Genomic Data Science

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Below are the top discussions from Reddit that mention this online Coursera specialization from Johns Hopkins University.

With genomics sparks a revolution in medical discoveries, it becomes imperative to be able to better understand the genome, and be able to leverage the data and information from genomic datasets.

Bioconductor Biopython Python Programming R Programming Galaxy Bioinformatics Statistics Data Science Computational Biology Data Analysis Genome Genomics

Accessible for free. Completion certificates are offered.

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Taught by
Steven Salzberg, PhD
Professor
and 7 more instructors

Offered by
Johns Hopkins University

This specialization includes these 8 courses.

#476
Introduction to Genomic Technologies
This course introduces you to the basic biology of modern genomics and the experimental tools that we use to measure it.
Johns Hopkins University
Steven Salzberg, PhD
0 reddit posts
7 mentions
#477
Genomic Data Science with Galaxy
Learn to use the tools that are available from the Galaxy Project.
Johns Hopkins University
James Taylor, PhD
0 reddit posts
6 mentions
#372
Python for Genomic Data Science
This class provides an introduction to the Python programming language and the iPython notebook.
Johns Hopkins University
Mihaela Pertea, PhD
0 reddit posts
11 mentions
#343
Algorithms for DNA Sequencing
We will learn computational methods -- algorithms and data structures -- for analyzing DNA sequencing data.
Johns Hopkins University
Ben Langmead, PhD
0 reddit posts
10 mentions
#505
Command Line Tools for Genomic Data Science
Introduces to the commands that you need to manage and analyze directories, files, and large sets of genomic data.
Johns Hopkins University
Liliana Florea, PhD
0 reddit posts
5 mentions
#479
Bioconductor for Genomic Data Science
Learn to use tools from the Bioconductor project to perform analysis of genomic data.
Johns Hopkins University
Kasper Daniel Hansen, PhD
0 reddit posts
6 mentions
#484
Statistics for Genomic Data Science
An introduction to the statistics behind the most popular genomic data science projects.
Johns Hopkins University
Jeff Leek, PhD
0 reddit posts
6 mentions
Genomic Data Science Capstone
In this culminating project, you will deploy the tools and techniques that you've mastered over the course of the specialization.
Johns Hopkins University
Jeff Leek, PhD
0 reddit posts
0 mentions

Reddit Posts and Comments

2 posts • 78 mentions • top 19 shown below

r/bioinformatics • post
18 points • arosa09
Which of coursera specialization is better to get into bioinformatics?

I am a medical graduate and I have interest in data science and bioinformatics. I started applying data science technique to my current work. However I am looking for Phd position in a lab in bioinformatics. I will self-study bioinformatics but I feel the amount is too huge to get started so I want an outline to a track to follow before I start applying. I found those 2 specializations on Coursera

https://www.coursera.org/specializations/genomic-data-science https://www.coursera.org/specializations/bioinformatics

I don't know which one is better to help me get a position in a lab would you please suggest me a track to start on ?

r/bioinformatics • post
4 points • biznatch11
I want to improve my bioinformatics skills, Genomic Data Science from Coursera?

I have a lot of background in biology/genetics (currently a postdoc), I'm fairly comfortable using the Linux command line and Perl, and I have experience analyzing ChIP-, RNA-, and WGBS-sequencing using several of the commonly used command line programs plus some R/Bioconductor packages. I want to learn/improve my knowledge of Python, statistics, and R. The Genomic Data Science Specialization at Coursera seems to cover the relevant topics, at least as a way to get started. I would skip the material I'm already familiar with (courses 1/2/5 = Intro/Galaxy/commandLineTools) and do the other ones (3/4/6/7 = Python/Algorithms/Bioconductor/Statistics). Does this seem like a good idea? Are there other courses that would be better? Any advice or feedback is appreciated.

r/bioinformatics • post
17 points • seifeldin122
I am lost and I need guidance

Hi everyone,

There is no short way to say this other than the subject above.

Please if you have time, do read ! do help me ! I am a student and I seriously need guidance !

I will get right to it,

I have always wanted to be a psychiatrist and a game developer, I never accepted the fact that in order for us to truly feel better and survive our emotional depressions and such, we are forced to meet addicting medications. I have always thought about an alternative, something I can reach that will make people feel better and in the same way addiction-free.

Why a game developer ? In the past I loved programming, till I discontinued multiple games due to the amount of frustrating courses that I have followed, I never had the breath to continue a course that never explains stuff fully.. The moment I felt stupid and incapable I directly stopped, which made me hate programming a bit, I never had anyone to guide me or a decent courses to hop along. When I grew up I realized this was just a big excuse for my failure and that I have to start programming from scratch again but this time without giving up and not for gaming but for something more meaningful towards my goal.

In Egypt which is where I am, according to our High school score "Final year only" also called "Thanawia Amma" we get to choose what fields we can apply to and in what universities.

Psychiatry wasn't there because I got 89,% and it was from 98,5%, I then came to realize that there is another field called Biotechnology. I have realized how close this can be towards my actual goals, since I don't want to spend the rest of my life listening to people's verbal issues more than actually solving them from a lab by eliminating the root cause, Biotechnology had all my wishes. I am meeting face to face with the conductors of hormones, of our behavior maps... DNA !

I get to work closely against the enemy, however the only part of biotechnology that is accessible to me was and which I am in at the moment is "Agriculture Biotechnology"

Now

The thing is in Egypt, we have no quality labs, no quality courses, no Quality teaching. Whoever succeeds either by enrolling in very expensive colleges or intensive online courses. I slacked in my first two years in my Cairo university, I never took what I am doing seriously... I felt hopeless that I am never gonna reach my goal, barely got out with score B of accumulative semesters.

But then recently I came to also realize that there is a field that gets in touch with both biological side and programming side, this is where I am stuck at.

All I want is to help our world become much easier to be in and live happily, I am not a programmer, I am not anything special yet. However my goal is to become something, someone that will change this world.

Every time I ask someone about bioinformatics, they either say

(A)you can either be a biologist mainly with some programming knowledge to help you process the data "This has a flaw !"

I haven't done a practical thing other than stand in labs and do some pi-petting to detect some enzymes, I don't know what type of biological data I would work on and to detect what exactly, so I feel super lost !

(B) You can do software to assist biologists "Sounds cool but not the way I really wanted to live my dream"

Also it is flawed for me in a way because they say you have to be an experienced programmer as for example a graduate from a computer science field, Which I am not and my experience if there will be any in the future will be 1-2 programming language, I am still scared to start... I am afraid that I will get stuck again.

Now both A and B doesn't seem like they would lead me to my goal, or anywhere close to it... so before I start asking questions and end this topic from my side Here are some things you need to know about me.

  1. I have self taught my self English. "So this large text wouldn't be here if we are talking about Egyptian Education, I know it's not perfect but it is good enough That I got to use my language to work for multiple companies from Egypt here like : Vodafone UK and Ring company that sell security cams"

  2. I am a very stubborn and determined person, If I just come to realize I want something, I would push my self to it everyday because I just don't accept not getting what I want ! That's why I am here, because I want something but I don't know where to start my path in it !

  3. I know I look skill less and so on, but if you were to just help me... a little bit of guidance, Iam sure I will appear to be something. (I have tried E-mailing multiple people to assist me or guide, none of them agreed... I even tried contacting MIT where Professor Eric lander taught his courses on Edx, no luck. I tried the professors in my university, but they are more interested in working with students from abroad with actual education than me... "

  4. I don't want spoon feeding, I want guidance and answers, I will do the digging... just point out on where !

  5. One of the main reasons I am picking bioinformatics, It requires very little to no wet lab, because that is very expensive in Egypt if any was to be found, Besides I am really interested in programming, I even started an Excel course from Microsoft and got my certificate at 95% score, I just love stuff like Excel "I know Excel doesn't relate much to actual programming", where analyzing data,Understanding what is underlying there and figuring out a way to fix it !... That's how I generally love to work !

  6. I am with very limited time, I have 4 semesters left, Then I will have to join an obligatory military service (1-3 years) and I am 20 years old soon at next Jan to be 21.

My options are either (A)

I continue my 4 semesters with both good grades at university and side studying bioinformatics.

OR (B) I find my self a scholarship where I can repeat all semesters but in a place that would guide me right and prepare me truly to the working environment.

OR (C) Same as (A)but I would find my self side projects to work on while studying, and right after the obligatory military service I would just bump out to do my master's and so on !... I am still planning to continue studying either way as a researcher mainly.

NOTE : ( I was accepted in Turkish scholarship2018 fully funded, But the university was in Samsun had a worse education than Cairo "That's what my Turkish friends told me.", So I felt like It's not worth repeating a full year for the same level of education and also in Turkish.. Which is not the language I would want to study in.")

Now my questions "I really appreciate whomever is still reading all of this !"

  1. After reading all of this, do you still think Bioinformatics can help me achieve my goal if so then How ?

  2. After reading all of this, where do you think I should start ? "I will put some links where one of the professors thought it's a good idea to start (For anyone, not me specifically! Which sounds odd, maybe it's not the best for me to start, as I mentioned above I have very limited time, No place to add something that wouldn't benefit me in anyway"

  3. https://www.coursera.org/specializations/genomic-data-science?ranMID=40328&ranEAID=mRETjYz*mIw&ranSiteID=mRETjYz.mIw-cSkOe8kEvUlzng8yXLxJJg&siteID=mRETjYz.mIw-cSkOe8kEvUlzng8yXLxJJg&utm_content=2&utm_medium=partners&utm_source=linkshare&utm_campaign=mRETjYz*mIw

https://www.coursera.org/specializations/bioinformatics?ranMID=40328&ranEAID=mRETjYz*mIw&ranSiteID=mRETjYz.mIw-MiGHStCIh1tiQrJsRynSvQ&siteID=mRETjYz.mIw-MiGHStCIh1tiQrJsRynSvQ&utm_content=2&utm_medium=partners&utm_source=linkshare&utm_campaign=mRETjYz*mIw

​

  1. Talk to me, tell me what you think generally ! and What would you do if you were me.

LAST QUESTION : Do you think I can change the world from Agricultural biotechnology + Bioinformatics ? If so how would I change my goal ? " we study genetics, Microbiology, Biochemistry in details with examples on plants"

Final Note : I am currently trying to apply to Holland Korean Universities maybe I can repeat it all somewhere else, with just a better shot.

All will change depending on just an answer that can guide me !

Thank you !

r/biology • post
7 points • SeeStolenVideos
What course would be best to take?

I'm a biotech student trying to learn some programming to help me stand out to employers. Does anyone have any advice on which of these two courses would be better to take if I was trying to get into the programming aspect of the biotech field? Would it be better to go for a broader course before trying to get into the specifics of the field or should I just go for the directly applicable course? Thank you!

https://www.coursera.org/specializations/data-analysis?action=enroll

https://www.coursera.org/specializations/genomic-data-science

r/bioinformatics • comment
2 points • lost_monkey21

I found Genomic Data Science specialization offered by John's Hopkins University in Coursera very helpful. You can audit the courses as well. Especially the course #5 deals with next gen sequencing data which is what you're looking for! https://www.coursera.org/specializations/genomic-data-science

r/biotechnology • post
5 points • Procrastinationmon
Which course would be the best to take? [xpost r/biology and r/datascience]

I'm a biotech student trying to learn some programming to help me stand out to employers. Does anyone have any advice on which of these two courses would be better to take if I was trying to get into the programming aspect of the biotech field? Would it be better to go for a broader course before trying to get into the specifics of the field or should I just go for the directly applicable course? Thank you! https://www.coursera.org/specializations/data-analysis?action=enroll https://www.coursera.org/specializations/genomic-data-science

r/biology • comment
4 points • N9n

John Hopkins offers an excellent Genomic Data Science course through Coursera that covers R, python, command line, bioconductor, and other stats in the context of genomics. It's a great starting point for learning these tools, but it does cost something like $50 per month and they say it takes about 7 months to finish (the person I know who completed it took longer). You can bargain down the subscription cost on the grounds of being a student. I'm not affiliated with them in any way :)

https://www.coursera.org/specializations/genomic-data-science

r/genetics • post
8 points • CrimsonCuntCloth
Recommendations for free MOOC on genetics please?

Hi,

I'm currently studying for a masters in computer science, and have recently developed an interest in genetics. I don't have much of a background in either biology or chemistry, but enjoy learning :)

Are there any MOOCs that are broadly recommended by the genetics community?

I am currently considering starting with one of:

Genomics: Decoding the Universal Language of Life

Introduction to Genetics and Evolution

...and then possibly following with:

Become a next generation sequencing data scientist

...Or a selection from

Genomic Data Science Specialization (John Hopkins Uni)

Can anyone share their experiences with these, or other genetics MOOCs? Any other courses or learning resource recommendations would also be much appreciated!

Thanks :)

r/science • post
1 points • internetdigitalentre
Genomic Data Science Specialization from Johns Hopkins School of Medicine
r/PharmacoGenomics • post
1 points • The_Curb_Nation
Coursera Is Offering A Genomic Data Science Course
r/bioinformatics • comment
1 points • ActualConflict

https://www.coursera.org/specializations/genomic-data-science?= It is a long program (approximately 7 months) and has everything in it( for a beginner) But I am more willing to do some research so want to focus more on projects and stuff.

r/biology • post
2 points • Procrastinationmon
What course would be best to take?

I'm a biotech student trying to learn some programming to help me stand out to employers. Does anyone have any advice on which of these two courses would be better to take if I was trying to get into the programming aspect of the biotech field? Would it be better to go for a broader course before trying to get into the specifics of the field or should I just go for the directly applicable course? Thank you!

https://www.coursera.org/specializations/data-analysis?action=enroll

https://www.coursera.org/specializations/genomic-data-science

r/bioinformatics • comment
1 points • erictleung

That's understandable. I can't say much as I'm still a student. But if its worth anything, the program I'm in doesn't have an online part for its Masters bioinformatics program. I imaginge this it because the topic is so multidisciplinary that it helps to have an on-compus learning experience. So unfortunately, I figure this might be similar to other programs around the country. There may be great online bioinformatics programs I'm not aware of.

If you're looking for cost-effective ways of gaining knowledge, you could consider taking the Genomic Data Science Specialization on Coursera. You can audit the individual courses for free.

A quick Google search does show that Johns Hopkins (the same institution that teaches that specialization I linked above) has a 100% online bioinformatics program.

r/datascience • post
1 points • Procrastinationmon
Which course would be best to take? [xpost r/biology and r/biotechnology]

I'm a biotech student trying to learn some programming to help me stand out to employers. Does anyone have any advice on which of these two courses would be better to take if I was trying to get into the programming aspect of the biotech field? Would it be better to go for a broader course before trying to get into the specifics of the field or should I just go for the directly applicable course? Thank you! https://www.coursera.org/specializations/data-analysis?action=enroll https://www.coursera.org/specializations/genomic-data-science

r/findapath • comment
5 points • proozywoozy

Let's see how you can connect your interests to your degree:

  • genetics - goes without saying
  • medicine - goes without saying
  • learning languages - nope, keep this as a hobby
  • geography - spatial epidemiology? Quite a narrow field, requiring statistical knowledge and coding skills. Other than that, environmental science, ecology, possibly geology..?
  • math - yes - depending on how inclined on math you are, as some fields of biology are very math-heavy. However, I believe such fields of study consist of mathematicians entering the field of biology rather than biologists entering the field of mathematics. They're also very academical/theoretical.
  • coding - absolutely - and it's becoming an in-demand skill for biologists!

Why not bioinformatics? You like to code and you have your degree, it might be the best way to use the knowledge you already have. It also pays quite well, especially compared to other Biology jobs. You can probably easily go for an MSc in bioinformatics, but to give you a taste in order to decide here's some (carefully structured :)) advice:

  • Learn some Python if you haven't (Codecademy is really not enough, and I can recommend the following books as they'll all give you plenty of practice and practical knowledge: Introduction to Programming Using Python (try to solve as many exercises as you can), Dive Into Python and Automate the Boring Stuff With Python in that order.)

  • Learn how to use Jupyter notebooks as well (free, easy, popular and useful tool to code in - all you need to begin is here). You can do this as step one and use it to solve book exercises in.

  • Practice a bit on Codewars - even when you know how to solve some problem, you will improve much faster if you inspect other people's code and learn from them.

  • This is where the real fun begins - try and solve some Rosalind problems, see if you like it.

  • If you do like it, there's an entire series of Bioinformatics and Genomic Data Science courses on Coursera to give you a taste of the "real" stuff.

Here's some more advice from people in the field: https://www.biostars.org/p/188038/ (the op is considering switching fields, but you might find something useful to yourself)

Even if you find you don't like bioinformatics you'll end up with enhanced programming skills which will likely be a plus in whatever other career path you choose.

r/bioinformatics • post
1 points • mam288
Thoughts on switching from Biology to Bioinformatics

I'm looking to get some thoughts on what it would take for me to switch fields. I have been away from science for 6-7 years and am considering going back to school for Bioinformatics. I have a Ph.D. in Genetics and limited programming experience (some online courses in Java, a couple basic CS courses years ago in undergrad). My question is, what would I need in order to get hired for a bioinformatics job? My options are: 1) Master's Degree in Bioinformatics from a local University (North Carolina State University) 2) Online Master's Degree (Johns Hopkins, NYU, Brandeis, etc) 3) Cousera Specialization (https://www.coursera.org/specializations/bioinformatics?utm_medium=courseDescripTop, https://www.coursera.org/specializations/genomic-data-science, https://www.coursera.org/specializations/systems-biology)

Of course, a Master's Degree would be ideal but they are pricey and a full-time program would be difficult for my family (I have 2 young kids) as for 2 years I would not be bringing in any income and would be paying tuition. I could potentially work part time at least if I did an online Master's but I'm not sure if they hold the same amount of weight? The Coursera Specialization would be the easiest from a logistics perspective but I don't know if it would hold enough weight when applying for jobs to be worth the time investment. Does anybody have any thoughts on this?

Thanks in advance for any advice!!

r/genomics • post
3 points • paarulakan
need help choosing

Hi I am an engineer who mostly works with machine learning. I want to develop domain expertise and biology has been always my love(why I am an engineer, circumstances). I want to take course as a starting point. There seems to lot of overlapping between the courses. I want to learn core ideas and processes of biological aspects mainly as opposed to computational aspects.

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Genomic Data Science Specialization[1]

Bioinformatics Specialization[2]

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[1] https://www.coursera.org/specializations/genomic-data-science#courses

[2] https://www.coursera.org/specializations/bioinformatics#courses

r/IWantToLearn • comment
1 points • AnEntire

You sound exactly like me. 24, similar interests, and didn't learn jack in college, except I went to a business school so that's a given.

Harvard, Johns Hopkins, and MIT are at the forefront of these fields, imo. Harvard has a good series on Data Analysis for Life Science that I'm taking ( https://www.edx.org/professional-certificate/harvardx-data-analysis-for-life-sciences), and I know MIT has a lot on edX and ocw.mit.edu. Here's a class specifically for synthetic biology: https://www.edx.org/course/principles-of-synthetic-biology

Haven't taken that one yet, but I liked the lectures for their Business of Biotech class.

And JHU's Genomics series: https://www.coursera.org/specializations/genomic-data-science

JHU also has a lot of online Master's programs. I don't know how good that'd be for doing the hands-on engineering or fabrication, though.

For AI, deeplearning.ai's Coursera series is considered the best place to start: https://www.coursera.org/specializations/deep-learning

I have a library of textbooks and MOOCs that I finally have time to go through, so hopefully this is helpful. Wish you great luck. Once you figure the applied side of things, I hope you can share that wisdom with me.

r/learnbioinformatics • comment
1 points • ElephantSpirit

https://www.biostarhandbook.com/ (Not free but worth the money, good for beginners and intermediates)

Coursera:

https://www.coursera.org/specializations/bioinformatics (more algorithmic, comp sci approach, this might be what you're most interested in)

https://www.coursera.org/learn/bioinformatics-methods-1 Very beginner level

https://www.coursera.org/learn/bioinformatics-methods-2

https://www.coursera.org/specializations/genomic-data-science (intermediate level, not the best instruction for beginners)

Edx:

https://www.edx.org/micromasters/bioinformatics (I can't comment much about it, haven't looked at material)

Other:

https://software.broadinstitute.org/gatk/ This is from the Broad, and gives an idea of current best practices in clinical bioinformatic analysis.

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Good luck!

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