Verbal 899km by Bibi Alandaleeb

  • A journey of a thousand proteins begins with an AUG
  • Actions speak loader than words and amino acids speaks loader than their codons
  • Every Romeo has his Juliet and Every Purine has its Pyrimidine
  • عصفور في اليد ولا عشرة على الشجرة (A gene expressed is better than ten untranscribed)
    • درهم (proofreading) خير من قنطار (DNA repair)

بيبي العندليب

Summer 2016 verbal stories

  • إن غاب القطو العب يا فار، وإن غاب اللاكتوز العب يا (Lac repressor)
  • مد الرجول على قد اللحاف، ومد البروتين على قد ال (mRNA)
    منال صباح
  • لو كنتو نسيتوا ايه الي جرى، هاتوا تقارير ال (DNA) تنقرا
  • يا واخد القرد على ماله، يروح المال ويبقى ال (DNA) على حاله
    شروق نبيل
  • زهب الدوا قبل الفلعه، وزهب ال (Initiation complex) قبل ال (Transcription)
  • من جاء من دون عزيمة قعد بدون فراش، ومن جاء بدون (Ribosome) قعد بدون (Translation)
    زهراء المؤمن
  • بعض الطلبة عندنا قدوتهم مندل، تخصصهم بالعلوم ومساندهم شريعة
  • الموتيف بال (Operator) صاير مثل مسمار جحا حق (Repressor)
    عبدالله الغريب
  • انفخ يا (DNA Polymerase) قال ما من (Template)
    نوره البراك

 

  • When you get married, don’t CUT that ONE ring of your finger
  • Dr. CATGCC should UAA giving us examples of food during his lectures especially during AGGGCCATGGCAGACGCTAAT
    Othman Saleh
  • It is really interesting that translation of the genetic code always starts in AUG (August)
    Saleh Alfaraj

EHARB Spring 2016

This semester we will have a paper (or two) every week and we will meet on Mondays 12-1 pm in my lab 2kh (103).  All are welcome to come.  If you have papers you want us to discuss, please send me an email and I will be more than happy to include it in the list.

 

8/2/2016
The past, present and future of genomic scans for selection.  by Jensen et al.
15/2/2016
22/2/2016
29/2/2016
Signatures of positive selection in East African Shorthorn Zebu: A genome-wide single nucleotide polymorphism analysis. by Behbahani et al.
7/3/2016
Scans for positive selection reveal candidate genes and local adaptation of Peromyscus leucopus populations to urbanization. by  
14/3/2016
A Spatial Framework for Understanding Population Structure and Admixture. by Bradburd et al.
21/3/2016
Genetical Genomics of Behavior: A Novel Chicken Genomic Model for Anxiety Behavior. by Johansson et al.
28/3/2016
The sequence of sequencers: The history of sequencing DNA. by James M. Heather and Benjamin Chain
4/4/2016
Beyond Bar and Line Graphs: Time for a New Data Presentation Paradigm. by Weissgeber
11/4/2016
90 Years Ago: The Beginning of Hybrid Maize. by James F. Crow
18/4/2016
25/4/2016
Uner Tan Syndrome: History, Clinical Evaluations, Genetics, and the Dynamics of Human Quadrupedalism. by  Uner Tan
Mutations in the very low-density lipoprotein receptor VLDLR cause cerebellar hypoplasia and quadrupedal locomotion in humans. by Ozcelik et al.
 Papers selected by Ali Alhaid

 

 

The A-maize-ing

We discussed during EHRAB (25/11/15) Wang et. al. 2015 about corn domestication. I learned the effects of a single and simple mutation on a phenotype. A SNP in the tga1 gene changes the phenotype from short, small and capsulated of teosinte to tall, big and naked kernels of maize. The paper and the interesting discussion inspired me to make the little sketch below.

Huda Alaskar, B.Sc. Molecular Biology

image1-1

A friendly list to our best

To earn a degree, beyond your bachelor’s, U.S. graduate schools always state: A student must produce a “significant body of work”.

What does that mean?

Here are our guidelines for what it means to earn a graduate degree under our supervisions. This does not include what KU requires for your course work.  This is what we expect you to master, with our help, before you leave us 🙂

We hope this helps each of us to stay on track.  Please ask yourself these questions as you are trying to graduate.

  1. Your training in graduate school is to prepare you to be a free and independent thinker who is capable of producing knowledge rather than only memorizing facts from books and articles. Are you a free and independent thinker?
  1. Scientific literature comes in many forms nowadays. This includes articles, books, popular science, websites, etc. Do you read relevant scientific literature?
  1. Knowledge, ideas, and thoughts cannot be memorized. Your “significant body of work” comes primarily from the lab. Did you master taking/organizing your lab notes/computer files/literature and all forms of data?
  1. The science you do in the lab is not what your PI asks you to do with a specific deadline. Performing experiments requires learning how to coordinate with others plus how to manage your time and the resources. Can you propose/plan/execute new experiments?
  1. Nothing in the real world of science is like the figures you see in textbooks. The path to “significant body of work” is not a straight line. Have you learned how to trouble shoot and solve technical problems?
  1. Your scientific value comes from the skills you develop and techniques you master. What techniques have you picked up practically? What other techniques have you learned from only listening to your peers?
  1. Data Data Data! Your “significant body of work” needs data to come to life. What data have you generated? Is it high quality, reproducible and valid?
  1. Generating data is relatively an easy task while analyzing the data and producing clear explanation is quite challenging. Do you know how to analyze and present your data and results?
  1. You do not perform experiments in a dusty and dark dungeon. Your experiments should be in accordance with current thinking and findings of your field. Can you integrate your results into the current thinking/literature of the field?
  1. Knowledge becomes knowledge by sharing. You cannot become a scientist or produce “a significant body of work” by hiding your findings. You should develop the skills that enable you to share your science and findings. Have you mastered being able to organize your thoughts cohesively to be able to present them professionally to others (both orally = PowerPoint’s, and written= posters, thesis and papers)?
  1. Communication, communication, communication! You do not have to like an individual to communicate with. Communication in science is not making friends or befriending others. It is your way to the “significant body of work”. Were you respectful, supportive, helpful and able to “get along” and communicate well with ALL of your lab partners, your supervisors and the lovely administration at KU? (That’s a big task!!!)
  1. Seriousness will seriously get you sick. To produce your “significant body of work”, you need to enjoy and have fun doing it. Your graduate school experience is like running a marathon. It will not end within a semester after earning a good grade. For some, like your professors, the marathon will be a life-long pursuit. Did you learn to have fun/appreciate when things were going well, and to stay flexible/determined/resilient when things didn’t go so well?
  1. You will not know everything. You will not know everything even in your field. Being smart at this period of your life is not by knowing everything. It is rather by knowing what you don’t know. You should be comfortable to say, “I do not know”. It is okay not to know things and it should be your drive to know more. Have you said, “I do not know” to yourself? Are you comfortable saying, “I do not know but I will look into it” before an audience?
  1. GREAT 🙂 You did it!!! CONGRATULATIONS.

Now, we have both done our jobs.

Jamillah Zamoon
Assistant Professor of Biochemistry
Hasan Alhaddad
Assistant Professor of Genetics

Your Stories

IMG_2825

Many students have participated in this project indirectly.  In my classes I ask students to write or draw something related to the topics covered and things they see and hear in real life.  I have seen many great stories and art work.  This blog is devoted to share my student’s great stories.  A great bunch of students are in charge of organizing this fun project.  The 899km team is (Afnan Almanaseer, Masumah Khamesi, Ali Al Haid, Huda Askar, Mona Abdi).

EHRAB for Fall 2015

Wednesday 30/9/2015

Genetic Mutation. by Suzanne Clancy 2008
DNA Deletion and Duplication and the Associated Genetic Disorders. by Suzanne Clancy & Kenna M. Shaw, 2008

Wednesday 21/10/2015 (Changed!!!)

History of genetic disease: The molecular genetics of Huntington disease – a history. by Gillian P. Bates 2005
The Molecular and Genetic Basis of Fibroblast Growth Factor Receptor 3 Disorders: The Achondroplasia Family of Skeletal Dysplasias, Muenke Craniosynostosis, and Crouzon Syndrome with Acanthosis Nigricans. by Vajo et. al. 2000

Wednesday 4/11/2015 (Changed!!!)

A Genomic Duplication is Associated with Ectopic Eomesodermin Expression in the Embryonic Chicken Comb and Two Duplex-comb Phenotypes. by Dorshorst et. al. 2015
Convergent Evolution of Head Crests in Two Domesticated Columbids Is Associated with Different Missense Mutations in EphB2. by Vickrey et. al. 2015

Wednesday 11/11/2015

A deletion in the bovine myostatin gene causes the double-muscled phenotype in cattle. by Grobet et. al. 1997
Genome edited sheep and cattle. by Proufoot et. al. 2015

Wednesday 25/11/2015

Plant transposable elements: where genetics meets genomics. by  Feschotte 2002
Evidence That the Origin of Naked Kernels During Maize Domestication Was Caused by a Single Amino Acid Substitution in tga1. by Wang et. al. 2015

Wednesday 9/12/2015

Laws of success.  My friend Ali Alhasan will be our guest and he will give us a personal development lecture and discussion session.  Always helpful to me and I think you will feel the same.

IMG_3356

A year of EHRAB

We had a very successful year reading amazing biology.  Below is a graph  indicating the number of scientific paper we read.  We have started EHRAB by meeting every week and discussing 2 papers in every session.  After few weeks, we have realized that 2 papers are too much due with the academic commitments of the participants (especially students).  We decided to discuss a single paper and proved to be a better choice.

EHRAB2014_2015stats

Many participants suggested papers to be discussed.  The graph above shows the numbers of papers per participant.  I hope to see participants select more paper and become more active in EHRAB.

My graduate student Mona Abdi suggested a gathering to celebrate the first anniversary of EHRAB.  She organized the meeting.  While we enjoyed a cake and coffee (tasty stuff) , we also shared likes and dislikes about EHRAB during 2014-2015.  I was surprised to know how much students learned during the sessions.  The most notable comment was ” we are not afraid of papers anymore”.  That alone is a success for me 🙂

photo 1

Based on suggestions by participants, we have decided to have a theme for EHRAB every semester.  The theme would be a scientific biological concept and papers discussed would be related to the concept.  EHRAB during fall 2015 will be focusing on DNA mutations.  We will be meeting every other week to ensure that everybody had a chance to read the papers and everybody is eager to escape to biology.

EHRAB1516

Introduction to Genomics (485) – Several classes

Fall 2019
Group 1: Popular insects
(Nouf: Argentine Ant, Muneera: BeeHabiba: Butterfly, Baty: Longhorned Beetle, Maryam M: Cockroach)
Presentation: 485_Insects
 
Group 2: Farm birds
(Fajer: Turkey, Maryam: Pigeon1 Pigeon2, Fatima A: Red Junglefowl, Sara: Duck, Shrouq: Ostrich1 Ostrich2)
Presentation: 485_Farmbirds
 
Group 3: Reptiles
(Fatma G: Giant Tortoise, Fatma A: Green Anole Lizard, Zainab: Komodo Dragon, Fatima J: Crocodilian, Hanan: Snake)
Presentation: 485_Reptiles
 
Group 4: Edible fish
(Noor: Salmon, Haneen: Rainbow Trout, Shouq: Tuna, Haya: Sardine, Aisha: Sea bass)
Presentation: 485_EdibleFish
 
Group 5: Exotic mammals
(Hana: Giant PandaShaikha: Koala, Bashayer: Platypus, Amna: Kangaroo, Heba: Giraffe)
Presentation: 485_ExoticMammals

Fall 2015:

Rana (E.coli), Albandary (Arabidopsis), Fahad (Zebrafish), Tasneem (C. elegans), Iman (phage), Fatemah (Corn), Shuroq (Mouse), Maliha (Fly), Sakina (Thermus, thermophilus, Oceanithermus profundus, Deinococcus radiodurans), Randa (Yeast), Ali (Human)