Blog of Andrés Aravena
Bioinfo:

# Homework 1

26 September 2022. Deadline: Friday, 30 September, 9:00. by Andrés Aravena, Ph.D.

Last class we showed how to look for specific sequences in NCBI using advanced search. This homework aim is to practice this kind of search. For each of the following questions, please describe the advanced query used to answer it, the database used, and the number of results.

For example, if the question is “all keratin proteins in Homo sapiens” corresponds to the query keratin[Protein Name] AND "homo sapiens"[Organism] in the Protein database, and results in 5 answers. Notice that the answer is different if you instead ask keratin AND "homo sapiens".

We do not want to see the all the results, only the number of results, the database name, and the query.

• All protein sequences with length between 1000 and 1050 amino-acids

• All protein sequences with length between 1000 and 1050 amino-acids and in the PDB database

• All 16S genes for organisms in Gammaproteobacteria

• All papers about Down syndrome

• All papers written by Dr. Down

• All papers written at a place located in Down Street

• All papers published last year?

• All papers written by Dr Brown from Brown University

• All articles about breast cancer published in Science in 2008

Please answer by email and fill the answers below each question. No Microsoft Word™ files are allowed. It is fine if you just write your answers in the email, so you do not need to attach any file.

Do not send your answers to the forum. Send them directly to andres.aravena+bioinfo@istanbul.edu.tr.

Enjoy