User:Z3305561

From CellBiology

Lab Attendance

--z3305561 10:42, 10 March 2011 (EST)

--z3305561 09:04, 17 March 2011 (EST)

--z3305561 09:12, 24 March 2011 (EST)

--Navneet Ahuja 09:11, 31 March 2011 (EST)

--Navneet Ahuja 09:11, 7 April 2011 (EST)

--Navneet Ahuja 09:05, 14 April 2011 (EST)

--Navneet Ahuja 09:08, 5 May 2011 (EST)

--Navneet Ahuja 09:40, 12 May 2011 (EST)

--Navneet Ahuja 09:19, 19 May 2011 (EST)

--Navneet Ahuja 09:30, 26 May 2011 (EST)

--Navneet Ahuja 09:15, 2 June 2011 (EST)

Individual Assessment

Lab 1

Q1 What are the key cell biology journals ?

1. The journal of cell biology

2. Nature cell biology

3.Cell

4.Trends in cell biology

5.Public Library of Science


Q2 which journal allow reuse of their published content ?

1.Public Library of Science (PLOS)

2.The Journal of Cell Biology

3.BMC Cell bilogy

Lab 2

Q1)Which chromosomes contribute to the nucleolus?

Nucleolus is the site for ribosomal (rRNA) gene transcription, processing, and ribosome assembly . There are five different chromosomes 13, 14, 15, 21, 22 which contribute to the nucleolus.

Q2)Identify and add a link to your page of a recent cell biology article using confocal microscopy.

Automated Assessment of Keratocyte Density in Stromal Images from the ConfoScan 4 Confocal Microscope

Work area

Lab1

Here is some bold text

Here is some italic text

Introduction to Lab1 = Internal link

Journal of cell bilogy = external link

Lab2

http://www.ncbi.nlm.nih.gov/pubmed/

Pubmed


Topics for group work

1) cell cycle

2)Cytoskeleton and transportation

3)stem cell research

4)Nucleus

5) Cell membrane

LAB 3

1. Find the SDS information for chloroform and identify the hazards associated with this chemical.

According to the SDS the commonly known chloroform is also known as Trichloromethane.

This substance had a A Chemical Abstract Service Registry Number (CAS Number: 67-66-3).

The United Nations Number (UN number)is 1888.

The classification of chloroform is

Xn; R22-48/20/22 Xi; R38 Carc. Cat. 3; R40


The abbreviated description:

Xn : Harmful

R22-48/20/22 are risk phases associated with chloroform.

R22 is Harmful if swallowed.

R23 Toxic by inhalation.

R24 Toxic in contact with skin.

R25 Toxic if swallowed.

R48/20/22 Harmful: danger of serious damage to health by prolonged exposure through inhalation and if swallowed.

For further information Risk and Safety Phrases

Furthermore, chloroform is also classified as a carcinogen and Absorption through the skin may be a significant source of exposure.


2. You will need to upload an image and add it to your page, with the reference and copyright information with the image. 

Chick lung development.jpg [1]

Lab 4

1. Identify a commercial supplier of an antibody that relates to your group project topic. The supplier is ABCAM - Abcam link

The antibody that relates to synaptic junction is called PSD95 antibody which is a marker for synapse.

For further information on this antibody Antibody

2. In mitochondria, where is the gene located that encode Cytochrome C and what keeps this protein trapped within the mitochondria? (Hint - Watch Part 2: Factors Involved in the Intrinsic Pathway of Apoptosis

The gene that encode cytochrome C is a nuclear gene located in the nucleus of the cell .

The cytochrome C is a well studied protein which is a part of the electron transport chain in the mitochondria. It is exclusively localized in the mitochondria the electron transport chain occurs in the INNER MEMBRANE of the mitochondria . The cytochrome C is the only water soluble component of electron transport chain and is trap inside the mitochondria by outer membrane of mitochondria .


Lab 5

Phenotype.JPG

The table showed the differences between group A and group B among various Types of phenotypes. It can be clearly seen from the graph that phenotype D in group A was significantly higher than group B . Moreover phenotype D E and F represents higher amount of cell in group A proving the hypothesis.

In group A = Tm4

In group B = control

==LAB 6 Questions ==

-What are the changes in the phenotypes that you observe between group A and group B in graph

As it can be clearly seen from the graph that our group A which contains (Tm4) achieved higher percentage in phenotype D E and F . Where as group B (the control) had more percentages in phenotype A B and C. However, the result might have been and experimental error due to the similar morphology of different types of cells hence not proving the research theory.

-What are the changes in the phenotype you observed between group A and Group B in the pictures

The major changes that can be observed are the number of cells . It can be clearly seen that group A had much more number of cells. Furthermore, group A also has more branches and closely touching each other. Where as group B had fewer cells that do not branch and touch each other. Another characteristic observed is the stained in A was much more brighter than in B group.

-How does Tm4 mediate these changes

Tropomyosin was known to have an impact on regulating the muscle contraction and involved with myosin-actin binding procedures. However TM4 is highly involved in branching of the neonates cell .

Lab 9

1. Identify from one of the cell line repositories: a neural cell line and a muscle cell line.

neural cell line 1

Cortical Neuron HCN-1A (CRL-10442) DMEM (30-2002) Fetal Bovine Serum (30-2020)


Mouse Cerebral Cortex - Neuron Culture Kit 09070203 Neuron Culture Kit - Mouse Cerebral Cortex

Rat Cerebral Cortex - Neuron Culture Kit 09070202 Neuron Culture Kit - Rat Cerebral Cortex

Rat Hippocampus - Neuron Culture Kit 09070204 Neuron Culture Kit - Rat Hippocampus

Mouse Hippocampus - Neuron Culture Kit 09070205 Neuron Culture Kit - Mouse Hippocampus

Further information

Neural cell line 2 further information Neural cell line

ATCC® Number: HTB-11™ Price: $279.00Designations: SK-N-SH

Depositors: G Trempe, LJ Old

Biosafety Level: 1

Shipped: frozen

Medium & Serum: See Propagation

Growth Properties: adherent

Organism: Homo sapiens (human)

Morphology: epithelial

Source: Organ: brain

Disease: neuroblastoma

Derived from metastatic site: bone marrow

Cellular Products: plasminogen activator

shows increased expression of M-CSF after treatment with amyloid-beta peptide


Muscle cell line CLICK ON THIS LINK for further information

ATCC® Number: CRL-1458™ Price: $279.00

Designations: L6

Depositors: D Schubert

Biosafety Level: 1

Shipped: frozen

Medium & Serum: See Propagation

Growth Properties: adherent

Organism: Rattus norvegicus (rat)

Morphology: myoblast

Source: Tissue: skeletal muscle

Cell Type: myoblast myoblast;

Cellular Products: myosin


2. Identify the species and growth conditions for these cell lines.

The neural cell line example :- Indept information

also they grow in TCC® Number: Description: Dulbecco's Modified Eagle's Medium (DMEM)and Fetal Bovine Serum (30-2020)

Primary Cells: Mouse Cerebral Cortex - Neuron Culture Kit

Catalogue No.: 09070203

Cell Line Name: Mouse Cerebral Cortex - Neuron Culture Kit

Keyword Description: Neuron Culture Kit - Mouse Cerebral Cortex

Species: Mouse

Tissue: Cerebral Cortex, Brain

Cell Line Description: This Neuron Culture Kit provides a quick and easy solution to the generation of high quality neuronal cultures removing the troublesome process of animal dissection.

Each Neuron Culture Kit is supplied frozen and consists of:

Nerve tissue (1 vial containing 2 cerebral cortices)

Dispersion solution (2.5ml)

Isolation solution (2.5ml)

Enzyme solution (2.5ml)

Washing Solution (10ml)

Neuronal culture medium (30ml)

Storage Conditions:

Nerve Tissue vial store in vapour phase liquid nitrogen (<-135oC)

Solutions & Cutlure Medium store at -70oC prior to use.

Depositor: DS Pharma Biomedical

Originator: DS Pharma Biomedical

Country: Japan Neural cell line growth 2

Cytogenetic Analysis: The cell line is hyperdiploid human female (XX), with the modal chromosome number of 47. Normal chromosomes N9 and N22 are single. One copy of each of these chromosomes is structurally altered to form the two marker chromosomes 9q+ and 22q+., Chromosomes N7 is trisomic. Extra bands were found on one copy of chromosome N7, thereby forming a marker chromosome as described by R.C. Seeger. May have been translocated in part(s) to the q arms of chromosomes N9 and N22.

Propagation: ATCC complete growth medium: The base medium for this cell line is ATCC-formulated Eagle's Minimum Essential Medium, Catalog No. 30-2003. To make the complete growth medium, add the following components to the base medium: fetal bovine serum to a final concentration of 10%.

Temperature: 37.0°C

Subculturing: Subcultivation Ratio: A subcultivation ratio of 1:3 to 1:8 is recommended

Medium Renewal: 1 to 2 times per week

Remove medium, and rinse with 0.25% trypsin, 0.03% EDTA solution. Remove the solution and add an additional 1 to 2 ml of trypsin-EDTA solution. Allow the flask to sit at room temperature (or at 37C) until the cells detach. Add fresh culture medium, aspirate and dispense into new culture flasks.

Preservation: Culture medium, 95%; DMSO, 5%

Muscle growth condition

they grow in DMEM (30-2002) and Fetal Bovine Serum (30-2020)

Propagation: ATCC complete growth medium: The base medium for this cell line is ATCC-formulated Dulbecco's Modified Eagle's Medium, Catalog No. 30-2002. To make the complete growth medium, add the following components to the base medium: fetal bovine serum to a final concentration of 10%.

Atmosphere: air, 95%; carbon dioxide (CO2), 5%

Temperature: 37.0°C

Growth Conditions: The myoblastic component of this line will be depleted rapidly if the cells are allowed to become confluent.

Subculturing: Protocol: Subculture before the cells become confluent to retard the loss of differentiating ability that is observed as the cells are passaged.

1. Remove and discard culture medium.

2. Briefly rinse the cell layer with 0.25% (w/v) Trypsin- 0.53 mM EDTA solution to remove all traces of serum that contains trypsin inhibitor.

3. Add 2.0 to 3.0 ml of Trypsin-EDTA solution to flask and observe cells under an inverted microscope until cell layer is dispersed (usually within 5 to 15 minutes).

Note: To avoid clumping do not agitate the cells by hitting or shaking the flask while waiting for the cells to detach. Cells that are difficult to detach may be placed at 37°C to facilitate dispersal.

4. Add 6.0 to 8.0 ml of complete growth medium and aspirate cells by gently pipetting.

5. Add appropriate aliquots of the cell suspension to new culture vessels.

6. Incubate cultures at 37°C.

Subcultivation Ratio: A subcultivation ratio of 1:20 to 1:40 is recommended

Medium Renewal: 2 to 3 times per week

Preservation: Freeze medium: Complete growth medium supplemented with 5% (v/v) DMSO

Storage temperature: liquid nitrogen vapor phase

Further information on muscle cell line visit the MUSCLE CELL LINE


LAB 10

2 upcoming question

Lab 11

peer assessment

Gap junction- group 2 I really like the balance between pictures and texts , obviously the photos compensate each section beautifully. Even before reading the project page , the history section is way too long. In the function of the gap junction the hand-drawn image by student was oustanding . The table is beautifully done however, the text should be in bullet points for easier understanding (with more colors on the table). The examples of diseases given were broad and apporiapriate. The use of pictures in each disease subheadings was very appropriate. The glossary , in comparision to the page are relatively small . The references needs to be fixed up for all the pubmed links. Hundreds references used represented the indept research that had been carried out . Good job guys :)

Group3 – Tight junctions

  • The introduction was clear and very informative .
  • History section was too detailed – should break in down into dot points and with lesser text
  • the molecular sections are beautifully represented however, there are some sections with missing photos
  • Classification of epithelia needs to be cut down into points or bolded text
  • The diesease section was very well presented into table may be try summarising the idea

Overall the project looked awesome :)

Group 4- Desmosome

  • Ur history section was the best so far. Nice job guys .. very easy to understand
  • The content are very simplied – very easy to read
  • more pictures are needed in the page for grabbing attention
  • A glossary list would make it easier to understand
  • The references needs to be fixed up
  • futher findings on current research

Overall – The content was very easy to digest and I personally liked the page :)

Group5- Adheren junction

  • The first thing that i spot is very less history section
  • The hand-drawn photo were outstanding
  • Although the content are broken down into paragraph the function section had no photos making it a little bit hard to understand
  • The abnormality section was very well supported with appropriate photos
  • There had been indept reseach under the “current reseach section”

Overall – I think your group did a great job pulling this page out with little minor touch it will be perfect :)

Group6- neuromuscular junction

  • your project page in general is way over the top perfect
  • everything is broken down into bullets making it so easy to digest
  • the youtube video linked just took the page to a whole different level
  • The huge hand-drawn image was very professionally done (gorgeous)
  • The important strutural component table was very beautiful to read with a picture side by side
  • The light and electron miscopy images are very apporpriate with the content
  • The disorder section are just very indept – very professional

Overall i don’t know what to mark down on this project page since everything seemed perfect to me :)


References

  1. Rute S Moura, José P Coutinho-Borges, Ana P Pacheco, Paulo O Damota, Jorge Correia-Pinto FGF signaling pathway in the developing chick lung: expression and inhibition studies. PLoS ONE: 2011, 6(3);e17660 PubMed 21412430