scholarly journals Plant gene functional analysis : Toward gene targeting. 1. Outline and inductive antisense tagging method.

1996 ◽  
Vol 34 (8) ◽  
pp. 528-534
Author(s):  
TAKAYUKI KAWAUCHI
Cilia ◽  
2012 ◽  
Vol 1 (S1) ◽  
Author(s):  
G Mali ◽  
P Mill ◽  
PI zur Lage ◽  
EA Hall ◽  
AP Jarman ◽  
...  

Hereditas ◽  
2020 ◽  
Vol 157 (1) ◽  
Author(s):  
Kirsten Hildebrandt ◽  
Nicole Bach ◽  
Dieter Kolb ◽  
Uwe Walldorf

Abstract Background The Drosophila hindgut is commonly used model for studying various aspects of organogenesis like primordium establishment, further specification, patterning, and morphogenesis. During embryonic development of Drosophila, many transcriptional activators are involved in the formation of the hindgut. The transcription factor Orthopedia (Otp), a member of the 57B homeobox gene cluster, is expressed in the hindgut and nervous system of developing Drosophila embryos, but due to the lack of mutants no functional analysis has been conducted yet. Results We show that two different otp transcripts, a hindgut-specific and a nervous system-specific form, are present in the Drosophila embryo. Using an Otp antibody, a detailed expression analysis during hindgut development was carried out. Otp was not only expressed in the embryonic hindgut, but also in the larval and adult hindgut. To analyse the function of otp, we generated the mutant otp allele otpGT by ends-out gene targeting. In addition, we isolated two EMS-induced otp alleles in a genetic screen for mutants of the 57B region. All three otp alleles showed embryonic lethality with a severe hindgut phenotype. Anal pads were reduced and the large intestine was completely missing. This phenotype is due to apoptosis in the hindgut primordium and the developing hindgut. Conclusion Our data suggest that Otp is another important factor for hindgut development of Drosophila. As a downstream factor of byn Otp is most likely present only in differentiated hindgut cells during all stages of development rather than in stem cells.


2010 ◽  
Vol 153 (2) ◽  
pp. 632-641 ◽  
Author(s):  
Yang Tang ◽  
Fei Wang ◽  
Jinping Zhao ◽  
Ke Xie ◽  
Yiguo Hong ◽  
...  

2021 ◽  
Author(s):  
Rui Fan ◽  
Qinghua Cui

ABSTRACTGene functional enrichment analysis represents one of the most popular bioinformatics methods for annotating the pathways and function categories of a given gene list. Current algorithms for enrichment computation such as Fisher’s exact test and hypergeometric test totally depend on the category count numbers of the gene list and one gene set. In this case, whatever the genes are, they were treated equally. However, actually genes show different scores in their essentiality in a gene list and in a gene set. It is thus hypothesized that the essentiality scores could be important and should be considered in gene functional analysis. For this purpose, here we proposed WEAT (https://www.cuilab.cn/weat/), a weighted gene set enrichment algorithm and online tool by weighting genes using essentiality scores. We confirmed the usefulness of WEAT using two case studies, the functional analysis of one aging-related gene list and one gene list involved in Lung Squamous Cell Carcinoma (LUSC). Finally, we believe that the WEAT method and tool could provide more possibilities for further exploring the functions of given gene lists.


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