Sandbox: Difference between revisions

From OpenWetWare
Jump to navigationJump to search
No edit summary
No edit summary
(58 intermediate revisions by 23 users not shown)
Line 1: Line 1:
[[Image:sackshot.jpg|thumb|right]]
__TOC__
Jon Sack, Ph.D.


==Research interests==
'''EmbryoName HK023- chicken embryo- Stage 19.5 - 8.12.14'''
Electrical signaling in living cells controls a wide variety of arguably important physiological processes such as feeling, thinking, and heartbeat. Electrophysiological signals are created by proteins known as ion channels, and modulating the behavior of ion channels will alter the processes they control.  The goal of my research program is to develop modulators selective for ion channel subtypes, to more precisely alter electrophysiological signals and identify channel subunits that generate native currents.  Establishing the molecular identity of voltage-gated potassium (Kv) channels has been a particularly challenging problem: mammalian channels arise from a family of more than 40 genes, and pore-forming subunits can assemble as heterotetramers. Despite substantial and enduring efforts, few modulators of Kv channel activity have been discovered that are highly selective between  channel subtypes. This is perhaps due to a high degree of sequence conservation between subfamily members in functionally important transmembrane segments. Our research efforts seek to enhance the selectivity of channel modulators by covalent attachment to benign, yet well-targeted, biologics.


==Education==
<!--Include info about your educational background-->
* Ph.D., Stanford University, Department of Biological Sciences
* B.A., Reed College, Biochemistry


==Institutional Affiliation==
==Experiment==


Assistant Professor
'''Objective'''
Dyes of different colours on Trigeminal (DiO) vs 7/8th nerve complex (DiI) to see interactions between efferents of one nerve and afferents of other. Also to practice the injection on a younger chicken (slowly moving down to stage 18-17)


Department of Physiology & Membrane Biology
'''Procedure'''


School of Medicine
* Trigeminal nerve bilaterally DiO crystals
* 7th/8th nerve bilaterally DiI crystals (Big chunk on 7th nerve on L side and big chunk on 8th on R side)


University of California
'''Notes'''
No obvious contamination, purposelly put a greater chunk of dye on the 7th nerve on the L side and the 8th nerve on the R side so will see if there is any visible difference between the amount of neurons labelled in different positions within the rhombomere.


4126 Tupper Hall
==Files==


One Shields Avenue
*
*
*
*


Davis, California 95616
*
**
**


530.752.4131 tel
==Results==


530.754.6079 fax
===Facial===
(Green)


jsack (at) ucdavis (dot) edu
* '''''Afferents'''''
 
 
* '''''Efferents'''''
 
 
 
 
 
 
===VIII ===
(green)
 
* '''''Afferents'''''
 
 
 
* '''''Efferents'''''
 
 
* '''''Other'''''
 
 
 
===Basal plate ===
(red)
 
 
==Summary==
 
'''Questions'''
 
'''Future'''
 
 
<META HTTP-EQUIV="refresh" CONTENT="10;URL=http://my.newplace.com/">
 
 
Mary {pad|4em} had a little lamb.
 
'''Badrul Arefin'''
 
 
# Jeong M^, {{spaces|7}} <u>Sun D^</u>, Luo M^, Huang Y, Challen GA, <u>Rodriguez B</u>, Zhang X, Chavez L, Wang H, Hannah R, Kim S, Yang L, Ko M, Chen R, Gottgens B, Lee JS, Gunaratne P, Godley LA, Darlington GJ, Rao A, <u>Li W*</u>, Goodell MA*: Large conserved domains of low DNA methylation maintained by Dnmt3a. <br/> '''''          Nature Genetics''''' . Accepted.
# <u>Akdemir KC</u>, Jain AK, Alton K, Arronow B, J. CA, ..., <u>Li W*</u>, Barton MC*: Genome Wide Profiling Reveals Stimulus-specific Functions of p53 During Differentiation and DNA Damage of Human Embryonic Stem Cells. <br/>'''''Nucleic Acids Res.''''' Accepted
# Klein JB, Piao L, …, <u>Li W</u>, Shi X, Kutateladze TG: KDM5B demethylase binds to its histone target and the product through distinct modules.<br/>''Cell Reports''. Accepted. <br/><br/>'''2013''' <br/><br/>
# <u>Chen K</u>, <u>Xi Y</u>, Pan X, Dent S, He X, <u>Li W*</u>: DANPOS: Dynamic Analysis of Nucleosome Position and Occupancy by Sequencing. <br/>'''''Genome Res.''''' 23 (2013) 341-351. [http://www.bcm.edu/news/item.cfm?newsID=6723 BCM News];  [http://epigenie.com/danpos-reveals-dynamic-nucleosomes Epigenie Headline]  <br/><br/>
# <u>Wang L</u>, <u>Park JH</u>, Wang S, Kocher JP, <u>Li W*</u>: CPAT: Coding-Potential Assessment Tool Using an Alignment-Free Logistic Regression Model. <br/>'''''Nucleic Acids Res.''''' 41 (2013) e74.<br/><br/>
# <u>Lin X</u>, <u>Sun D</u>, <u>Rodriguez B</u>, Zhao Q, Sun H, Zhang Y, <u>Li W*</u>: BseQC: Quality Control of bisulfite sequencing experiments. <br/>'''''Bioinformatics''''' 29 (2013) 3227-3229. PMCID: PMC3842756 .<br/><br/>
# <u>Chen K^</u>, Wilson MA^, Hirsch C, Watson A, Liang S, Lu Y, <u>Li W*</u>, Dent S*: Stabilization of the Promoter Nucleosomes in Nucleosome Free Region by the Yeast Ssn6-Tup1 Corepressor. <br/>'''''Genome Res.''''' 23 (2013) 312-322. <br/><br/>

Revision as of 16:27, 8 December 2014

EmbryoName HK023- chicken embryo- Stage 19.5 - 8.12.14


Experiment

Objective Dyes of different colours on Trigeminal (DiO) vs 7/8th nerve complex (DiI) to see interactions between efferents of one nerve and afferents of other. Also to practice the injection on a younger chicken (slowly moving down to stage 18-17)

Procedure

  • Trigeminal nerve bilaterally DiO crystals
  • 7th/8th nerve bilaterally DiI crystals (Big chunk on 7th nerve on L side and big chunk on 8th on R side)

Notes No obvious contamination, purposelly put a greater chunk of dye on the 7th nerve on the L side and the 8th nerve on the R side so will see if there is any visible difference between the amount of neurons labelled in different positions within the rhombomere.

Files

Results

Facial

(Green)

  • Afferents


  • Efferents




VIII

(green)

  • Afferents


  • Efferents


  • Other


Basal plate

(red)


Summary

Questions

Future


<META HTTP-EQUIV="refresh" CONTENT="10;URL=http://my.newplace.com/">


Mary {pad|4em} had a little lamb.

Badrul Arefin


  1. Jeong M^, Template:Spaces Sun D^, Luo M^, Huang Y, Challen GA, Rodriguez B, Zhang X, Chavez L, Wang H, Hannah R, Kim S, Yang L, Ko M, Chen R, Gottgens B, Lee JS, Gunaratne P, Godley LA, Darlington GJ, Rao A, Li W*, Goodell MA*: Large conserved domains of low DNA methylation maintained by Dnmt3a.
    Nature Genetics . Accepted.
  2. Akdemir KC, Jain AK, Alton K, Arronow B, J. CA, ..., Li W*, Barton MC*: Genome Wide Profiling Reveals Stimulus-specific Functions of p53 During Differentiation and DNA Damage of Human Embryonic Stem Cells.
    Nucleic Acids Res. Accepted
  3. Klein JB, Piao L, …, Li W, Shi X, Kutateladze TG: KDM5B demethylase binds to its histone target and the product through distinct modules.
    Cell Reports. Accepted.

    2013

  4. Chen K, Xi Y, Pan X, Dent S, He X, Li W*: DANPOS: Dynamic Analysis of Nucleosome Position and Occupancy by Sequencing.
    Genome Res. 23 (2013) 341-351. BCM News; Epigenie Headline

  5. Wang L, Park JH, Wang S, Kocher JP, Li W*: CPAT: Coding-Potential Assessment Tool Using an Alignment-Free Logistic Regression Model.
    Nucleic Acids Res. 41 (2013) e74.

  6. Lin X, Sun D, Rodriguez B, Zhao Q, Sun H, Zhang Y, Li W*: BseQC: Quality Control of bisulfite sequencing experiments.
    Bioinformatics 29 (2013) 3227-3229. PMCID: PMC3842756 .

  7. Chen K^, Wilson MA^, Hirsch C, Watson A, Liang S, Lu Y, Li W*, Dent S*: Stabilization of the Promoter Nucleosomes in Nucleosome Free Region by the Yeast Ssn6-Tup1 Corepressor.
    Genome Res. 23 (2013) 312-322.

Retrieved from "https://openwetware.org/mediawiki/index.php?title=Sandbox&oldid=847301"