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This document is a project report submitted by three students - Shreya Raghavendra, Annlin Chacko, and Chaitra Satheesh - for their bachelor's degree. The project analyzed gene expression patterns in cancer genomic data using deep learning under the guidance of Prof. Ashvini Chaturvedi. The report includes an abstract, introduction discussing cancer prediction and detection motivation, description of their approach, and conclusions on analyzing their results and proposing future work.

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annlin
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69 views10 pages

Review 1 Report

This document is a project report submitted by three students - Shreya Raghavendra, Annlin Chacko, and Chaitra Satheesh - for their bachelor's degree. The project analyzed gene expression patterns in cancer genomic data using deep learning under the guidance of Prof. Ashvini Chaturvedi. The report includes an abstract, introduction discussing cancer prediction and detection motivation, description of their approach, and conclusions on analyzing their results and proposing future work.

Uploaded by

annlin
Copyright
© © All Rights Reserved
We take content rights seriously. If you suspect this is your content, claim it here.
Available Formats
Download as PDF, TXT or read online on Scribd
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Analysis of Gene Expression Patterns in

Cancer Genomic Data using Deep Learning

A Project Report
submitted by

Shreya Raghavendra (17EC147)


Annlin Chacko (17EC207)
Chaitra Satheesh (17EC111)

under the guidance of

Prof. Ashvini Chaturvedi

in partial fulfilment of the requirements


for the award of the degree of
BACHELOR OF TECHNOLOGY

DEPARTMENT OF ELECTRONICS AND COMMUNICATION


ENGINEERING
NATIONAL INSTITUTE OF TECHNOLOGY KARNATAKA
SURATHKAL, MANGALORE - 575025

October 4, 2020
ABSTRACT

Write an one page summary of your entire project here

i
TABLE OF CONTENTS

ABSTRACT i

1 Introduction 1

1.1 Problem definition . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 1

1.2 Previous work . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 2

1.3 Motivation . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 2

1.4 Overview . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 2

2 Description 3

3 Conclusions 4

3.1 Analysis . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 4

3.2 Future Work . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 4

ii
LIST OF FIGURES

iii
LIST OF TABLES

iv
CHAPTER 1
Introduction

This chapter “introduces” the reader to the project. Typically this chapter could include
the following information.

1.1 Problem definition

Cancer is the second leading [1Click me!. In the paper [?]...reason behind death world-
wide, a mean of 1 in six deaths is because of cancer. Considerable research efforts are
dedicated to cancer diagnosis and treatment techniques to minimize their impact on hu-
man health. Cancer prediction’s major focus is on cancer susceptibility, recurrence, and
prognosis, while the aim of cancer detection is that the classification of tumor types and
identification of markers for every cancer specified we can build a learning machine to
spot specific malignant tumor type or detect cancer at their earlier stage. Tumor type
classification can contribute to a faster and more accurate diagnosis. It is known that can-
cer is mainly caused by harmful mutations in proto-oncogenes, tumor suppressor genes,
and cell cycle regulator genes.

With the development of DNA sequencing and bioinformatics analysis methods, we


have been able to identify additional genomic mutations and have accumulated a large
amount of data. Methods for identifying correlations between mass genomic variations
and cancer are urgently required. Slight variations in expressions have been indicative
of cancer, understanding of gene expression plays a vital role in the early diagnosis of
cancer, helps solve the problem in advance, and takes precautionary measures. Specific
gene patterns may indicate cancer in later stages of life, thus machine/ deep learning
models play an important role to prevent cancer as well. Personalized target specific
drugs can be provided once cancer has set in if the genome sequence is known previously
and the network pathways have been studied.
1.2 Previous work

Did people try to do similar work before? What were the approaches. What are the
advantages/disadvantages in these works.

1.3 Motivation

This section is typically the answer to the question ”Why are we doing this project?”.
Why none of the previous works described above is not enough to solve the problem in
your context.

1.4 Overview

You could ideally present an overview of your approach to the problem here. This could
involve briefly explaining the major components, organization etc.

2
CHAPTER 2
Description

After the introductory chapter one could use subsequent chapters to explain major com-
ponents of a work. You could also summarize all your experiments and results in one
chapter in case you have too many simulations. It is really upto you to find the best way
to organize your project.
CHAPTER 3
Conclusions

Now it is time to present what you learnt from the project. Summarize your results (don’t
present all again) and describe if you had achieved the aim. You could have following
subsections

3.1 Analysis

This section you could present overview of the results, expectations, whether they match
etc.

3.2 Future Work

You could list the next steps if somebody else would like continue on the same field.
REFERENCES

[1I’m target https://www.nature.com/articles/s41598-019-53989-3

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