Write a report about project management plan

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projectmanagementplan.zip

BudgetProjections1YrProject.xlsx.xlsx

1YearProject

Proposal Budget Worksheet, 1 Year Project Fringe Benefits Rate Non-Sponsored and Sponsored 07/01/2015-06/30/2016
This worksheet assumes that each subawardee will be issued a new contract each year. Faculty and Classified Staff 36.30%
Enter data in year 1 and it will be projected in all future years using the indicated increment. Hourly 8.50%
Data may be entered in any future year and it will be projected to the end. Full-Time VCU Student 0.00%
Complements of Virginia Commonwealth University
**Facilities & Administration (F&A) Rates (O/C = On campus; Off/C = Off Campus)
07/01/13 – Until notice:
O/C Research 52.50%
Increment Rate 4.00% Non-Personnel Off/C Research 26.00%
Increment Rate 4.00% Personnel O/C Instruction 40.00%
Fac. & Class. Fringe 36.30% Off/C Instruction 26.00%
Hourly Fringe Rate 8.50% O/C Other 35.00%
**F&A Rate (See Chart) 52.50% Off/C Other 26.00%
Restricted Rates
Other Rates: Legacy On Campus Res 52.00%
Personnel Other Rates: Industry Sponsored Clinical Trial 25.00%
Faculty & Classified Other Rates: Sponsor Restricted Other 20.00%
Name % Effort Annual Salary Year 1 Other Rates: Sponsor Restricted Local 10.00%
Dr. Wu (Genentech) 5% 100,000 16,250 Other Rates: Sponsor Restricted Training 8.00%
Project manager-Sr Scientist 25% 60,000 15,000 Other Rates: Sponsor Restricted 5.00%
Bioinformaticist 25% 60,000 15,000 Other Rates: No F&A Allowed by Sponsor 0.00%
Sequencing Technician-Sonya 50% 45,000 22,500
0% 0 0
0% 0 0
0% 0 0
0% 0 0
0% 0 0
0% 0 0
Subtotals 68,750
Summer & Part-Time Faculty
Name % Effort Annual Salary Year 1
0% 0 0
0% 0 0
0% 0 0
0% 0 0
0% 0 0
0% 0 0
0% 0 0
0% 0 0
0% 0 0
Subtotals 0
Hourly & Postdoctoral
Name Hrs. Worked Rate Per Hour Year 1
Bioinformactist- George 20 50 1,000
0 0 0
0 0 0
0 0 0
0 0 0
0 0 0
0 0 0
0 0 0
0 0 0
0 0 0
Subtotals 1,000
Nonfringe & Students
Name % Effort Annual Salary Year 1
0% 0 0
0% 0 0
0% 0 0
0% 0 0
0% 0 0
0% 0 0
0% 0 0
0% 0 0
0% 0 0
0% 0 0
Subtotals 0
Subtotal Personnel 69,750
Fringe Faculty & Classified 24,956
Fringe Summer & Part-Time Faculty 0
Fringe Hourly 85
Postdoctoral Health Ins. 0
Subtotal Fringe 25,041
Total Personnel 94,791
Consultants
(Names)
0
0
0
Subtotals 0
Equipment (>$5,000 each)
Servers
0
0
0
0
Subtotals 0
Supplies
(Itemize)
MasterPure Complete RNA & DNA Purification Kit 376
LB media 48
0
0
0
0
0
0
0
Subtotals 424
Patient Care
Inpatient 0
Outpatient 0
Subtotals 0
Alterations/Renovations
(Itemize)
0
0
0
Subtotals 0
Travel/Shipping
(Itemize)
Shipping E.coli from KY Genentech/Roche location 110
0
0
Subtotals 110
Other
(Itemize) 0
VCU Complete Run Supplies+Service 10,000
VCU Full Gene Expression Analysis Supplies +Service 25,000
VCU Mate Paired Run Supplies + Service 8,000
0
Total Rent
Rent 0 0
Total Tuition
Tuition 0 0
Subtotals 43,000
Subtotal Direct Cost at VCU 138,325
138,325
Subawards
Subawardee #1
Direct 0
Indirect 0
0
Subawardee #2
Direct 0
Indirect 0
0
Subawardee #3
Direct 0
Indirect 0
0
Subawardee #4
Direct 0
Indirect 0
0
Total Direct Subawards 0
Total Indirect Subawards 0
Total Direct 138,325
F&A Base 138,325
Total F&A 72,621
Total Costs 210,946
1-year DC total 138,325
1-year F&A base 138,325
1-year F&A total 72,621
1-yr total cost 210,946
For NIH Applications:
Total VCU Direct Costs 138,325
Consortium/Contractual Direct Costs 0
Subtotal Direct Costs for Initial Budget Period (Item 7a, Face Page) 138,325
Consortium/Contractual F&A Costs 0
Total Direct Costs for Initial Budget Period 138,325

__MACOSX/._BudgetProjections1YrProject.xlsx.xlsx

Management Plan.pptx

High Throughput Sequencing of a Genetically Modified Microbe

Project Management Plan

1

Project Definition

Develop a budget estimate and operating plan for the sequencing of the genome of a genetically modified microorganism, E.coli.

Image Credit: http://s.wsj.net/public/resources/images/OB-ZC073_0930ec_F_20130930040254.jpg

2

Project Summary

Dr. Wu of Genentech

Genetically Modified E. coli

Characterize the complete genome

Characterize the complete transcriptome

Develop a project plan and a cost estimate

Image Credit: http://www.cbc.ca/news/technology/scientists-design-gmos-that-can-t-escape-into-the-wild-1.2929554

3

Bioinformatic Analysis

Image Credit: http://www.tgac.ac.uk/uploads/images/_DSC3572%20copy.jpg

http://www.jscimedcentral.com/Bioinformatics/images/Bioinformatics-banner4.jpg

Measure of Success: High quality analysis

Milestone of Progress: Complete processing of all data

Now it’s a time for some computational power

As a bioinformatics

Wet lab result

Analyze the data by Writing bunch of codes for

arranging the genome sequence, discover the mutation and modify the gene, and find the differences in the genome.

4

Results Assessment & Presentation to Dr. Wu

Image Credit: http://www.chicagonow.com/healthy-human/files/2015/12/97330-93928.jpg

http://dna.cs.byu.edu/bio465/puzzle.png

Measure of Success: Dr. Wu accepts the proposal

Milestone of Progress: Complete review and presentation

Deliverables

Whole Genome Sequence

Distance between Genes

RNA Expression Data

Understanding of the genetically modified microbe

Image Credit: http://www.bioinformatics.babraham.ac.uk/projects/fastqc/fastqc.png

https://seqcore.brcf.med.umich.edu/sites/default/files/images/normal3730.gif

Required Resources

VCU Sequencing Core Facilities

DNA extraction kits

Thermocycler

Pipettes

Nanodrop or Qbit analyzer

Library preparation kit

Sequencing reagents

Sample index kit

Freezer and fridge

Sequencer

Computer for data analysis

Image Credit: http://hihg.med.miami.edu/images/sized/images/_MG_685623newL-460x215.jpg

Required Resources

LB Broth

Erlenmeyer flasks

Test Tubes

Wu’s VCU collaborator’s lab

Bacterial Incubator

Bacterial Incubator/Shaker

Freezer

Fume Hood

Genetically Modified E.coli Sample

Image Credit: http://hihg.med.miami.edu/images/sized/images/_MG_685623newL-460x215.jpg

Good Laboratory Practices

21 CFR Part 58

Standard Sequencing Protocols

Standard DNA & RNA Extraction

Lab Notebooks

Adequate Facility

Lab Coats

Lab Gloves

Separate Rooms for Isolation

Storage of Sequence Data

Image Credit: http://www.esus.ie/projects-elearning/1/GoodLaboratoryPractice.png

Timetable for Tracking

Task Start Date Time (days)
E.coli Shipment 1-Jun 2
E.coli Growth 3-Jun 1
DNA & RNA purification Kit 4-Jun 1
Sequencing 4-Jun 90
Bioinformatic Analysis 4-Sep 90
Results Assessment/Presentation 22-Sep 14

Cost

Personnel Year 1 Cost
Dr. Wu (Genentech) 16,250
Project Manger-Sr. Scientist 15,000
Bioinformaticist 15,000
Sequencing Technician 22,500
Data Manager 1,000
Fringe Benefits 25,041
F&A 93,706
Supplies Year 1 Cost
MasterPure Complete RNA & DNA Purification Kit 376
LB media 48
Total 424
Shipping Year 1 Cost
Shipping E.coli from KY Genentech location 110
Other Year 1 Cost
VCU Complete Run Supplies+Service 10,000
VCU Full Gene Expression Analysis Supplies +Service 25,000
VCU Mate Paired Run Supplies + Service 8,000
Total 43,000

Total Cost for Project: 210,946

Recap Milestones & Measures

Task 1:

Milestone of progress: Viable E.coli arrived in the VCU lab

Task 2:

Measure of Success: Genetically modified bacteria grow and grow to a healthy concentration (108)

Milestone of Progress: E.coli grows

Task 3:

Measure of Success: The DNA and RNA are pure; the concentration high

Milestone of Progress: Isolation of DNA and RNA

Task 4:

Measure of Success: Get good quality results

Milestone of Progress: Complete the sequencing of the whole genome

Recap Milestones & Measures

Task 5:

Measure of Success: Get good quality results

Milestone of Progress: Complete the sequencing of the mate paired analysis

Task 6:

Measure of Success: Get good quality results

Milestone of Progress: Complete the expression analysis

Task 7:

Measure of Success: High quality analysis

Milestone of Progress: Complete processing of all data

Task 8

Measure of Success: Dr. Wu accepts the proposal

Milestone of Progress: Complete review and presentation

Executive Summary

Mission: Develop a project management plan to characterize a genetically modified E.coli

Objectives:

Obtain Whole Genome Sequence

Expression Analysis of Genome

Distances between Genes

Cost for a year is $209,291

Project Duration: 6 Months

References

__MACOSX/._Management Plan.pptx

Project II High throughput sequencing modified microbe.docx

Project II High throughput sequencing of a genetically modified microbe

The Solexa high though-put sequencer is the one of the fastest gene sequence analyzers in the world. Having successfully inserted some genes into e. coli to create a new mutant microorganism, molecular geneticist Dr. Wu of Genentech wants to characterize the complete genome of the mutant. You have been asked by Dr. Wu to give him a cost estimate for this work. If the following laboratory analyses and bioinformatics data analysis are required, determine the cost for this project for Dr. Wu.

One complete run on the high throughput Solexa sequencing instrument is needed at a cost of $10,000 in service charges from the VCU Genome Sequencing Center. In addition one full gene expression analysis on the Solexa at a cost of $2500 is required, as well as two additional mate paired runs on the Solexa at a cost of $4000 each. The sequencing will take about two weeks effort by a post doctoral scientists paid $45,000 annually. The labor for the laboratory sequencing work is included in the service center cost, but the cost for the bioinformatics data analysis is not. The High Performance Computing Center at VCU houses adequate computing capability, but the cost for the time and effort of a masters degree bioinformatics specialist must be covered by the project.

The data analysis will require determination of genome arrangement, mutation discovery and differentiation. The time estimated for the bioinformatics specialist may vary somewhat, but we estimate that it will take three months. The overhead is covered by the university Facilities and Administration cost, which is 50% on research projects such as this. If the BNFO specialist is paid $60,000 annually and his/her fringe benefits rate is 33.3%, develop a budget for Dr. Wu and justify each item for this laboratory research project.