent). [BXD65](http://jaxmice.jax.org/strain/007110) retains
+ its original name and JAX identifier (JR\#7110) whereas *BXD92* is
+ now referred to as [BXD65b](http://jaxmice.jax.org/strain/009677)
+ (JR\#9677).
**2018-09-12: UConn-Rheaume Retina RGC (Sep18) scRNA-Seq Log2 and raw