Materials+&+Methods

Materials & Methods
A human genetic disease was identified. After some literature research, the disease causing gene was identified to be ATP7B. That causes mutation in the protein ATPase. Disease: Wilson’s Disease Gene: ATP7B Protein: ATPase

Bioinformatic Tools Used
> Retrieved from: [] Date of retrieval: 10/2017 > Retrieved from: [] Date of Retrieval: 10/2017 > Retrieved from: [] Date of Retrieval: 10/2017 > Retrieved from: [] Date of Retrieval: 10/2017
 * 1) **NCBI **: Used to identify the disease causing gene.
 * 1) **BLAST **: Used to compare the amino acid sequences and nucleotide sequences from the DNA of different species.
 * 1) **MEGA **<span style="font-family: &#39;Times New Roman&#39;,serif; font-size: 12pt;">: Used to align the nucleotide sequences as well as the amino acid sequences of the various species. It was also used to make the phylogenetic trees using the aligned sequences that helped in identifying the relationships between different species.
 * 1) **<span style="font-family: &#39;Times New Roman&#39;,serif; font-size: 12pt;">STRING **<span style="font-family: &#39;Times New Roman&#39;,serif; font-size: 12pt;">: Used to study the structure of protein ATPase.

<span style="font-family: Times New Roman,Times,serif; font-size: 120%;">Gene and Protein Used
<span style="color: windowtext; font-family: &#39;Times New Roman&#39;,serif;">Pan paniscus || <span style="font-family: &#39;Times New Roman&#39;,serif; font-size: 10pt;">XM_016925303.1 <span style="font-family: &#39;Times New Roman&#39;,serif; font-size: 10pt;">XM_003809792.3 || <span style="font-family: &#39;Times New Roman&#39;,serif; font-size: 10pt;">XP_016780793.1 <span style="font-family: &#39;Times New Roman&#39;,serif; font-size: 10pt;">XP_003809840.1 ||
 * ===<span style="font-family: Times New Roman,Times,serif;">Organisms === || ===<span style="font-family: Times New Roman,Times,serif;">Gene Accession Numbers === || ===<span style="font-family: Times New Roman,Times,serif;">Protein Accession Numbers === ||
 * <span style="color: windowtext; font-family: &#39;Times New Roman&#39;,serif;">Human || <span style="font-family: &#39;Times New Roman&#39;,serif; font-size: 10pt;">NM_000053.3 || <span style="font-family: &#39;Times New Roman&#39;,serif; font-size: 10pt;">AAB52902 ||
 * <span style="color: windowtext; font-family: &#39;Times New Roman&#39;,serif;">Gorilla || <span style="font-family: &#39;Times New Roman&#39;,serif; font-size: 10pt;">XM_004054539.2 || <span style="font-family: &#39;Times New Roman&#39;,serif; font-size: 10pt;">XP_004054587.1 ||
 * <span style="color: windowtext; font-family: &#39;Times New Roman&#39;,serif;">Colobus || <span style="font-family: &#39;Times New Roman&#39;,serif; font-size: 10pt;">XM_011938932.1 || <span style="font-family: &#39;Times New Roman&#39;,serif; font-size: 10pt;">XP_011794322.1 ||
 * <span style="color: windowtext; font-family: &#39;Times New Roman&#39;,serif;">Rhino || <span style="font-family: &#39;Times New Roman&#39;,serif; font-size: 10pt;">XM_010352920.1 || <span style="font-family: &#39;Times New Roman&#39;,serif; font-size: 10pt;">XP_017713761.1 ||
 * <span style="color: windowtext; font-family: &#39;Times New Roman&#39;,serif;">Macaca. M || <span style="font-family: &#39;Times New Roman&#39;,serif; font-size: 10pt;">XM_015121114.1 || <span style="font-family: &#39;Times New Roman&#39;,serif; font-size: 10pt;">XP_014976599.1 ||
 * <span style="color: windowtext; font-family: &#39;Times New Roman&#39;,serif;">Macaca. N || <span style="font-family: &#39;Times New Roman&#39;,serif; font-size: 10pt;">XM_011756656.1 || <span style="font-family: &#39;Times New Roman&#39;,serif; font-size: 10pt;">XP_011754956.1 ||
 * <span style="color: windowtext; font-family: &#39;Times New Roman&#39;,serif;">Papio Anubis || <span style="font-family: &#39;Times New Roman&#39;,serif; font-size: 10pt;">XM_017951263.2 || <span style="font-family: &#39;Times New Roman&#39;,serif; font-size: 10pt;">XP_021785341.1 ||
 * <span style="color: windowtext; font-family: &#39;Times New Roman&#39;,serif;">Pan.troglodyte

<span style="font-family: Times New Roman,Times,serif; font-size: 120%;">BLAST Parameters
<span style="font-family: Times New Roman,Times,serif; font-size: 120%;">BLAST nucleotide Parameters <span style="font-family: Times New Roman,Times,serif; font-size: 120%;">

<span style="font-family: Times New Roman,Times,serif; font-size: 120%;">BLAST Protein Parameters <span style="font-family: Times New Roman,Times,serif; font-size: 120%;">

<span style="font-family: Times New Roman,Times,serif; font-size: 120%;">MEGA Parameters
<span style="font-family: Times New Roman,Times,serif;"> Gene and protein sequences were aligned using the following parameters.

<span style="font-family: Times New Roman,Times,serif;">Gene Tree Parameters
These parameters were used to generate Gene Maximum likelihood tree, Neighbor joining tree, UPGMA tree, and Gene Parsimony tree.

Protein Tree Parameters
<span style="font-family: Times New Roman,Times,serif;">These parameters were used to generate: Protein Maximum likelihood tree, Neighbor joining tree, UPGMA tree, and Protein Parsimony tree.

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