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Further Literature for MOL204 (H2017)

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Further Literature for MOL204 (H2016)

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Lecture: Topic Literature
Lect 2: Databases In Rein's lecture 2 on Databases, he referred to a few papers that would nicely complement what was covered (be patient: the full-text open access papers may take a moment to load).

[1] The first is the editorial paper in the 2016 database issue of Nucleic Acids Research (Rigden et al., 2016). In this paper you get a quick overview on what in the issue and what's new since last year.

[2•] From the 2015 database issue I recommend the paper by the UniProt consortium (2015) that describes the major revision and upgrade of UniProt that took place in 2014/2015.

[3••] Asburner et al., (Nature Genetics, 2000) gave the first presentation of the Gene Ontology system. It is from this paper that I used the figures that explains the three types of sub-ontologies in GO: biological process, molecular function, and cellular component. And here is [3B•] a recent update on GO (GO Consortium, 2014).

[4•] In this 2016 database issue are also papers describing updates on important databases such as the one on Pfam (Protein domain families; Finn et al., 2016, - which will become very important in the later PC lab sessions.

Lect 1: Protein structure and evolution Nature has just released a new Insight supplement called "The Protein World" with four articles on new approaches to studies and engineering of proteins. Check it out (you must be on a UiB computer to read them)

A discussion emerged in this lecture on the definition of a gene, and Rein promised to provide a recent article on the subject. Here, we offer an open access-article written by Mark Gerstein and colleges in 2007 (Genome Research, 17:669), just after the first lot of ENCODE data were massively released. In this article, they review "review the evolution of operational definitions of a gene over the past century—from the abstract elements of heredity of Mendel and Morgan to the present-day ORFs enumerated in the sequence databanks." and offer an updated definition of a gene as: "a union of genomic sequences encoding a coherent set of potentially overlapping functional products."