From: Charles Plessy Date: Mon, 9 Oct 2017 07:30:14 +0000 (+0900) Subject: Nettoyage. X-Git-Url: https://source.charles.plessy.org/?a=commitdiff_plain;h=6d1231ae01d5a306ee08da900625d44c37c61458;p=source%2F.git Nettoyage. --- diff --git a/biblio/To_Do b/biblio/To_Do index ed0970ed..584dd854 100644 --- a/biblio/To_Do +++ b/biblio/To_Do @@ -46,9 +46,6 @@ Noise due to RNA extraction is 40 times greater than noise due to replicate hybr 12595569 [amplificaiton] Aminoallyl UTP to labal cRNAs. In contrast to cDNAs, DMSO is required for subsequent cyanine labelling. -11955710 [visual cortex] -Cat visual cortex cDNAs hybridized to human macroarrays to study critical period mechanism - 11222780 [amplification] T7 pol generates aberrant template-unrelated products. This is fixed by reducing the concentration of oligo dT primers, and of enzymes. Under these conditions, 2 rounds of RNA linear amplification is not generatng too much bias. Small-volume protocol. T4gp32, a single stranded protein, increases RT processivity. @@ -154,9 +151,6 @@ Apical localisation increases the robustness of development (more segmenatal def 14732405 [promoters] Pax6 has at least two transcription start sites. -15345244 [visual cortex] -Differential display. Age-dependant variations account for 6.5% of the variations. - 15196954 [enhancers] [review] Gene networks. @@ -169,9 +163,6 @@ Dual strategy using full length cDNAs and whole genome tiling arrays to annotate 15001784 [networks] [tracked] Distribution of triads and tetrads in networks can cluster them in functional classes. -15295028 [visual cortex] [tracked] -Synaptic changes in dark-reared animals stimulated by 6 hours of light before sacrifice. - 15208707 [networks] 4599081 [crick] @@ -277,9 +268,6 @@ Alternative promoters which transcribe variants with different translational eff 15342556 [genome] These blocks contain most validated and predicted transcription factor binding sites. -15509747 [visual cortex] -Another slightly different critical period, and another PV:GFP transgene. - 15849325 [genome] Proteomics to demonstrate that some short ORFs are translated. @@ -394,9 +382,6 @@ Coordinated expression of e and y is necessary for spot formation. Ancestral pat 15282333 [networks] CDS, 3'UTRs, but not 5'UTRs of highly connected genes of the human and mouse coexpression networks evolve more slowly -15009647 [visual cortex] -Identifies immediate early genes that are upregulated in visual cortex after monocular enucleation. - 15860629 [networks] Model of network growth which takes into account the propension to link to newcommers or to good old friends. @@ -436,9 +421,6 @@ The cells were pulled out from midly digested ganglia with glass microelectrodes 15371555 [tags] Semi-random priming: the 5' oligo is N6-NlaIII. -15901564 [visual cortex] -OBCAM RNA and protein levels are higher juvenile and dark reared adults, compared to light reared adults. - 15911778 [networks] The muticommunauty structure of the air transortation network explains why some cities with a high centrality are not hubs. @@ -541,9 +523,6 @@ Usage of "Bayes Error Rate" instead of a cutoff on p-values. R packaged availabl 16103215 [misc] Supports the idea that the only function of some RNA is to have been transcribed. -16107646 [visual cortex] -Substracted library spotted on microarrays. - 16094371 [networks] Functional validation. @@ -565,9 +544,6 @@ Sequence surrounding UCRs might regulate negatively their activity. 16141073 [genome] S/AS pairs usually show positive correlation of their expression. -16195464 [visual cortex] -Loss of function delays the closure of the critical period. - 16168087 [networks] Different collaboration network in different research consortiums. @@ -670,15 +646,6 @@ Not read. Deletion of an enhancer conserved in mouse and chicken and its phenoty 14701942 [enhancers] Not read. A pdx-1 enhancer conserved in human, mouse and chicken. -10408598 [visual cortex] -Not read. egr1 is down-regulated in dark-reared rats. - -11739581 [visual cortex] -Not read. Phenotype of the egr1 KO for the activity-dependant plasticity in the visual cortex. - -8656291 [visual cortex] -not read. Nuclear extracts from dark reared rats have a lesser binding activity to an egr1 probe. - 16314298 [protocols] Adding gold in PCR tubes enhances the yield when the cycling is quick. @@ -742,9 +709,6 @@ Not read. Enhancers of Krox-20, conserved between chicken and mouse. 16527264 [enhancers] Not read. An enhancer of Rpx/Hesx1 conserved between mouse and xenopus. -16540572 [visual cortex] -Not read. Monocular deprivation can lead to shifts in ocular dominance in adults if they are deprived of visual stumuli 10 days before the experiment... - 16540077 [misc] The PPi produced during the PCR can be removed with the pyrosequencing enzymes themselves. The antarctic phosphatase from NEB was not very efficient at this task. @@ -781,12 +745,6 @@ By weakening the DNA-protein interaction, the authors acheived the suppression o 16618967 [enzymes] The combined use of a complementary DNA oligo and DNA ligase suppresses the artifacts seen in RNA ligase adenylation. -16709670 [visual cortex] -Weakening the extracellular matrix influences the plasticity process. - -16723524 [visual cortex] -Publicly available cell-type-specific expression patterns were used to analyse the results of whole-tissue microarray experiments. - 16344560 [alternative promoters] Detected an average of 3.1 promoters per gene. @@ -1096,9 +1054,6 @@ Primary paper for CLICs (clusters in conservation). 17284453 [misc] [not read] The 3' end of RefSeq protein-coding genes is enriched in putative binding sites (the 5' as well). -17510325 [transcriptome] -Small RNAs were directly labelled with pCpBiotin. - 18024554 [tags] A sort of Superverylong 3'SAGE.