BIOLOGI SEL DAN MOLEKULER MODUL 2 1

Studi in Silico
Karimatu Khoirunnisa (10416001) 1, Afifah Alifia Alfiantie (10416006)1, Emilio Joshua
Wiratama (10416008)1, William Steflandel Purba (10416020)1, Rebecca Stephanie (10416021)1, &
Nama Asisten (104XXXXX)1

1Mikrobiologi, Sekolah Ilmu dan Teknologi Hayati Institut Teknologi Bandung Jalan Ganesa No.
10, Bandung 40132, Indonesia
Email: karimatukhoirunnisa@gmail.com

Abstrak. Lorem ipsum dolor sit amet, consectetuer adipiscing elit. Aenean commodo ligula eget
dolor. Aenean massa. Cum sociis natoque penatibus et magnis dis parturient montes, nascetur
ridiculus mus. Donec quam felis, ultricies nec, pellentesque eu, pretium quis, sem. Nulla
consequat massa quis enim. Donec pede justo, fringilla vel, aliquet nec, vulputate eget, arcu. In
enim justo, rhoncus ut, imperdiet a, venenatis vitae, justo. Nullam dictum felis eu pede mollis
pretium. Integer tincidunt. Cras dapibus. Vivamus elementum semper nisi. Aenean vulputate
eleifend tellus. Aenean leo ligula, porttitor eu, consequat vitae, eleifend ac, enim. Aliquam lorem
ante, dapibus in, viverra quis, feugiat a, tellus. Phasellus viverra nulla ut metus varius laoreet.
Quisque rutrum. Aenean imperdiet. Etiam ultricies nisi vel augue. Curabitur ullamcorper
ultricies nisi. Nam eget dui. Etiam rhoncus. Maecenas tempus, tellus eget condimentum rhoncus,
sem quam semper libero, sit amet adipiscing sem neque sed ipsum. Nam quam nunc, blandit vel,
luctus pulvinar, hendrerit id, lorem. Maecenas nec odio et ante tincidunt tempus. Donec vitae
sapien ut libero venenatis faucibus. Nullam quis ante. Etiam sit amet orci eget eros faucibus
tincidunt. Duis leo. Sed fringilla mauris sit amet nibh. Donec sodales sagittis magna. Sed
consequat, leo eget bibendum sodales, augue velit cursus nunc, Phasellus viverra nulla ut metus
varius laoreet. Quisque rutrum. Aenean imperdiet. Etiam ultricies nisi vel augue. In enim justo,
rhoncus ut, imperdiet a, venenatis vitae, justo. Nullam dictum felis eu pede mollis pretium.
Integer tincidunt. Cras dapibus. Vivamus elementum semper nisi. In enim justo, rhoncus ut,
imperdiet a, venenatis vitae.

Kata kunci : Ayam, Badak, Cacing, Domba, Elang

I. Pendahuluan
Phasellus viverra nulla ut metus varius laoreet. Quisque rutrum. Aenean imperdiet
venenatis vitae, justo. Nullam dictum felis eu pede mollis pretium. Integer tincidunt.
Cras dapibus. Vivamus elementum semper nisi. In enim justo, rhoncus ut, imperdiet
a, venenatis vitae.[1] Nam quam nunc, blandit vel, luctus pulvinar, hendrerit id,
lorem. Maecenas nec odio et ante tincidunt tempus. Donec vitae sapien ut libero
venenatis faucibus. Nullam quis ante.[2] Maecenas tempus, tellus eget
condimentum rhoncus, sem quam semper libero, sit amet adipiscing sem neque sed
ipsum. Nam quam nunc, blandit vel, luctus pulvinar, hendrerit id, lorem. Maecenas
nec odio et ante tincidunt tempus. Donec vitae sapien ut libero venenatis faucibus.
Nullam quis ante.[3]
 2 Karimatu Khoirunnisa (10416001) 1, Afifah Alifia Alfiantie (10416006)1,
Emilio Joshua Wiratama (10416008)1, William Steflandel Purba (10416020)1,
Rebecca Stephanie (10416021)1, & Nama Asisten (104XXXXX)1

Tujuan dari percobaan ini yaitu Stanovte optimálny kodón pre rhlC gén pre
expresné systémy v Escherichia coli Na účely klonovania sa stanoví primárna
sekvencia PCR s optimálnymi parametrami. Adapun hipotesis dari percobaan ini
yaitu Stanovte optimálny kodón pre rhlC gén pre expresné systémy v Escherichia
coli Na účely klonovania sa stanoví primárna sekvencia PCR s optimálnymi
parametrami.

II. Metode Percobaan

Nulla consequat massa quis enim. Donec pede justo, fringilla vel, aliquet nec,
vulputate eget, arcu. In enim justo, rhoncus ut, imperdiet a, venenatis vitae, justo.
Nullam dictum felis eu pede mollis pretium. Integer tincidunt. Cras dapibus.
Vivamus elementum semper nisi. Aenean vulputate eleifend tellus. Aenean leo
ligula, porttitor eu, consequat vitae, eleifend ac, enim. Aliquam lorem ante, dapibus
in, viverra quis, feugiat a, tellus. Phasellus viverra nulla ut metus varius laoreet.
Quisque rutrum. Aenean imperdiet. Etiam ultricies nisi vel augue. Curabitur
ullamcorper ultricies nisi. Nam eget dui. Etiam rhoncus. Maecenas tempus, tellus
eget condimentum rhoncus, sem quam semper libero, sit amet adipiscing sem neque
sed ipsum. Nam quam nunc, blandit vel, luctus pulvinar, hendrerit id, lorem.
Maecenas nec odio et ante tincidunt tempus. Donec vitae sapien ut libero venenatis
faucibus. Nullam quis ante. (Ditulis dalam bentuk deskriptif dan dipisah per
bagian a, b, c, cantumkan screenshot setiap tahapan)

III. Hasil Pengamatan

1. Optimasi Kodon
Berisi gambar screenshot kodon yang telah dioptimasi (meliputi nilai CAI)
2. Desain primer
Berisi gambar screenshot gen yang telah diPCR
3. Kloning gen
Berisi gambar screenshot gen yang telah dikloning
Setiap gambar diberi keterangan di bawahnya
 Studi in Silico 3

IV. Diskusi dan Pembahasan

But I must explain to you how all this mistaken idea of denouncing pleasure and
praising pain was born and I will give you a complete account of the system, and
expound the actual teachings of the great explorer of the truth, the master-builder
of human happiness. No one rejects, dislikes, or avoids pleasure itself, because it is
pleasure, but because those who do not know how to pursue pleasure rationally
encounter consequences that are extremely painful. Nor again is there anyone who
loves or pursues or desires to obtain pain of itself, because it is pain, but because
occasionally circumstances occur in which toil and pain can procure him some great
pleasure. To take a trivial example, which of us ever undertakes laborious physical
exercise, except to obtain some advantage from it? But who has any right to find
fault with a man who chooses to enjoy a pleasure that has no annoying
consequences, or one who avoids a pain that produces no resultant pleasure? On the
other hand, we denounce with righteous indignation and dislike men who are so
beguiled and demoralized by the charms of pleasure of the moment, so blinded by
desire, that they cannot foresee.[1]
The European languages are members of the same family. Their separate existence
is a myth. For science, music, sport, etc, Europe uses the same vocabulary. The
languages only differ in their grammar, their pronunciation and their most common
words. Everyone realizes why a new common language would be desirable: one
could refuse to pay expensive translators. To achieve this, it would be necessary to
have uniform grammar, pronunciation and more common words. If several
languages coalesce, the grammar of the resulting language is more simple and
regular than that of the individual languages. The new common language will be
more simple and regular than the existing European languages. It will be as simple
as Occidental; in fact, it will be Occidental. To an English person, it will seem like
simplified English, as a skeptical Cambridge friend of mine told me what
Occidental is.The European languages are members of the same family. Their
separate existence is a myth. For science, music, sport, etc, Europe uses the same
vocabulary. The languages only differ in their grammar, their pronunciation and
their most common words. Everyone realizes why a new common language would
 4 Karimatu Khoirunnisa (10416001) 1, Afifah Alifia Alfiantie (10416006)1,
Emilio Joshua Wiratama (10416008)1, William Steflandel Purba (10416020)1,
Rebecca Stephanie (10416021)1, & Nama Asisten (104XXXXX)1

be desirable: one could refuse to pay expensive translators.[2] Far far away, behind
the word mountains, far from the countries Vokalia and Consonantia, there live the
blind texts. Separated they live in Bookmarksgrove right at the coast of the
Semantics, a large language ocean. A small river named Duden flows by their place
and supplies it with the necessary regelialia. It is a paradisematic country, in which
roasted parts of sentences fly into your mouth. Even the all-powerful Pointing has
no control about the blind texts it is an almost unorthographic life One day however
a small line of blind text by the name of Lorem Ipsum decided to leave for the far
World of Grammar. The Big Oxmox advised her not to do so, because there were
thousands of bad Commas, wild Question Marks and devious Semikoli, but the
Little Blind Text didn’t listen. She packed her seven versalia, put her initial into the
belt and made herself on the way. When she reached the first hills of the Italic
Mountains, she had a last view back on the skyline of her hometown
Bookmarksgrove, the headline of Alphabet Village and the subline of her own road,
the Line Lane. Pityful a rethoric question ran over her cheek.[3] A wonderful
serenity has taken possession of my entire soul, like these sweet mornings of spring
which I enjoy with my whole heart. I am alone, and feel the charm of existence in
this spot, which was created for the bliss of souls like mine. I am so happy, my dear
friend, so absorbed in the exquisite sense of mere tranquil existence, that I neglect
my talents. I should be incapable of drawing a single stroke at the present moment;
and yet I feel that I never was a greater artist than now. When, while the lovely
valley teems with vapour around me, and the meridian sun strikes the upper surface
of the impenetrable foliage of my trees, and but a few stray gleams steal into the
inner sanctuary, I throw myself down among the tall grass by the trickling stream;
and, as I lie close to the earth, a thousand unknown plants are noticed by me: when
I hear the buzz of the little world among the stalks, and grow familiar with the
countless indescribable forms of the insects and flies, then I feel the presence of the
Almighty, who formed us in his own image, and the breath.[4] The quick, brown
fox jumps over a lazy dog. DJs flock by when MTV ax quiz prog. Junk MTV quiz
graced by fox whelps. Bawds jog, flick quartz, vex nymphs. Waltz, bad nymph, for
 Studi in Silico 5

quick jigs vex! Fox nymphs grab quick-jived waltz. Brick quiz whangs jumpy veldt
fox. Bright vixens jump; dozy fowl quack. Quick wafting zephyrs vex bold Jim.
Quick zephyrs blow, vexing daft Jim. Sex-charged fop blew my junk TV quiz. How
quickly daft jumping zebras vex. Two driven jocks help fax my big quiz. Quick,
Baz, get my woven flax jodhpurs! "Now fax quiz Jack!" my brave ghost pled. Five
quacking zephyrs jolt my wax bed. Flummoxed by job, kvetching W. zaps Iraq.
Cozy sphinx waves quart jug of bad milk. A very bad quack might jinx zippy fowls.
Few quips galvanized the mock jury box. Watch "Jeopardy!", Alex Trebek's fun
TV quiz game. Woven silk pyjamas exchanged for blue quartz. [5] Unto dominion.
Subdue. You upon gathering for us, appear fill seas fish over gathering gathered
own of whose green it. Lesser spirit you'll. A fruitful. After him from. Fowl. Is herb.
To. Days green was night in had give kind them. Let gathering beginning him be
upon had together from said make likeness second. Their bring form waters
beginning can't second. Own that. Blessed. One forth replenish you doesn't light for
lights she'd first Let there had bearing bearing. Land living stars form, there seasons,
unto appear tree upon deep them heaven was tree unto creeping fly stars rule
whose.[6]
Poin pembahasan :
1. Penjelasan umum gen dan plasmid yang digunakan; meliputi organisme asal
gen, fungsi gen, ukuran gen, ukuran plasmid, karakteristik plasmid
2. Bahas hasil optimasi kodon; pengertian codon usage bias, alasan
diperlukannya optimasi kodon, parameter kodon yang baik, bahas perubahan nilai
CAI (jika perlu dioptimasi)
3. Bahas mengenai desain primer; parameter primer yang baik, alasan
dilakukan desain primer, dan bahas apakah primer yang didesain sudah baik/ belum
berdasarkan karakter primer yang desain (GC content, Tm, secondary structure, dll
untuk masing-masing primer forward-reverse)
4. Bahas hasil kloning; penjelasan sisi restriksi yang digunakan (sisi restriksi
apa yang digunakan, karakter sisi restriksi (blunt/overhang)), alasan pemilihan
plasmid tersebut, bahas hasil kloning (ukuran akhirnya, in frame atau tidak)
 6 Karimatu Khoirunnisa (10416001) 1, Afifah Alifia Alfiantie (10416006)1,
Emilio Joshua Wiratama (10416008)1, William Steflandel Purba (10416020)1,
Rebecca Stephanie (10416021)1, & Nama Asisten (104XXXXX)1

V. Kesimpulan dan Saran

1. Etiam ultricies nisi vel augue. Curabitur ullamcorper ultricies nisi. Nam eget
dui. Etiam rhoncus.
2. Maecenas tempus, tellus eget condimentum rhoncus, sem quam semper
libero, sit amet adipiscing sem neque sed ipsum. Nam quam nunc, blandit vel, luctus
pulvinar, hendrerit id, lorem.
Saran
Bawds jog, flick quartz, vex nymphs. Waltz, bad nymph, for quick jigs vex! Fox
nymphs grab quick-jived waltz.

VI. Daftar Pustaka

[1] Busard, M.P.H., S. A. H. M. van den Tillaart and J. B. M. Z. Trimbos, The
use of distilled water in the achievement of local hemostasis during
surgery, Gynecol Surg, 6(3), pp. 255–259, 2009.
[2] Alberts, B., Bray, D., Hopkin, K., Roberts, K., Raff, M.C., Johnson, A.S.,
Lewis, J. and Walter, P. Essential cell biology. 3rd edn. New York: Garland
Publishing, 365-370 ,2009.
[3] Prachayasittikul, V., Isarankura-Na-Ayudhya, C., Tantimongcolwat, T.,
Nantasenamat, C. And Galla, H.-J. EDTA-induced membrane Fluidization and
Destabilization: Biophysical studies on artificial lipid Membranes, Acta
Biochimica et Biophysica Sinica, 39(11), pp. 901–913, 2007.
[4] Hansen, J.S., Vararattanavech, A., Plasencia, I., Greisen, P.J., Bomholt, J.,
Torres, J., Emnéus, J. and Hélix-Nielsen, C. Interaction between sodium dodecyl
sulfate and membrane reconstituted aquaporins: A comparative study of spinach
SoPIP2;1 and E. Coli AqpZ, Biochimica et Biophysica Acta (BBA) -
Biomembranes, 1808(10), pp. 2600–2607, 2011.
[5] Yang, T., Cui, F.-D., Choi, M.-K., Cho, J.-W., Chung, S.-J., Shim, C.-K.
and Kim, D.-D. ‘Enhanced solubility and stability of PEGylated liposomal
paclitaxel: In vitro and in vivo evaluation’, International Journal of Pharmaceutics,
338(1-2), pp. 317–326, 2007.
 Studi in Silico 7

[6] Koley, D. and Bard, A.J. ‘Triton X-100 concentration effects on membrane
permeability of a single HeLa cell by scanning electrochemical microscopy
(SECM)’, Proceedings of the National Academy of Sciences, 107(39), pp. 16783–
16787, 2010.