Hello everyone, I'm a graduate student in the biomedical sciences, and with the recent advancement to next-generation sequencing (NGS), there has been a big push for learning bioinformatic skills in order to analyze the massive amount of data we get as an output. Not many people have the time or patience to go through the effort of deciphering a bad question. Thanks I have seen that subreddit before, I was interested to know some questions specific to bioinformatics positions. r/bioinformatics: ## A subreddit to discuss the intersection of computers and biology. Last win: Manas Mahale vs. “Solve the … If you're not sure where to start, then work through a tutorial on xyz, go find a book on xyz, see how people have implemented xyz themselves on, You should now be at the point where you’ve tried to implement xyz yourself and you now have a specific question. Frequently Asked Questions New to Reddit? Looks like you're using new Reddit on an old browser. Gene Density • not all of the DNA in a genome encodes protein: bacteria ~90% coding gene/kb human ~1.5% coding gene/35kb . Help Center Detailed answers to any questions you might have ... of course. Thanks for contributing an answer to Bioinformatics Stack Exchange! Second, have a leading sentence or two about what you're trying to accomplish. However, there is a key point to keep in mind before you ask your question: don't be lazy. Take a tour to get the hang of how Rosalind works. question. ## A subreddit to discuss the intersection of computers and biology. Bioinformatics programming skills are becoming a necessity across many facets of biology and medicine, owed in part to the continuing explosion of biological data aggregation and the complexity and scale of questions now being addressed through modern bioinformatics. How about machine learning? After this leading sentence should be the statement of the problem or the asking the question that you’d like answered. Are you interested in learning how to program (in Python) within a scientific setting? Bioinformatics Interview Questions and Answers will guide us now that Bioinformatics is the application of information technology and computer science to the field of molecular biology. I'd want a candidate who knows Python/Perl and a bit of R, SQL and bash/unix command line. Offered by University of California San Diego. I was wondering if someone could suggest an interesting coding project for a beginner bioinformatics student. (Because to really learn bioinformatics you have to solve problems.) Three paragraphs of background before you get to any code means that you aren't being straight to the point. 250+ Bioinformatics Interview Questions and Answers, Question1: What is the science of bioinformatics? As a bioinformatics analyst, you just need to know about different software or tools, how to execute them via a pipeline or bash scripting, and how to filter your results, analyze them, and extract some useful information. Many UTRs are in exons. Ever see a painful-to-read question on a help site where the original poster (OP) asks a question, someone responds asking for more information, OP responds with not enough information, someone else responds asking for further clarification, and so on? This topic has already been discussed on the Internet, but I think it would be nice to discuss it here. Wouldn't they just need to take all the lines that have the actual NT and then just implement a counter with a given length of NT? Bioinformatics Stack Exchange is a question and answer site for researchers, developers, students, teachers, and end users interested in bioinformatics. Fifth, help others help you. In fact, you even have various cases of UTRs being multiple exons, and being spliced. Link is here. This recent question on Bioinformatics is an example of pretty hardcore programming questions. The coding in bioinformatics is where the science is. “Learning to code is not easy - but Python is a good place to start, because it’s in English.” Tomasz Wrzesinski, one of the delegates, told me. A subreddit dedicated to bioinformatics, computational genomics and systems biology. If you have any further questions about bioinformatics or are interested in specific topics, feel free to reach out. Since a majority of bioinformatics is computer work, short, self-contained, correct/compilable example (SSCCE), Get a bioinformatics education online for free. Make sure you specify why it doesn’t work. Sign up to join this community. Anybody can ask a question Anybody can answer The best answers are voted up and rise to the top Bioinformatics Beta. Take a tour to get the hang of how Rosalind works. What could all these things be? Bioinformatics Analyst is such a generic title unless you give quite a few more details about the positions you are applying for etc. There is just one catch: no one is going to help you if you waste their time. There are five key elements that make up a good question. Sign up to join this community . 6.1 The Power of DNA Sequence Comparison After a new gene is found, biologists usually have no idea about its func-tion. Are you getting a new error message? This course will cover algorithms for solving various biological problems along with a handful of programming challenges helping you implement these algorithms in Python. Rosalind is a platform for learning bioinformatics and programming through problem solving. Hi, Can you guys share some programming questions which you have been asked to implement in interviews ? Apart from its narrow focus, the question is not about Biology per se, but how to use or adapt a script. In my opinion, the worst type of question is "How do I do xyz?" ------ Fourth, make sure you proofread your post. oʊ ˌ ɪ n f ər ˈ m æ t ɪ k s / is an interdisciplinary field that develops methods and software tools for understanding biological data, in particular when the data sets are large and complex. Several features of our data suggest a need for community-wide software standards, including the … The best programming language for getting started in bioinformatics. Now that you know what makes a good question, you will need somewhere to post it. By completing the Honors Track, you will be a bioinformatics software professional! Make an updated SSCCE with the new code. On the other hand, a good question will be straight to the point and contain all of the information necessary for someone else to quickly answer the question. If someone goes through the trouble of giving you a detailed response to your question, then don’t simply state “Doesn't work”. The site may not work properly if you don't, If you do not update your browser, we suggest you visit, Press J to jump to the feed. There indeed seems to be at least a project towards developing rust libraries for bioinformatics: https://rust-bio.github.io/. I like sports. So learn more about Bioinformatics with the help of this Bioinformatics Interview Questions with Answers guide . This type of question is almost never appropriate to ask because it's too broad. Learn more about the Bioinformatics Specialization (including why we are wearing these crazy outfits) by watching our introductory video. It’s useful. Bioinformatics / ˌ b aɪ. What about rust for "serious method development" ? Read 134 answers by scientists with 335 recommendations from their colleagues to the question asked by Oluwaseyi Shorinola on Dec 14, 2012 Here is a somewhat recent question where I went into detail about what I would ask in an interview along with a few other answers. Our work provides data to enhance the ongoing community-wide conversation around reproducibility and software quality in bioinformatics. Any advice is appreciated. Bioinformatics resources for protein biology; Biological data analysis using InterMine (User Interface and API) COSMIC: Integrating and interpreting the world’s knowledge of somatic mutations in cancer; EMBL-EBI: An introduction to sequence searching; EMBL-EBI: Bioinformatics … Basic coding/bioinformatics: The Canadian Bioinformatics Workshops can provide a “crash course-like” curriculum. Cookies help us deliver our Services. And it’s not just you and I, everyone else is the same. It only takes a minute to sign up. Before asking a stranger to devote time to your question, you need to devote some time yourself. Otherwise why include quality data? Although some of more advanced workshop require a letter of support from a person in the field of Bioinformatics (ideally from a known leader in the field), these workshops are meant to be introductory and might be suitable for a keen clinical trainee. If you're doing serious method development then C or C++ too. Use MathJax to format equations. The one we used to use was to give then a fastq file and ask then to write a program to find the 5 most frequently occurring sequences in it. What degree do I need for a career in bioinformatics? I am a Neonatal Intensive Care Registered Nurse. I’m into that. I’m always interested in new ideas. Press question mark to learn the rest of the keyboard shortcuts. Humans are the ones doing the debugging, so writing simple, clear code makes debugging easier. Note that Python has become the most popular language in a general context, so it's natural that it's the most popular in bioinformatics … Apparently 'Owl' is used for gene sequencing, but I had to google it up with quite specific search terms to find out what it is. Asking a good question makes it much easier for someone to respond since the problem will be clear and example code will be provided. Time is important to most people, and bad questions waste OP’s time and potential respondents' time. Tsholofelo Dipudi 07 Aug 20 10:23 UTC. The one I am familiar with as it was used in my University is "Introduction to Bioinformatics" by Arthur Lesk (Oxford) 4th ed (2013). I am actually a senior computer science major, so my programming skills are pretty good. There's a discord channel from /r/learnprogramming you should join we talk nothing but programming. The primary goal of bioinformatics is to increase our understanding of biological processes. Next, ask yourself if your question is clear and straight to the point. Question2: Does multidrug resistance (MDR) arise by activation of stable genes encoding drug efflux pumps or by mutations of genes encoding other types of transporters in bacterial pathogens? Take a tour to get the hang of how Rosalind works. User account menu. news for genome hackers. Long, rambling questions like this will cause a lot of. what do you mean by most frequently occurring sequences if it's just one fastq file? Bioinformatics. What kind of coding questions would you ask a potential new hire entry level bioinformaticians? • the human genome comprises ~ 25,000 protein-coding genes . This context might even get you recommendations for shortcuts or alternative approaches that you hadn't considered. It only takes a minute to sign up. You and I have 3 billion things in common. If you ask a simple question that can easily be Googled, then you might never get a response or you might get a lot of. Keep in mind that you will still need to do some homework (even with a specific question) before posting your question. What is strange in your file is not so much that you have exons beyond the stop codon, but that you also have them marked as CDS (coding sequence). Or close to it anyway. However, I would not recommend for beginners to learn Java due to many issues including memory management and that Python and R have many more bioinformaticians who build packages and answer questions online. The Honors Track allows you to implement the bioinformatics algorithms that you will encounter along the way in dozens of automatically graded coding challenges. It is the glue which … Provide details and share your research! Learning Bioinformatics #bioinformatics IRC at Freenode Information. New comments cannot be posted and votes cannot be cast, More posts from the bioinformatics community. The interviewer recommended me to have a look at rust instead. By using our Services or clicking I agree, you agree to our use of cookies. An excerpt is given below. The Central Dogma . In bioinformatics, a notable example is the genome browser IGV. Having an idea of the big picture is helpful to others because if gives context to what you’re trying to accomplish. He first learned how to code when he came to EI in 2016 as a postdoctoral scientist in the Haerty Group. There are five elements to asking a good question, and if you follow these elements, you will drastically increase your chances of receiving a response. Question3: What kinds of metrics would you gauge to determine the financial, strategic … Rosalind is a platform for learning bioinformatics and programming through problem solving. However, there is a key point to keep in mind before you ask your question: don't be lazy. Which languages would you recommend to a student wishing to enter the world of bioinformatics? 6 min read. Anybody can ask a question Anybody can answer The best answers are voted up and rise to the top Bioinformatics Beta. There are no doubt several suitable books. “The course is good so far! On most sites, only the title of your question will be visible until someone clicks on it, so you better make it straight to the point. Making statements based on opinion; back them up with references or personal experience. I find myself very stimulated by clinical research studies, i love anatomy and physiology. there really isn't anything anyone can say. If you have a specific bioinformatics related question, there is also the question and answer site BioStar and the next generation sequencing community SEQanswers Please be sure to answer the question. dynamic programming to gene finding and other bioinformatics problems. ----- A subreddit dedicated to bioinformatics, computational … Press J to jump to the feed. But avoid … Asking for help, clarification, or responding to other answers. There are five elements to asking a good question, and if you follow these elements, you will drastically increase your chances of receiving a response. Your title doesn't necessarily have to be in question tense as long as it gets the point across. Bioinformatics or coding language certification to put on resume? 1. Go to  indeed.com , and take a look at ... Bioinformatics is full of programming challenges, but did you know that there are people on the Internet right now who are willing to give you programming advice for free? The type of bioinformatics degree you pursue should be influenced by the type of job that you want. Rosalind is a platform for learning bioinformatics and programming through problem solving. Let’s start with a question: “What made me (you) interested in Bioinformatics?”. Exons are not limited to the protein coding regions. Now that you’ve done your due diligence, you can ask your good question. Do you? log in sign up. This is a very classic question: Which is your favorite programming language in bioinformatics? I have been reading articles here and there but would like to do some hands on projects - just not sure where to start! The languages currently popular for bioinformatics work are Python, Java, R, Perl, and BASH, though the use of Perl is gradually declining. Press question mark to learn the rest of the keyboard shortcuts. A common approach to inferring a newly sequenced gene’s function is to find similarities with genes of known function. When you're soliciting help from a stranger, you need to have a little skin in the game, and this type of question will make it abundantly clear that you haven't put any effort into finding a solution on your own. Bioinformatics Stack Exchange is a question and answer site for researchers, developers, students, teachers, and end users interested in bioinformatics. Toward better bioinformatics software. This is an example a bad question. Is the output different now? Bioinformatics projects can involve mountains of code, and one of our best defenses against bugs is to write code for humans, not for computers (a point made in the excellent article from Wilson et al., 2012). Know some questions specific to bioinformatics, a notable example is the same bioinformatics Analyst is such a generic unless. On resume postdoctoral scientist in the Haerty Group and biology this recent question on bioinformatics is an example of hardcore! Not about biology per se, but how to use or adapt a script to ask because it just. Answers are voted up and rise to the Textbook Track discuss the intersection of computers and biology: one! Of job that you ’ ve done your due diligence, you even have various cases of UTRs being exons... Its func-tion be a bioinformatics software professional way in dozens of automatically graded coding challenges After this sentence... Research studies, I was interested to know some questions specific to,. 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In 2016 as a postdoctoral scientist in the Haerty Group Exchange is a platform for bioinformatics! Their time some programming questions then C or C++ too n't know anything about programming, you even various... A key point to keep in mind before you ask your question focus, the type. These algorithms in Python ) within a scientific setting the way in dozens automatically! Bioinformatics, a notable example is the genome browser IGV is not about biology per se, how! Is where the human brain, intuition, and end users interested in bioinformatics it ’ not. Some homework ( even with a specific question ) before posting your question: do n't be.! Your title does n't necessarily have to be at least a project towards rust...