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Sunday, 23 December 2012

Introduction to SMILES

Assalamualaikum friends. Today we learn of a new topic called SMILES. SMILES stands for simplified molecular input line entry specification. SMILES is used for unambiguously describing the structure of chemical molecules using short ASCII strings. It is widely used and computationally efficient. SMILES uses atomic symbols and a set of intuitive rules and it also uses hydrogen-suppressed molecular graphs (HSMG) to display it. There are two types of Canonical SMILES and Isomeric SMILES. Below are a few examples of SMILES notation:

Ethene	C=C
Trichloroethene,	ClC(Cl)=CCl
Chloroethene	ClC=C
cis-1,2-Dichloroethane	ClC=CCl

The picture below depicts the actual usage of SMILES notation in real chemistry:

If you intend to know more about SMILES notation,you can refer to this link: http://www.w3schools.com/

Sunday, 7 October 2012

XML

Assalamualaikum wbt. Today, we would like to share with you a new topic we learnt that is about XML. XML stands for Extensible Markup Language which has been designed simply to make the usage of Internet much more easier. Simplicity, generality and usability are what emphasized by the usage of XML. XML is widely used in the representation of arbitrary data structures as we can find in web services. However, we have to strictly understand that XML is not a replacement of HTML. XML has been designed more specifically to carry data then to display it. XML is however as important as HTML to the foundation of Web as it is the most common tool for data transmissions between all sorts of applications. Below we are going to provide you with the XML syntax and tables as well as some links for your own research and understanding:

<?xml version="1.0" encoding="ISO-8859-1"?>
<note>
<to>Tove</to>
<from>Jani</from>
<heading>Reminder</heading>
<body>Don't forget me this weekend!</body>
</note>

The differences between XML and HTML :

HTML	XML
About displaying information	About carrying information
No need to have Closing Tag	All elements Must Have a Closing Tag
Tags are not case sensitive	Tags are case sensitive

If you want to know further,you may refer to this link : http://www.w3schools.com/xml/xml_whatis.asp

Saturday, 6 October 2012

Introduction to HTML

Assalamualaikum wbt. Today we learned something new and even more challenging in our computer class. The topics revolve around the usage of HTML. HTML stands for Hypertext Markup Language and it is used to display information in web browser in the form of webpage and many more. To be more specific, we can say that HTML is the building block of all websites. Web browser functions to read the HTML documents and translate them into visible and readable text of a webpage. Several important things to be noted when using HTML is, a slight mistake in typing the HTML syntax may result in clear visible error while viewing the webpage. Therefore, typing HTML syntax requires precise and meticulous attention and one doesn’t simple write whatever he wants and the webpage will as good as he might expect. Headings, body, and paragraphs have to be aligned carefully to ensure correct display of data on the webpage. Not only we learn about a completely new topic, but we were also able to be more precise and meticulous in typing. Here we display some of our “precision” in HTML syntax typing:

<html>

<body>

<h4>Sport Cars:</h4>

<li>Ferari</li>

<li>Lamborghini</li>

<li>Masseratti</li>

</ul>

<h4>Classic Cars:</h4>

<li>Alfa Romeo Montreal</li>

<li>Audi 100 Avant</li>

<li>Austin Seven</li>

<li>Bentley R-Type</li>

</ol>

<h4>Elegance Cars:</h4>

<ul>

<li>Mercedez Benz</li>

<li>BMW

<ul>

<li>BMW 5-Series</li>

</ul>

</li>

<li>Mini Cooper</li>

</ul>

</body>

</html>

Here we provide the link for our webpage:

file:///F:/cars.html

Below is the example of the syntax of an HTML table:

<html>

<body>

<tr>

<td>Colours</td>

</tr>

<tr>

</tr>

<tr>

<td>Silver</td>

</tr>

<tr>

<td>Lamborghini</td>

<td>Black</td>

<tr>

<td>Alfa Romeo</td>

<td>Orange</td>

</tr>

<tr>

<td>Mercedez Benz</td>

<td>White</td>

</tr>

</table>

</body>

</html>

Here is the link:

file:///F:/table.html

Here we provide you with a picture of a cute professor teaching HTML:

We also provide tutorial video on HTML to give you a clearer understanding on HTML:

If there is still any confusion lingering in your minds,then feel free to visit this webpage. The link to the webpage is provided below:

http://www.w3schools.com/

Here is example of table :

Items	Price(RM)
Shoe	20
Trouser	50
T-shirt	25.50

Wednesday, 26 September 2012

What Is Protein Data Bank (PDB) and Rasmol?

Today,we learn another new program called the Protein Data Bank (PDB). PDB is a program developed to provide the users vast varieties of information specifically in the studies of structural biology. Biologists and biochemist all around the world after thorough research using X-ray crystallography or NMR spectroscopy submit the obtained structure of biological molecules to the site so that other researchers around the globe can get access to it. PDB is extremely important in the development of the studies of structural biology such as structural genomics. To provide easier interface for the users to study about the structures,a program called the Rasmol is also developed. This program provides the users the function to display the structure in the computer and to edit it according to what they want. With the development of this program,the learning of the structure becomes more handy as we can edit even the colour and shape of the structure according to what we believe suit best for our own understanding. Here,we provide you with some simple structures that we have extracted and edited using the Rasmol.

Types of Protein	Numbers of Structure
Trypsin	989
Htr A	24
Lex A	2
Clp P	85
Clp B	83

Trypsin

Htr A

Lex A

Clp P

Clp B

Here is the video for PDB :

If you want to know more about Protein Data Bank (PDB), you can refer to this link:
http://www.rcsb.org/pdb/home/home.do

Wednesday, 19 September 2012

Introduction to Chemsketch

Today we learned about a software called the Chemsketch. Chemsketch is a program developed by Advanced Chemistry Development,Inc (ACD) mainly and specifically to draw chemical structures and models. Chemsketch is very handy in terms of usage and practically easy when it comes to drawing even the most complex chemical structure. In today's class,we drew a few chemical structures which are highly associated to our Biotechnology course. Since we are new learners,it takes time to be a "master" of this software,but however,after frequent try and error,our understanding of the usage of Chemsketch became better and we managed to splash the knowledge into some drawings. Here we provide you with some of our masterpieces.

Here is the some numbers of carbon :

Name	Numbers of Carbon
Methane	1
Ethane	2
Propane	3
Butane	4
Pentane	5

GRAPH DRAWING

ORBITAL DRAWINGS

PICTURE OF LIPIDS

POLYLINE WRITING

Here is the video for chemsketch:

If you want to learn more abaout chemsketch,you can refer to this site : http://www.acdlabs.com/download/

Tuesday, 11 September 2012

oUr FiRsT DaY in IIUM Kuantan..

Assalamu'alaikum.After almost 3 months of spending the holidays at home, this is the happiest moment of my day and my family. I've got the offer letter for further study in UIA. No words can reflect this excitement. Thanks to Alllah, I was offered a biotechnology degree courses. I and family have departed from Kedah to Kuantan 2 days before the day of registration. It is a very long journey and it takes about 10 hours. We had to stop at relative house to rest. On 4 September 2012 I have finished my registeration in IIUM Kuantan. After completing the registration, I live in Mahalah Tabari. My hostel is located outside the campus. It is very far from campus. Luckily the IIUM provide bus transportation to the campus. In the afternoon, I need to go to the main hall because there Taaruf program. The program runs for three days from morning till late at night. Tentative program is very compact cause we feel very tired. I happy get to know the seniors and all Dean at IIUM. On the last day Taaruf program, I was determined to study hard to achieve my dreams and mardhotillah.Below are the subject that we take for this semester.Hopefully,I could pass it with flying colour.insyaALLAH.(^_^)

COURSE	SECTION
PRINCIPLE & PRACTICE OF MANAGEMENT	1
ISLAMIC WORLDVIEW	1
COMPUTER IN SCIENCE	3
ORGANIC CHEMISTRY	1
INTRODUCTION TO MICROBIOLOGY	1

[This is my mahallah tabari]

[IIUM KUANTAN campus]

[IIUM mosque]

Here is the video for IIUM song:

Any enquiries,you may refer to this link : http://www.iium.edu.my/