BIOINFORMATICS DATABASES – ITESM – Dr. Victor Treviño

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4 Οκτ 2013 (πριν από 3 χρόνια και 10 μήνες)

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BIOINFORMATICS DATABASES


ITESM


DR. VICTOR TREVIÑO

Excercises
-

Literature Databases (PubMed, EBI, and others)

vtrevino@itesm.mx

EXERCISE


Search the literature for Databases and Software
tools related to SNP (single nucleotide
polymorphism)



Search Engine used?


Query used?


How
many hits?,
databases
?

S
oftware

tools
?


Write a
brief summary



Note: I don't know the answer

vtrevino@itesm.mx

SOLUTION
?


SNP
13345


Single
Nucleotide

Polymorphism

27060



SNP software
500


SNP
database

424



Single
Nucleotide

Polymorphism

software
834


Single
Nucleotide

Polymorphism

database

692


Single
Nucleotide

Polymorphism

databases

980

vtrevino@itesm.mx

EXERCISE


Search the literature for ALL Databases and
Software tools




Note: I don't know the answer neither

vtrevino@itesm.mx

IMPROVEMENT


single nucleotide
polymorphism[TIAB
]
databases[TI
] 8


single nucleotide
polymorphisms[TIAB
]
databases[TI
] 15


single nucleotide
polymorphism[TIAB
]
database[TI
] 18


single nucleotide
polymorphism
s
[TIAB
]
database[TI
] 62


snp[TIAB
]
databases[TI
] 22


snp[TIAB
]
database[TI
] 72


snps[TIAB
]
database[TI
] 80


snps[TIAB
]
databases[TI
] 21


"
Software"[Mesh
] AND (SNP OR SNPS OR Single Nucleotide
Polymorphism) 631

vtrevino@itesm.mx

ANAYSIS OF "POSITIVE" SOFTWARE
PAPERS


"GALGO Trevino V" query


BLAST paper


1990

Major

Topic

vtrevino@itesm.mx

*SOFTWARE MESH TERM QUERY ISSUE


"Software"[MAJR] NOT "Software Design"[MH]
NOT "Software Validation"[MH] NOT "Speech
Recognition Software"[MH] AND
Algorithms[MH] = 4058


Software[MH] AND Algorithms[MH] = 10271


Software[MH] AND Algorithms[MH] BLAST =
229 !!!

vtrevino@itesm.mx

EXERCISE


Search the literature for papers from an
author named "Chen X"


summarise



… Then, those published only on the
Proteins
Journal


summarise


vtrevino@itesm.mx

*SOFTWARE MESH TERM QUERY ISSUE


"Software"[MeSH Major Topic]=26383 (denoted as "*"
in MEDLINE record MH field)


"Software"[MAJR] NOT "Software Design"[MH] =
24670


"Software"[MAJR] NOT "Software Design"[MH] NOT
"Software Validation"[MH] NOT "Speech Recognition
Software"[MH] =
24124


"Software"[MAJR] NOT "Software Design"[MH] NOT
"Software Validation"[MH] NOT "Speech Recognition
Software"[MH] AND Software[TIAB] = 6220

COMMON QUESTION

What software/database is there for my topic of
interest?

EXERCISE


Search the literature for Databases
and Software tools related to SNP
(single nucleotide polymorphism
)


NOW USING MESH TERMS



How many hits?, databases? tools?


Make a brief summary



Note:

Of course, I
don't know the answer

EXERCISE


Search the literature for papers from an
author named "Chen X"


summarise



… Then, those published only on the
Proteins
Journal


summarise


EXERCISE


Search the literature for ALL
Databases and Software tools




Note: I don't know the answer neither