HOST DEFENSE, INFECTION AND PATHOGENESISlima/pdf/student_handbook_2013.pdf · HOST DEFENSE, INFECTION AND PATHOGENESIS MED 48801 ... Robbins and Cotran Review of Pathology, ... Lippincott's

lhe City College of New York I

he Sophie Davis chool of Biomedical ducation

40 Years ACCESS- EXCELLENCE-INNOVATION

HOST DEFENSE, INFECTION AND PATHOGENESIS

MED 48801 SPRING 2013

Department of Microbiology, Immunology and Pathology

STUDENT HANDBOOK

TABLE OF CONTENTS

HDIP Course

Course Description

Academic Integrity

Course Textbooks

Microbiology and Immunology Department

Additional Adjunct Faculty

Grading Policy

Grading

Small Group Student Evaluation

Laboratory Component Of Course Grade

Miniboard

Attendance Policy

Website

Podcasts

HDIP Schedule

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3-4

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6-7

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10-12

13-15

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HDIP COURSE MED 48801

Credits: 10 Hours/Week: Monday - Friday Sam - Noon LOCATION: Lectures, Clinical Correlations, Conferences, NAC 1-201 Reviews: Laboratories: Harris Hall, H-205, 213, 215 Small Groups: Microbiology and Immunology Harris Hall, H-303N, 303S, 313N, 313S, 315N,

315S, H-205, H-113C

ANY CHANGE IN POLICIES OR FURTHER CLARIFICATIONS, IF NECESSARY, WILL BE DISTRIBUTED AS HANDOUTS DURING THE SEMESTER.

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SE DESC IPTION

The course (Host Defense, Infection, and Pathogenesis - HDIP) integrates an

understanding of the essential elements of medical microbiology, infectious diseases,

immunology, general pathology, and pharmacology of antimicrobial agents. The

rationale for this approach is to prepare our future physicians for the many and

varied situations encountered in the practice of clinical medicine.

The HDIP course covers major areas of medical microbiology and immunology with

the pathogenesis of disease and appropriate pharmacology interwoven throughout.

Students learn fundamental concepts and terminologies of bacteriology, virology,

parasitology and mycology, and of virulence, pathogenicity, innate and adaptive

immune responses to pathogens, and disease transmission and prevention. Students

develop an understanding of host defense mechanisms and immune-based

pathophysiology, immune diseases, the classification and characteristics of different

types of infectious microorganisms responsible for human diseases, the pathologic

mechanisms by which these infectious agents cause disease (pathophysiology), and

the application of this knowledge to the prevention and treatment of infectious

diseases. Students become familiar with mechanisms of cell injury and aging,

inflammation, tissue repair, hemodynamic disorders, thrombosis and shock, genetic

disorders, environmental and nutritional pathology, blood vessel disease, neoplasia

and metabolic disease.

Throughout the course, small group tutorials and interactive clinical correlations

based on clinical cases link basic science concepts to clinical medicine. Laboratories

in microbiology and immunology introduce students to some of the basic techniques

used in diagnostic laboratories for the identification of infectious bacteria, parasites

and fungi, and acquaint students with additional laboratory tests that are routinely

performed in diagnostic clinical microbiology and immunology laboratories.

Laboratories also utilize diagnostic unknowns to train students in the interpretation

of clinical case histories and the isolation and characterization of microorganisms

involved in infectious diseases.

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At the conclusion of HDIP, a block of Introduction to Medicine will follow. This

block will be graded with the Introduction to Medicine course and not with HDIP.

However, it is the intention of this block to enhance principles followed in HDIP and

provide extra preparation for the HDIP mini board.

Regarding the General Pathology portion of HDIP, students should take note of the

fact that there will be a several month hiatus before the Systems Pathology course

begins. Students are therefore strongly urged to review these sections prior to the

start of Systems Pathology. 35-40% of the Pathology miniboard at the end of the

Systems Pathology course is made up of General Pathology.

Finally, students also receive training and certification in the occupational safety and

health administration (OSHA) blood borne pathogens standards.

ACADEMIC INTEGRITY

HDIP requires full compliance with the principles of academic integrity including but not limited to the following:

1. Sign-in of attendance sheets may not be performed by proxy. Each signature reflects the true attendance of the si,gnatory.

2. Cheating constitutes the obtaining and submission of answers to exam material by any means other than an honest, individual, unassisted effort.

3. Students who are required to take a make-up exam during the course, due to illness or some other unavoidable circumstance, must not communicate with any other student regarding the exam, in keeping with observance of the Honor Code. Similarly, any student who conveys information to that student regarding the missed exam will be breaching the terms of the Honor Code.

"This course recognizes and endorses the Sophie Davis Student Code of Honor. As a faculty we share your commitment to creating an environment that fosters professionalism in our educational community."

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1. Microbiology 8t Immunology:

Required

Parham Peter, The Immune System, Third Ed ition, 2009. Taylor & Francis Group, LLC 2009 Garland Science ISBN#: 978-0-81534146-8

Engleberg, N. c., DiRita, V., Dermody, T. S., 2007 . Schaechter's Mechanisms of Microbial Disease. Fourth Edition . ISBN#: 13:978-0-7817-5342-5

Suggested Review Text Books for M 8t I:

Warren Levinson. Review of Medical Microbiology and Immunology 11th Edition, 2010 McGraw Hill - Lange ISBN#: 10: 0071496203, # ISBN-13: 978- 0071700283

Other Suggested Text Books for M 8t I:

Coico, R. , Sunshine, G., 2009. Immunology: A Short Course, Sixth Edition. Wiley ISBN-10: 0470081589 ISBN-13: 978-047008t587

Sherris Medical Microbiology. 5th Edition (2010) Editor: Kenneth J. Ryan, MD., C. George Ray, MD, ISBN#: 008385-8529-9

(Free) Barron's On-l ine Microbiology - 4th Edition (5. Barron, U. Texas Medical Branch) http://gsbs.utmb.edu/microbook/toc.htm can also be purchased as hard copy.

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2. Pathology:

Required

Rubin, R., Strayer, D. and E. Rubin, 2011. Rubin's Pathology: Clinicopathologic Foundations of Medicine, Sixth Edition, Lippincott, Williams and Wilkins (plus webaccess). ISBN#10 1-605-47968-3 ISBN-13 978-1-605-47968, $105.

OR

Robbins and Cotran, 2009. Kumar, Abbas, Fausto, Aster. Pathologic Basis of Disease, 8th Edition, Saunders/Elesevier (plus web access). ISBN# 978-1-4160-3121-5, $122.

Both of these textbooks provide websites with their purchase. These provide a wealth of course material as well as vignette-style questions also presented in their companion books.

Other Suggested Text Books:

Robbins and Cotran Review of Pathology, 2010, Third Edition (Paperback), Saunders/Elsevier Klatt and Kumar. ISBN# 13: 978-1-4160-4930-2

Lippincott's Illustrated Q&A Review of Rubin's Review of Pathology (Paperback), 2011, Second Edition: Bruce Fenderson, David Strayer and Emanuel Rubin. ISBN# 13: 978-1-60831-640

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MICROBIOLOGY AND IMMUNOLOGY DEPARTMENT

Departmental Office: Harris Hall, Room 207, (212) 650-6880

Sanna Goyert, Ph.D.

Office: Telephone: FAX: E-mail:

Viera Lima, D.D.S.


Dani McBeth, Ph.D.


Paul Gottlieb, Ph.D.


Medical Professor and Chair

H207 212.650.6880 212.650.7797 [email protected]

HDIP Course Director / Coordinator, Webmaster

Suite H-14 212.650.7725, '7730 212.650.7797 [email protected]

Associate Dean for Student Affairs, Associate Medical Professor, H113 212.650.7727, 8485 212.650.7797 [email protected]

Medical Professor,

H 210A 212.650.7729, 212.650.7797 [email protected]

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Michelle Juarez, Ph.D.


Linda Spatz, Ph.D.


Igor Toporovsky, MS Telephone: FAX: E-mail:

Roberto Rodriguez Telephone: FAX: E-mail:

Jenny Paredes BS


Alice, Mumbey MS


Assistant Medical Professor,

H 310 E 212.650.7838 212.650.7797 [email protected]

Associate Medical Professor,

H 210B 212.650.7723, 212.650.7797 [email protected]

Senior Laboratory Technician 212.650.6945 . 212.650.7797 [email protected]

Administrative Assistant 212.650.7729 212.650.7797 rrod rig [email protected]

TA laboratory

H 207 212.650.5684 212.650.7797 @med.cuny.edu

TA laboratory

M 610 212.650.7917, 212.650.7797 @med.cuny.edu

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ADDITIONAL FACUL TV

Micr~biology and Immunology

Irini Scordi-Bello, M.D. Associate Professor of Clinical Medicine and Pathology Mount Sinai School of Medicine D~artment of PatholojIy

Telephone: 1 Gustave L. Levy Place, New York NY 10029 Email:

Daniel S. Caplivski, M.D. Associate Professor of Infectious Disease and Internal Medicine, Medical Director of Travel Medicine Mount Sinai School of Medicine, D~rtment of Infectious Diseases 1 Gustave L. Levy Place, New York NY 10029

Telephone: 212-241- 7468 Email: [email protected]

Vani Gandhi, M.D. Attending Physician, Assistant Clinical Professor of Medicine, Director of Integrative Medicine, Center for Comprehensive Care Columbia University College of Physicians and Surgeons St. Luke's-Roosevelt Hospital Center, 1111 Amsterdam Avenue, New YorkL NY 10025

Telephone: 212-523-3847, FAX 212-523-5677 Email: [email protected]

Paul Kelly, M.D. Assistant Professor of Medicine SUNY Health Science Center at Brooklyn Department of Medicine 450 Clarkson Avenue Brooklyn NY 11203

Telephone: 718-270-2234 Email:

Leonard R. Krilov, M.D. Chief Pediatric Infectious Diseases Winthrop University Hospital, Winthrop Pediatric Specialties Center 200 Old Country Road-S. 440L MineolaL NY 11501

Telephone: 212-241-9157 Email: [email protected]

Meggan C. Mackav, M.D. Associate Professor of Medicine Albert Einstein College of Medicine at Yeshiva University Long Island Jewish Medical Center Research Institute

Teleohone: 516-562-3838 Email: [email protected]

Rachel Lang, M.D. Associate Professor of Clinical Medicine Division of Patholoqy Mount Sinai School of Medicine, Department of Pathology 1 Gustave L. Levy Place, New York NY 10029

Telephone: Email:

Carlos Salama, M.D. Associate Professor of Clinical Medicine Division of Infectious Diseases Mount Sinai School of Medicine at Elmurst 7901 Broadway Suite-J1 Elmhurst NY, 11373

Telephone: 718-334-3969 Email:

Michael F. Tosi, M.D. Professor of Pediatric Medicine and Pediatric Infectious Disease Mount Sinai School of Medicine Department of Pediatrics 1 Gustave L. Levy Place New YorkL NY 10029

Telephone: 212-241-5866 Email: [email protected]

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PHARMACOLOGY

Ira Leviton, M.D. Professor of Clinical Medicine Division of Infectious Diseases, Montefiore Medical Center 111 E. 210 Street- Center Bldg., Room 37 Bronx, NY 10467

Telephone: 718-920-7791 Email: [email protected]_

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GRADING POLICY AND ELIGIBIL TY FOR REASSESSMENT

A. The passing score for all HDIP course examinations and all graded HDIP course work (small groups, laboratories and exams) is 70. Students must complete all graded course work and the Microbiology and Immunology Miniboard in order to receive a grade.

B. Letter grades for students who pass the course are aSSigned as follows:

Numerical Average

A+ 95-100 4.0

A 88-94 4.0

A- 85-87 3.7

B+ 80-84 3.3

B 73-79 3.0

B- 70-72 2.7

C. REASSESSMENT

Eligible students who do not have a passing grade at the end of the HDIP course (70 or above), will be required to take and pass a comprehensive course reexamination. The highest score attainable on re-examination is a 70.

Eligible students who fail the Microbiology and Immunology Miniboard will be required to take and pass a second Miniboard.

In order to pass the course, students must pass BOTH the HDIP course reexamination and the repeat Microbiology and Immunology Miniboard.

Eligibility to take all re-examinations is subject to the terms and conditions described in this course description and the approval by the Deputy Dean of Academic Affairs and must be in compliance with the School Student Hand Book on Policies and Procedures.

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D. In addition to the HDIP examinations and Microbiology and Immunology Miniboard:

1. A take-home exam on the OSHA Bloodborne Pathogens Standard will also be given. Students must pass this exam in order to receive certification in this OSHA standard. This grade will not constitute a part of the course grade. However, you will be given a grade of Incomplete for HDIP if you do not pass the OSHA exam. .

2. IMPORTANTE NOTE:

FAILURE TO COMPLETE HDIP

Any student who does not take all of the MCQ exams, laboratory exams and the miniboard shall have been deemed NOT to have completed HDIP. This will result in an automatic failure of HDIP. Such a student will NOT be eligible for any makeup or reassessment exam whatsoever. Disposition of this student's future academic status will be decided at an administrative level.

INTRA-COURSE MAKEUP EXAMS

Any student who misses an intra-course (block) exam must present an acceptable, documented excuse, e.g. doctor's note, within 24 hours. The exam must be made up as soon as feasible. Students taking such makeup exams are reminded of the Honor Code stipulations regarding academic integrity.

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1 2 3 4 5 6

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GRADING BLOCK EXAMS

Exam I 17.0% Exam II 17.0% Exam III 17.0% Exam IV 17.0% Small Groups

Lab

Exam V 17.0% 8 0/0

Lab 7.0% Exam V

Small Groups 8.0% 170/0

100%

170/0

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Exam I

III

17%

II

I % Final I Student Topic I Grade I Grade

I Immunology, 1 Block Inflammation, and Exam I Immunopathogen 170/0 70

Basic Microbiology, 2 Block antimicrobial, gen. 170/0 Exam II pathology 70 3 Block Bacteriology, Pathology Exam III and Antimicrobials

170/0 70 Parasitology, Mycology-

4 Block Virulence, Pathology and Exam IV Treatment, STD 170/0 70

5 Block Virology and Virulence, Exam V Pathology and Treatment 170/0 70

micro-immuno Laboratory Integrated 70/0 70

mlcro-immuno Small Group Integrated 8 0/0 70

Total 1000/0

Your Projected Final Grade is: II 70%11

HDIP GRADING SYSTEM SPRING 2012

!Letter Grade ! Number ! ::~ts ! A+ 95-100 4.0

A 88-94 4.0

A- 85-87 3.7

B+ 80-84 3.3

B 73-79 3.0

B- 70-72 2.7

Fail = < 700/0

SMALL GROUP STUDENT EVALUATIONS

Each session is graded out of a possible total score of 20

Attendance

1. Non-attendance = grade of 0 for session

2. *Late-attendance: arrival 10 minutes late = loss of 10% of session value arrival 15 minutes late = loss of 15% of session value arrival 20 minutes late = loss of 20% of session value arrival> 20 minutes late = non-attendance = 0 for session

Performance Grade/20

1. Preparation: score 1-10

2. Participation: score 1-10

STUDENT NAME: _____ _

DATE: ---.1_-----'1 __

SMALLGROUPTOPIC: ___________________ ___

ATTENDANCE DEDUCTION *(LATE-ATTENDANCE) (Check 1) 2 pOints ___ I 3 points ___ I 4 pOints ___ I no deduction ___

SMALL GROUP PERFORMANCE GRADE

1. Preparation: ---.110

2. Participation: ---.110

Subtotal: ---.120

3. Attendance deduction:

TOTAL:_/20

Facilitator: ____________ _

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LABORATORY COMPONENT OF COURS,E GRADE

A. This accounts for 7 0/0 of the total grade

B. The laboratory grade will be determined as follows:

1. Microbiology and Immunology Laboratories (laboratory reports and performance in the M&I laboratories): 7.00/0

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MINIBOARD

.:. THE MINI-BOARD EXAMINATION MUST BE PASSED WITH A MINIMUM PERCENTILE SCORE OF 11 OR GREATER .

• :. The mini-board examination may be re-taken once and must be passed if the initial examination is failed .

• :. Scores will be reported as pass=P or fail=F. If the initial miniboard examination is failed, the mini-board examination may be retaken once (see eligibility requirements) and must be passed in order to pass HDIP.

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ATTENDANCE POLICY

Attendance at all lectures and review sessions is most strongly encouraged and urged. Attendance at all guest lectures, clinical correlations, laboratories and small groups is mandatory. If a student fails HDIP due to a numerical average <70 that resulted only from absences or unsatisfactory attendance and / or performance at laboratory, clinical correlations, small group sessions, a cumulative make-up examination will be given if that student is eligible to take a makeup examination.

MANDATORY ATTENDANCE POLICY

Absence from any mandatory activity, as defined above, requires acceptable and appropriate documentation such as a doctor's note. More than 2 unexcused absences from mandatory activities described above will result in automatic failure of the course. Such students, if eligible, will be required to take a cumulative course re-examination.

Attendance of Microbiology and Immunology Laboratories

Each and every excused absence form a Microbiology and Immunology laboratory requires a makeup laboratory as soon as possible. The following procedure is to be followed:

1. Present your valid excuse to Dr. Lima. She will personally arrange and supervise a makeup laboratory session equivalent to the one missed. This make up assignment will include your handing in any applicable laboratory report.

2. Any unexcused absence and/or failure to make up the missed laboratory together with handing in the report will contribute to the total of 2 unexcused absences that will result in automatic failure of the course (see Mandatory Attendance Policy above).

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WEBSITE

http://www.sci.ccny.cuny.edu/ "'limal

The HDIP course website offers a variety of information, in addition to recommended and alternate texts. Alternative learning tools available in the LRC are described. A variety of links to useful websites is provided. EXPLORE!

Clinical cases to be discussed during small group exercises will be posted in advance on our departmental website. Answers to questions will be posted after small group sessions.

Exam grades will be posted on the website promptly after grading is completed.

All announcements, course changes or any new information will be posted on the course website in a timely fashion. Please check regularly.

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PO DCASTS Podcasts are not a substitute for attending lectures. They do not capture the ambiance of the lectures and the all important nuanced intensity of the lecturers, nor do they come close to providing a substitute for a complete learning environment.

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*

Dr. Linda Spatz 3hrs M &1

llam-12noon

1 hr M &1

1 hr

Irini Scordi-Bello MD Pathology

M &1

-------+---:-=-----:-:....----------~ Dr. Linda Spatz M &1

Irini Scordi-Bello MD Pathology

r

1 hr Dr. Linda Spatz M &1

1 hr 1 hr

--------------+-----------------------------~ Dr. Linda Spatz

Spring Recess MARCH 25th - APRIL 2nd

--------------~!...!::.....::.-...::.~.::.-...::.~:.!....:.:..::..::....:..::..::....~----------___l Dr. Li nda Spatz

Vacci

Cell Injury / Immune Diseases / Environment; Inflamation /

Hypersensitivity; Review

Small group Tutorial:

Clinical Correlation:

Dr. Linda Spatz

Rachel Lange, MD

Irini Scordi-Bello MD/Rachel Lange

Faculty M & 1

2 hr

3 hr

2 hr

10am-12noon MD 2 hr

M &1

M &1

M &1

M &1

M &1

Pathology

Pathology

M &1

Monday

April 15th

Immune Defense against Pathogens

---------------r----~~~----~------~------~

9am-12noon Integrated Exam I

Classification and Identification of Bacteria Microbial Morphology and the Bacterial

Envelope

Rachel Lange, MD

Irini Scordi-Bello MD

Dr. Linda Spatz

NACI/201

--------------~~~~~~~~on~rtUU\~~--~ Dr. Dani McBeth

Dr. Dani McBeth

Microbiology and Immunology

10am-12noon Laboratory: Introduction to Faculty M&I

Small group Tutorial: Faculty M&I

10am-12noon Dr. Dani McBeth

Pathology

Pathology

M &1

3 hr M&I Path

1 hr M &1

1 hr

M&I

2 hr

2 hr M &1

2 hr

llam-12noon

Introduction to Pathology of Infectious Diseases Pathology of Tuberculosis Irini Scordi-Bello MD 2 hr

t---- ----1

1 hr

1 hr

Dr. Dan i McBeth Non-Spare-forming Gram-Positive Rods 1 hr

Microbiology Laboratory: Bacterial Identification I

Spore-forming Bacteria, Bacilli and

Microbiology Laboratory: Bacterial Identification II

Clinical Correlations: Meningococcal Infections,

Endotoxic Shock,

Faculty M&I 3 hr

Dr. Dani McBeth 1 hr

Faculty M&I 3 hr

Dr. Dani McBeth 1 hr

Rosa Lee MD 1 hr

Pathology

M &1

M &1

M &1

M &1

M &1

Faculty M&I M &1

Faculty M&I M &1

M &1

Ira Leviton MD Pharm

John

Dr. Dani McBeth M &1

Microbiology Laboratory: 2 hr

Faculty M&I M &1

10am-12noon 2 hr

Ira Leviton MD Pharm Antimicrobials VI: Antimycobacterial

--------1 and Antituberculosis antibiotics

Monday

May 13th

Microbiology Laboratory: Diagnostic Unknowns ld Faculty M&I 3 hr

Presentation NAC1/201

REVIEW

Handout, Clinical Use of Antimicrobial Ira Leviton MD 2hr Review of Microbiology and Dr. Dani McBeth 10am-12noon 2hr

Dan Caplivski MD 2 hr

9am-12noon Integrated Exam II Faculty M&I 3 hr

---------11-----------'---------1 Dr. Pau I Gottlieb

Leni Krylov MD

OSHA Bloodborne Pathogens Standard/ Dr. Paul Gottlieb

Faculty M&I Small group Tutorial:

Web-Posted Clinical Cases

M &1

Pharm

M &1

M &1

M &1

M &1

M &1

M &1

r 1 hr

Dan Caplivski MD 1 hr

M &1

1 hr

1 hr Dan Caplivski MD 1 hr

Review Parasitology 1 hr M &1

Microbiology Laboratory: Faculty M&I 1 hr

Pathogens 1 hr Fungal Dan Caplivski MD M &1 Mycoses II & III

Pathogens and Mycoses IV

M &1

Pharm

Herpes Vi r. Paul Gottlieb 1 hr Clinical Correlation:

1 hr M &1 Oportunistic Infect Diseases I Paul Kelly MD 1 hr

II

Friday 9am-12noon

Integrated Exam III Faculty M&I 3 hr M &1

May 24th Parasitology & Mycology

MO!iday "-~~~~§j~ May 21th ~~W

FRIDAY MAY 31sT

Oncogenes and Tumor Suppressor ~~~~ ______ ~~~L-________________________ ~RacheILangeMD 1 hr

---------------+----=-----------------------------1lrini Scordi-Bello MD

------------+-----=-----------------iDr. Paul Gottlieb

---------------+-------==-------------------------1lrini Scordi-Bello MD

Faculty M&I

COMMENCEMENT 40 YEARS

ACCESS - EXCELLENCE - INNOVATION

HIV / AIDS Clinical Correlation

Carlos Salama MD

~~~~ ______ ~~~~~~~~~~ ____________ ~RacheILangeforpeds ______________ -+-__________ ---=-=---....".......------------1 1/2 and Irini Scordi-

Bello MD for review and ------~------~------------~----------~----~Iabmed

--------+--------------------i Dr. Pau I Gottlieb

2 hr

1 hr

Pathology

M&I

Pathology

M&I

M&I

Pathology

M&I

Friday June 14th

---------1i----=---=--------------iCarlos Salama MD

---------1i---------=...;'-----------iIrini Scordi-Bello MD

Conference/ Review VIROLOGY Dr. Paul Gottlieb

Clinical review for the Miniboards Dan Caplivski MD

Review Pediatric, Forensic and Irini Scordi-Bello MD Pathology of Viral Infections and Rachel Lange MD

STUDY TIME

9am-12noon FINAL Integrated Exam IV Faculty M&I

MINIBOARDS (ARE?)

M&I

Pathology

3 hr M&I

3 hr M&I

3 hr Pathology

3 hr M &1

Spring brake Monday March 25th to Tuesday April 2nd

Memorial Day Monday May 27th

Summary Commencement Friday May 31st

NOTE Study days before Final Exam Wednesday 12th to Thursday June 13th

HDIP Miniboards possible Friday June 21st

Remediation of HDIP Course(should be needed) possible day Friday June 28th Remediation of HDIP Miniboards Monday July 8th

HOST DEFENSE, INFECTION AND PATHOGENESISlima/pdf/student_handbook_2013.pdf · HOST DEFENSE, INFECTION AND PATHOGENESIS MED 48801 ... Robbins and Cotran Review of Pathology, ... Lippincott's

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