From: Charles Plessy <plessy@riken.jp>
Date: Wed, 24 Jan 2018 03:51:41 +0000 (+0900)
Subject: Old
X-Git-Url: https://source.charles.plessy.org/?a=commitdiff_plain;h=4264d1fc725dd708cf60e52568f8c0c5a146b672;p=source.git

Old
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diff --git a/biblio/12902159.mdwn b/biblio/12902159.mdwn
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+[[!meta title="Genomic analysis of gene expression relationships in transcriptional regulatory networks."]]
+[[!tag network]]
+
+Trends Genet. 2003 Aug;19(8):422-7 doi:10.1016/S0168-9525(03)00175-6
+
+Yu H, Luscombe NM, Qian J, Gerstein M.
+
+Genomic analysis of gene expression relationships in transcriptional regulatory networks.
+
+[[!pmid 12902159 desc="Correlating subnetwork topology, correlation or inverse collrelation, and phase."]]
diff --git a/biblio/To_Do b/biblio/To_Do
index 993b7bae..40b6ec84 100644
--- a/biblio/To_Do
+++ b/biblio/To_Do
@@ -62,9 +62,6 @@ A method to amplify two distinguishable substrates in the same PCR tube, so that
 12582258 [misc]
 Direct labeling of 10µg total RNA.
 
-12902159 [networks]
-Correlating subnetwork topology, correlation or inverse collrelation, and phase.
-
 10611672 [misc] [review]
 Describes the general attractions of the RNA world theme park to be built.
 
@@ -83,15 +80,9 @@ Discusses the intests of comparing close species to detect positive selection, a
 12547512 [enhancers]
 Differential distribution of TEs in the promoters. In 4.5% of the studied genes, TE sequences contain expermientally validated TransFac binding sites.
 
-12934013 [networks] [tracked]
-Defines metagenes as a set of genes from different organisms, that are each other's reciprocal best blast hit. Focuces on the highly clustered components of a metagene coexpression network.
-
 9409673 [neurogenin]
 Primary paper for zebrafish.
 
-15079056 [networks] [tracked]
-Combines protein-protein, and transcriptional interactions. Identifies "motifs", subnetworks with 2, 3, or 4 nodes, that are over-represented. Most 4-node motifs are the combination of 3-node motifs.
-
 11418835 [Crick]
 Discussees unconscious"online systems" ("zombies"), and wonder whether they use the same networks as consciousness, and whether what differenciates them is the level of firing synchrony.
 
@@ -121,9 +112,6 @@ RLM-RACE to identify variants. CHIP to confirm TBP on TATA-less promoters. Lucif
 14593172 [genome]
 Dual strategy using full length cDNAs and whole genome tiling arrays to annotate the Arabidopsis genome.
 
-15001784 [networks] [tracked]
-Distribution of triads and tetrads in networks can cluster them in functional classes.
-
 4599081 [crick]
 Comments on his discovery, 20 years later.
 
@@ -221,9 +209,6 @@ Proteomics to demonstrate that some short ORFs are translated.
 15197164 [genome]
 RT-PCR on putative 5'-3' EST pairs.
 
-14530453 [networks] [tracked]
-Matrix representation of networks to detect regulatory circuits.
-
 11099257 [mining] [review]
 Summarises a lot of clustering algorithms.