The Department of Quantitative and Computational Biology offers a PhD in Computational Biology and Bioinformatics. The PhD in Computational Biology and Bioinformatics is awarded in conformity with the general requirements of the USC Graduate School. Study in the Computational Biology and Bioinformatics PhD program emphasizes original research that culminates in a doctoral dissertation. A separately published guide, available from the Department of Quantitative and Computational Biology, provides additional information on the topics listed below, along with other program policies. Application deadline: December 15 Course Requirements Students in the Computational Biology and Bioinformatics PhD program take graduate courses that cover topics from biology, computer science, mathematics, statistics and other disciplines. These courses guarantee a broad foundation in our field, and ensure students have sufficient scientific background and intellectual tools for success in research. A list of required courses can be found at the bottom of this page. Screening Procedure As per Graduate School requirements, all students in the Computational Biology and Bioinformatics PhD program undergo a screening procedure. This procedure consists of written tests taken by each cohort before the end of their first year. Advisement Each student in the Computational Biology and Bioinformatics PhD program is assigned an academic adviser from among the Department of Quantitative and Computational Biology’s faculty. This person will act as the student’s dissertation committee chair. Advisers are determined by the end of the first year based on shared research interests with the student. The primary role of the adviser is to guide the student as they work towards their dissertation. Qualifying Examination Students must pass a qualifying examination to advance to candidacy in the Computational Biology and Bioinformatics PhD program. The qualifying exam consists of a written part and an oral part. Both parts are evaluated by a faculty qualifying committee, which is formed separately for each student and is led by the student’s dissertation chair. Dissertation After advancing to candidacy, each student forms a faculty dissertation committee. Students work toward their dissertation research under the guidance of their adviser and with input from their dissertation committee. The dissertation committee meets annually to ensure appropriate degree progress. The central requirement of the doctorate is a dissertation based on the student’s original research that makes a substantial advance to scientific knowledge or technical capability in our field.
Required Courses (30 units)
BISC 593 Practicum in Teaching the Biological Sciences Units: 2
CSCI 570 Analysis of Algorithms Units: 4
MATH 505a Applied Probability Units: 3
MATH 541a Introduction to Mathematical Statistics Units: 3
QBIO 502 Molecular Biology for Quantitative Scientists Units: 4
QBIO 542 Seminar in Computational Biology Units: 1 *
QBIO 547 Ethics and Professional Conduct in Computational Biology Units: 1
CSCI 596 Scientific Computing and Visualization Units: 4
CSCI 670x Advanced Analysis of Algorithms Units: 4
MATH 502a Numerical Analysis Units: 3
MATH 505b Applied Probability Units: 3
MATH 555a Partial Differential Equations Units: 3
MATH 565a Ordinary Differential Equations Units: 3
PHYS 516 Methods of Computational Physics Units: 3
PHYS 518 Thermodynamics and Statistical Mechanics Units: 3
Research and Dissertation (4 units minimum)
QBIO 794a Doctoral Dissertation Units: 2
QBIO 794b Doctoral Dissertation Units: 2
Students may register for additional units by using QBIO 790 or the remaining QBIO 794 courses.
PhD in Bioinformatics Data Science
A Ph.D. in Bioinformatics Data Science will train the next-generation of researchers and professionals who will play a key role in multi- and interdisciplinary teams, bridging life sciences and computational sciences. Students will receive training in experimental, computational and mathematical disciplines through their coursework and research. Students who complete this degree will be able to generate and analyze experimental data for biomedical research as well as develop physical or computational models of the molecular components that drive the behavior of the biological system.
Students must complete a minimum of 15 hours of coursework, plus 3 credit hours of seminar, 6 credit hours of research and 9 credit hours of doctoral dissertation. The Ph.D. requires a minimum of 33 credits. Students who are admitted directly after a B.S. degree will be required to complete up to 9 additional credits in order to fulfill the core curriculum in the following areas: Database Systems, Statistics, and Introduction to Discipline. In addition, if students entering the program with an M.S. degree are lacking equivalent prerequisites, they also will be required to complete courses in these three areas; however, these courses may fulfill the elective requirement in the Ph.D. program, if approved in the program of study.
(31 Credit Hours Total)
Core and Elective Courses (15 - 24 Credits)
Bioinformatics Data Science Core
9 Credits
Prerequisites - Direct Admit Students
3-9 Credits
Electives
6 Credits
Seminar and Research (18 Credits)
Seminar (6 semesters)
3 Credits
Research
6 Credits
Doctoral Dissertation
9 Credits
Academic Load
PhD students holding research assistantships (or teaching) are considered full-time with 6 credit hours . Students without RA or TA are considered full-time if enrolled in at least 9 credit hours or in sustaining credit. Those enrolled for fewer than 9 credit hours are considered part-time students. Generally, a maximum load is 12 graduate credit hours; however, additional credit hours may be taken with the approval of the student’s adviser and the Graduate College. A maximum course load in either summer or winter session is 7 credit hours. Permission must be obtained from the Graduate College to carry an overload in any session.
Bioinformatics Data Science Courses
Students must take one course in each of the following areas (9 credits):
Bioinformatics and Computational Biology Core (9 Credit Hours)
Bioinformatics [select one]
BINF644 Bioinformatics (3)
CISC636 Computational Biology and Bioinformatics
Data Science - Systems Biology [Select One]
BINF694 Systems Biology I (3)
BINF695 Computational Systems Biology (3)
Data Science - Data Analytics [select one]
NURS/HLTH844 Population Healthcare Informatics
CISC681 Introduction to Artificial Intelligence
CISC683 Introduction to Data Mining
CISC684 Introduction to Machine Learning
BINF610 Applied Machine Learning
BINF620 Big Data Analytics in Healthcare
Prerequisites
Students must fulfill core curriculum in each of the following areas (3-9 credits):
Prerequisites (3 - 9 Credit Hours)
Database [select one]
BINF640 Databases for Bioinformatics (3)
CISC637 Database Systems (3)
Biostatistics [select one]
STAT656 Biostatistics (3)
STAT611 Regression Analysis (3)
Intro to Discipline [select one]
Computational Sciences Concentration
BISC609 Molecular Biology of the Cell (3)
BISC654 Biochemical Genetics (3)
PLSC636 Plant Genes and Genomes (3)
Life Science Concentration
BINF690: Programming for Bioinformatics (3)
Elective Courses
Students must take two courses to compliment their bioinformatics data science dissertation project (6 credits):
See Elective courses
Students must take six semesters of seminar (three 0 credit; three 1 credit) and give a presentation during three semesters.
Seminars (3 Credit Hours)
Seminar
BINF 865 Seminar (0-1)
Other Requirements:
Formation of Graduate Dissertation Committee
Successful completion of Graduate Preliminary Exam
Research on a significant scientific problem
Successful completion of Ph.D. Candidacy Exam
Successful completion of Dissertation Defense
Formation of Graduate Committee
The student needs to establish a Dissertation Committee within the first year of study. The Committee should consist of at least four faculty members, including the primary faculty advisor (serving as the Committee Chair), a secondary faculty advisor (in a complementary field to the primary advisor), a second faculty from the home department, and one CBCB affiliate faculty outside the Departments of the primary and secondary advisors or from outside the University. Students must complete the Dissertation Committee Formation form and submit to the Associate Director.
Students should convene their dissertation committee at least once every six months.
Preliminary Examination
The preliminary examination should be taken before the end of the fourth semester and will consist of an oral exam in subjects based on the Bioinformatics Data Science core.* In recognition of the importance of the core curriculum in providing a good test of the student’s knowledge, students must achieve a minimum 3.0 GPA in the core curriculum before taking the preliminary exam. Students will not be permitted to take the preliminary examination if the core grade requirements and cumulative GPA of 3.0 has not been achieved. The exam will be administered by the Preliminary Exam Committee , which will consist of one instructor from each of the three core courses. Each member of the Committee will provide a single grade (pass, conditional pass or fail) and the final grades will be submitted via the Results of Preliminary Exam Form :
Pass . The student may proceed to the next stage of his/her degree training.
Conditional pass . In the event that the examination committee feels that the student did not have an adequate background or understanding in one or more specific areas, the Preliminary Exam Committee will communicate the conditional pass to the student and must provide the student with specific requirements and guidelines for completing the conditional pass. The student must inform the Preliminary Exam Committee, the Graduate Program Director and Program Committee when these conditions have been completed. The Preliminary Exam Committee will then meet with the student to ensure all recommendations have been completed and whether a re-examination is necessary. If required, the re-examination will be done using the same format and prior to the beginning of the next academic semester. If the student still does not perform satisfactorily on this re-examination, he/she will then be recommended to the Graduate Affairs Committee for dismissal from the graduate program.
Failure . This outcome would indicate that the Examination Committee considers the student incapable of completing degree training. The student’s academic progress will be reviewed by the Graduate Affairs Committee, who will make recommendations to the Program Director regarding the student’s enrollment status. The Program Director may recommend to the Graduate College that the student be dismissed from the Program immediately.
*Students who need to complete prerequisite courses may request a deadline extension for the preliminary and subsequently the candidacy examination. Requests must be submitted to the Graduate Program Committee prior to the start of the third semester.
Candidacy Exam
The candidacy examination must be completed by the end of the sixth semester of enrollment.* It requires a formal, detailed proposal be submitted to the Dissertation Committee and an oral defense of the student’s proposed research project. Upon the recommendation of the Dissertation Committee, the student may be admitted to candidacy for the Ph.D. degree. The stipulations for admission to doctoral candidacy are that the student has (i) completed one academic years of full-time graduate study in residence at the University of Delaware, (ii) completed all required courses with the exception of BINF865 and BINF969, (iii) passed the preliminary exams, (iv) demonstrated the ability to perform research, and (v) had a research project accepted by the Dissertation Committee. Within one week of the candidacy exam, complete and submit the Recommendation for Candidacy for Doctoral Degree form for details. A copy of the completed form should be given to the Associate Director.
*Students who need to complete prerequisite courses may request a deadline extension for the preliminary and subsequently the candidacy examination. Requests must be submitted to the Graduate Program Committee prior to the start of the third semester.
Dissertation Exam
The dissertation examination of the Ph.D. program will involve the approval of the written dissertation and an oral defense of the candidate’s dissertation. The written dissertation will be submitted to the Dissertation Committee and the CBCB office at least three weeks in advance of the oral defense date. The oral defense date will be publicly announced at least two weeks prior to the scheduled date. The oral presentation will be open to the public and all members of the Bioinformatics Data Science program. The Dissertation Committee will approve the candidate’s dissertation. The student and the primary faculty advisor will be responsible for making all corrections to the dissertation document and for meeting all Graduate College deadlines. Within one week of the dissertation defense, complete and submit the Certification of Doctoral Dissertation Defense Form. A copy of the completed form should be given to the Associate Director.
Thesis or Dissertation
Each graduate student in the program will work on a dissertation project under dual mentorship, consisting of a primary advisor who is Program Training Faculty, and a co-advisor who may or may not be Program Training Faculty, but must be from a different disciplinary area.
It is expected that the student will meet at least annually with the committee to update the members on his or her progress. As a partial fulfillment for the PhD degree, the student will submit a complete dissertation to be evaluated by a doctoral committee chosen by his or her mentors in consultation with the bioinformatics steering committee. The doctoral dissertation will be submitted to each member of the doctoral committee at least four weeks before the final examination. The student will defend his or her final thesis after the committee's evaluation and will pass or fail depending on the committee's decision.
PLEASE READ: FAQ on scheduling exams
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Bioinformatics Research Centre
Master's thesis in bioinformatics.
In the Master’s program in bioinformatics, you must do a 30 ECTS Master’s thesis. You must start your 30 ECTS thesis no later than February 1 (or September 1 ) a year and a half after commencement of your studies (i.e. February 2021 for students admitted in summer 2019, or September 2021 for students admitted in winter 2020). You must complete your thesis (including the exam) no later than June 30 the same year, if you started on February 1 (or January 31 the following year, if you started on September 1).
You can read the course description for the MSc thesis project at:
Before you start your thesis, you must make a thesis contract. The thesis contract must be completed and approved by January 15 (or August 15 ). You can read about how to submit the contract on the above www page. As part of the thesis contract, you must attach a pdf file containing project description, project goals, activity plan, and supervision plan. This is very much like what you have to describe for a Project in Bioinformatics. At BiRC, you should use the following template for this description.
Problem statement, activity plan, and supervision plan (in docx format)
When formulating the thesis project, you should keep in mind that it should cover 30 ECTS of work, i.e. full-time work for the entire semester and the following exam period. Group projects should of course cover this for every group member.
Choosing a topic
Before you can make a thesis contract, and commence your thesis work, you must (of course) chose a topic and a supervisor. The supervisor must be a tenured researcher associated to BiRC, but you can also have one or more co-supervisors.
When choosing a thesis topic, it is a good idea to think about the classes and projects that you have done during your Master’s studies, and what kind of work do you like? Contact potential supervisors as early as possible to discuss your wishes and ideas. Remember that you are always welcome to come by our offices and discuss. You can also ask potential supervisors for examples of thesis’s that they have supervised in order to get a better idea of how a thesis can look.
Also, we plan an information meeting for students that focus on thesis and project work every Fall. Below are the slides from the last such information meeting.
Slides from MSc info meeting (November 2023)
Ten simple rules for writing a great MSc thesis at BiRC (November 2022)
The slides also contain good advice about how to organize your thesis work. The above www page also contains some advice.
Group projects: It is possible to do the thesis project as a group project. Each group member must fill out individual contracts stating the other groups members. A group hand in a single thesis, but each group member is examined individually. In general, we very much encourage group assignments as it for many students is motivating to work together in a group, and to have group member to discuss and solve the many the details of a thesis project together with.
Projects involving external collaborators: It is possible to do a project that involves external collaboration, e.g. with people from industry, or from other university departments. Such collaborators will be associated to your thesis as co-supervisors. In the thesis contract, it is possible to indicate that the thesis project is done in collaboration with an industrial partner, if an NDA has been signed, and if the final thesis report must be made public available.
The thesis report presents the completed work and can be written in Danish or English. The report must contain an English summary/abstract. The summary/abstract is included in the assessment, and the assessment places emphasis on the academic content, as well as the student’s spelling and writing skills. The extent of the thesis report is agreed with the supervisor, but is typically about 50-60 pages excluding frontpage, table of content and appendices. If the MSc thesis is done as a group project provided, the report must be done in such a way that the group members can be assessed individually. This means that you can either (1) do a joint report in which everyone is equally responsible for all parts of the report, or (2) do a joint report, where it is stated (fx in the table of content) who of you has done the individual parts of the report and is responsible for them. See https://studerende.au.dk/en/studies/subject-portals/bioinformatics/masters-thesis/masters-thesis/ under "Group assignment" for details.
In your thesis contract, you state the hand in date. This can between June 1 and 15 (or January 1 and 15 ), earlier dates are also possible. The exact date is (of course) decided in collaboration with your supervisor. You hand in your thesis via Digital Exam (like you are used to for Projects in Bioinformatics).
The thesis exam is 60 min oral exam. It starts with a 30 min presentation from you about your thesis work followed by a 30 min discussion between you, the examiner (your supervisor), and an external examiner. Your presentation is based upon a question that you get from your supervisor one week before the exam. The exam must be held before June 30 (or January 31 ). In principle, the exam can be held from the day after you hand in your thesis. The exact date is decided upon by your supervisor, and often depends on the availability of external examiners. The final grade reflects an overall assessment of your report, your presentation, and your discussion.
If you have any questions about thesis work, then you are always welcome to ask!
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Proquest Dissertations and Theses Search US theses and dissertations. Accessed through OxLip+, search for 'dissertations and theses'.
Oxford Research Archive (ORA) Search for and download recent Oxford DPhil theses. Also contains an archive of articles, papers and research posters produced by academics and researchers at Oxford University. more... less... ORA is freely available and does not require a log-in.
EThOS Access to UK theses from the British Library [Currently unavailable]. more... less... To use this service you will be required to set up an individual account.
DART-Europe Search European E-theses.
Theses and Dissertations On-line
Electronic collections.
A number of recent theses and dissertations prepared at Oxford are available to download from the Oxford Research Archive (ORA) . The British Library provides access to UK theses through its EThOS service [currently unavailable]. Already digitised UK theses can be downloaded freely as PDF files. Requests can be made to digitise older theses, but there is a charge for this service and waiting time of 30 days for digitisation. The British Library no longer provides theses on microfilm.
Finding Oxford Theses
SOLO allows you to search for Theses in the Oxford collections.
1. Navigate to the SOLO homepage.
2. Click on the ' Advanced Search ' button
3. Click the ' Resource Type ' menu and choose the ' Theses ' option.
4. Type in the title or author of the thesis you are looking for and click the ' Search ' button.
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ORA: Oxford University Research Archive by Jason Partridge Last Updated Apr 10, 2024 3244 views this year
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## A subreddit to discuss the intersection of computers and biology. ------ A subreddit dedicated to bioinformatics, computational genomics and systems biology.
Help on how to decide masters thesis topic
I am doing my masters now and I have to submit a thesis for my program. I am not sure on what topic should I do on .
I have the following modules in my bioinfo masters: statistics, omics, machine learning and system biology.
1.Can I have some recommendation on topics which I can do my thesis on.(the topic must have programming aspect in it )
2. Does your thesis decide the job you could apply for later during the job search. for example : if I am doing my thesis on variant calling am I limited to apply for jobs related to that??
3.which fields are blooming in the industry (with respect to bioinfo) and what are the skills required to be trained for such a industry?
Any advices apart from these question would be appreciated.
Thanks in advance for the replies .
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2024 National LGBTQ Health Conference Held at Emory
Starting today, the 2024 National LGBTQ Health Conference will take place at Emory University, bringing together researchers, students, and thought leaders dedicated to advancing research and promoting public health practice in communities across the country. Chaired by Jodie Guest, PhD, professor of epidemiology, this is the second time the conference has been hosted at Emory. “I think it’s incredibly important to bring together people who do work; research; and clinical, policy and community work, to support LGBTQ health particularly at a time in our country when multiple states are working to limit gender-affirming care, when HIV rates are still so high in the Southeast, and when PrEP rates are still too low, though increasing thanks to programs like Travis Sanchez’s Together TakeMeHome project ,” Guest says. In her role as chair, Guest has led the vision for the conference’s speakers and topics, fundraising and grant support, the conference’s mentoring program and scholarships, and the pre-conference workshops being held at Rollins today (one where junior investigators meet with NIH program officers to help build successful research programs and an afternoon session on science implementation). The conference’s theme, Bridging Research and Practice, speaks to the importance of communicating research to individual communities, as well as Emory’s focus on interprofessional education through the Office of Interprofessional Education and Collaborative Practice (IPECP) at the Woodruff Health Sciences Center. Tickets are sold out for the in-demand conference, but Guest discusses a few of the major highlights, the continued need for LGBTQ public health research, and current research at Rollins.
Are you speaking at the conference? What other sessions are you looking forward to?
What types of professional development opportunities are featured at the conference, can you share a few major research projects happening at rollins in the lgbtq space either that will be featured at the conference or that you think people will be interested in learning about, how are we doing—public health as a whole—in terms of advancing lgbtq health where do we need to focus more efforts/resources, associated topics:.
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August 16, 2024
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Key biofuel-producing microalga believed to be a single species is actually three
by Ashley Vargo, Texas A&M University
When a global pandemic forced previous graduate student Devon Boland, Ph.D., out of the lab and onto the computer, he found a world of difference hidden in the long-studied species of Botryoccocus braunii—and discovered that it isn't one species at all, but three.
Botryococcus braunii was first discovered in the mid-1800s. Technically a plant, it undergoes photosynthesis and, most interestingly to researchers, produces high amounts of hydrocarbons that can be used as a renewable source of fuel.
It was previously believed to be a single species with three races: A, B and L, which each produce slightly different types of oils. But after uncovering a dramatic 20%–30% genetic difference between each race , a team of Texas A&M AgriLife researchers proposed a new classification—and completed any biologist's dream of naming species.
"As a graduate student, you read papers that all say the same thing, that this is a single species with three chemical races, and you internalize it," said Boland, first author of the study showing the genomic comparisons. "You start to think that must be right. No one has found otherwise, and all those scientists have had much longer careers than me—I'm just a kid.
"But I ended up getting to propose names for a species that were accepted for publication, which is something I never thought would happen."
Half necessity, half circumstance
Before coming to Texas A&M, Boland spent his undergraduate research working on "bread and butter" biochemistry research in areas like protein engineering. His graduate thesis was meant to center around the production process Botryococcus braunii uses to synthesize its unique hydrocarbons.
But when the COVID-19 pandemic hit, Boland was worried about losing time on his thesis and the possibility of it delaying his graduation.
In response, Tim Devarenne, Ph.D., associate head of undergraduate programs and associate professor in the Department of Biochemistry and Biophysics at the Texas A&M College of Agriculture and Life Sciences, suggested that Boland take the opportunity to dive into genetic data and bioinformatics.
"Having the genome of your organism of interest mapped out is always ideal in research because it allows you to more easily find genes and work to determine their functions," Devarenne said.
Another previous graduate student in the lab, Daniel Browne, had performed some sequencing and assembled the B race's genome. During one of Devarenne and Boland's weekly meetings, Devarenne proposed they try to do the same thing with the A and L race.
"It had a double benefit," Boland said. "We were able to do something that hadn't been done before, plus it could help us to better understand the hydrocarbon biosynthesis."
Though the races are practically indistinguishable under the microscope, Boland said there had been some debate on whether these were different species. They were interested to know whether a genomic study could shine light on the question.
Along with Devarenne, Boland and Browne, the research team included Ivette Cornejo Corona, Ph.D., postdoctoral researcher in Devarenne's lab; John Mullet, Ph.D., another researcher and professor in the Department of Biochemistry and Biophysics; Rebecca Murphy, Ph.D., a former graduate student in Mullet's lab; and a longtime collaborator on Botryococcus studies, Shigeru Okada, Ph.D., a professor at the University of Tokyo in Japan.
Genetic analysis
Even though Botryococcus is commonly studied for its hydrocarbon production, sequencing its genome has proven difficult.
Boland, now an assistant research scientist at the Texas A&M Institute for Genome Sciences and Society, said the thick, oily medium the cells live in makes extracting and isolating the DNA a challenge.
Nonetheless, the team was determined to analyze the genomes to see the similarity between the genes and proteins involved in each race's biofuel production processes.
But after piecing together the genomes and using the supercomputers at the Texas A&M High Performance Research Computing Center to run genomic comparisons, Boland said it became clear these organisms were not the same species.
"It was like everywhere we looked, things were different," he said.
In the end, the researchers said around 1 in every 5 genes were unique to each of the Botryococcus races. To put that 20% difference in perspective, the genetic difference between humans and chimpanzees, our closest evolutionary relative, is less than 2%.
After some further validations, Boland and Devarenne set out to reclassify the Botryococcus races. Boland said the team spent months workshopping different names.
They kept race B with its original name of Botryococcus braunii to preserve its history and renamed race A to Botryococcus alkenealis and race L to Botryococcus lycopadienor, which signify the type of hydrocarbons each produces.
What makes a species
In the recent past, biologists have given more weight to genes and genomes when it comes to classifying organisms.
But even with all the evidence for these Botryococcus algae to be considered separate species, Devarenne said what really makes a species is the general acceptance by the scientific community.
After publishing their study in PLOS ONE , Devarenne shared the team's findings with more than 100 other researchers who study the organisms in their own labs.
"How we define separate species might not change much with how these organisms are used in research," he said. "But it's important for the scientific understanding, how we think about the ways these organisms are related to each other and to all other species."
Boland said he and Devarenne published in an open-access journal so that other scientists could build off their work. The complete genomes of the species are also available on the National Center for Biotechnology Information website .
"It was important to us that the information was publicly available when it was ready to publish," he said. "Science is community driven. The ultimate goal is always to further our collective knowledge, and I think that's what we accomplished here."
Journal information: PLoS ONE
Provided by Texas A&M University
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A recent study has found that the interest of researchers in these topics plateaued over after the early 2000s [1]. Besides the above mentioned hot topics, the following topics are considered demanding in bioinformatics. Cloud computing, big data, Hadoop. Machine learning. Artificial intelligence.
BSc and MSc Thesis Subjects of the Bioinformatics Group
MSc thesis: In the Bioinformatics group, we offer a wide range of MSc thesis projects, from applied bioinformatics to computational method development. Here is a list of available MSc thesis projects.Besides the fact that these topics can be pursued for a MSc thesis, they can also be pursued as part of a Research Practice.. BSc thesis: As a BSc student you will work as an apprentice alongside ...
Frontiers in Bioinformatics
An innovative journal that provides a forum for new discoveries in bioinformatics. It focuses on how new tools and applications can bring insights to specific biological problems. ... Research Topics. Submission open The Application of Multi-omics Analysis in Translational Medicine. HaiHui Huang; Madhu Chetty; 210 views Submission open
PDF Bioinformatics Group
This project will assess whether AMGs generally evolve into distinct shorter versions of the bacterial gene and whether the transfer of metabolic genes from phages to bacteria is a prevalent phenomenon. To this end, publicly available genomes of phages and bacteria will be scanned for metabolic genes (Shaffer et al. 2020).
Bioinformatics Related Research Topics
Bioinformatics. Bioinformatics. Our Research Focus. Today's data sets are of such magnitude and complexity that advanced bioinformatics methods are essential to their integration, management and dissemination. Our bioinformatics work incorporates data from both mouse and human genetic and genomic research and provides the annotations and ...
Open thesis topics
Open thesis topics. Within our group we can offer various topics in the field of applied bioinformatics, high-throughput data analysis, genome and metagenome research as well as postgenomics and systems biology. Below you can find a list of suggested open topics for BSc and MSc theses and student projects.
PhD Theses
PhD Theses PhD students at the Bioinformatics Laboratory In Progress Lashgari, D. Kinetic maturation in the Germinal Center. University of Amsterdam, Amsterdam. Supported by AMC.
Dissertation Archive
All UNC Charlotte dissertations and theses can be found in ProQuest University of North Carolina at Charlotte. Dissertations of past Ph.D. students from the Bioinformatics program. 2017 Adam Price: Ph.D., Bioinformatics and Computational Biology Understanding Bias in Next-Generation Sequencing Technologies and Analyses Benika Hall: Ph.D., Bioinformatics and Computational BiologyConstructing ...
Theses
Theses. Thesis Preparation and Filing: Staff from the University Archives and the UCLA Graduate Division present information on University regulations governing manuscript preparation and completion of degree requirements. Students should plan to attend at least one quarter before they plan to file a thesis or dissertation.
Thesis topics
However, the bioinformatics analysis of cell communication from scRNA-seq data is a quite young and fast evolving research area, and much work has still to be done to improve the quality of current bioinformatics analyses. Theses on this topic will focus on developing computational models to infer cell-cell communication from sequencing count data.
Graduate Theses and Dissertations
Functional Data Analysis and its Application in Biomedical Research . Li, Haiou (Georgetown University, 2023) The objective of the dissertation is to develop new statistical methods for functional data analysis motivated by several biomedical research. In many applications with functional observations, the main goals of statistical ...
MS in Bioinformatics
The thesis track is designed for MS in Bioinformatics students who are interested in conducting research. This track is strongly advised if you may be interested in pursuing a PhD in the future. Researching and writing a master's thesis is an academically intensive process that takes the place of 8 credits of traditional coursework.
Computational Biology and Bioinformatics (PhD)
Study in the Computational Biology and Bioinformatics PhD program emphasizes original research that culminates in a doctoral dissertation. A separately published guide, available from the Department of Quantitative and Computational Biology, provides additional information on the topics listed below, along with other program policies.
PhD in Bioinformatics Data Science
The oral presentation will be open to the public and all members of the Bioinformatics Data Science program. The Dissertation Committee will approve the candidate's dissertation. The student and the primary faculty advisor will be responsible for making all corrections to the dissertation document and for meeting all Graduate College deadlines.
Thesis or Dissertation
The doctoral dissertation will be submitted to each member of the doctoral committee at least four weeks before the final examination. The student will defend his or her final thesis after the committee's evaluation and will pass or fail depending on the committee's decision. PLEASE READ: FAQ on scheduling exams. UCSD Writing Hub's services for ...
Master's Thesis in Bioinformatics
In the Master's program in bioinformatics, you must do a 30 ECTS Master's thesis. You must start your 30 ECTS thesis no later than February 1 (or September 1) a year and a half after commencement of your studies (i.e. February 2021 for students admitted in summer 2019, or September 2021 for students admitted in winter 2020).
PDF Thesis in Bioinformatics
Must be a graduate student in the Biomedical Sciences PhD Program, in the Bioinformatics Track, and must have approval of instructor/mentor to register for his/her section of the course. Students must take their Qualifying Exam before registering for the Thesis course. 1. Syllabus Template/Revised: July 31, 2019 Office of the Provost/University ...
PDF Bioinformatic analysis of next-generation sequencing data
Master`s Thesis Bioinformatics Masters Degree Programme, Institute of Biomedical Technology University of Tampere, Finland Tommi Rantapero May, 2012 . ii ACKNOWLEDGEMENTS This work has been done in the Genetic Predisposition to Prostate Cancer group lead by Prof. Johanna Schleutker in the Institute of Biomedical Technology, University of ...
Electronic Collections. A number of recent theses and dissertations prepared at Oxford are available to download from the Oxford Research Archive (ORA). The British Library provides access to UK theses through its EThOS service [currently unavailable]. Already digitised UK theses can be downloaded freely as PDF files.
This dissertation aims to design novel machine learning-based models to transform biomedical big data into valuable biological insights. The research presented in this dissertation focuses on three bioinformatics domains: splice junction classification, gene regulatory network reconstruction, and lesion detection in mammograms.
I'm a biotechnology student with interest in bioinformatics. To finish my bachelor's degree, I need to prepare a short thesis (about 15 pages long). Do you guys have any good idea that could fit in this quite small schema. I have some very basic knowledge on this field; I've worked in R (basic statistics) and I know basics of Python (I wouldn't ...
Thesis topic ideas!!! : r/learnbioinformatics
Thesis topic ideas!!! Hi all ! I completed my undergraduate degree in Btech. Bioinformatics this year (passed with 7/10 gpa). Now i am trying to apply for masters in computer science with specialisation in bioinformatics in canada , most of my desired colleges offer thesis based courses and even though i have a couple publications to my name but they were all in a group of 7-8 people so i dont ...
Help on how to decide masters thesis topic : r/bioinformatics
Help on how to decide masters thesis topic. academic. I am doing my masters now and I have to submit a thesis for my program. I am not sure on what topic should I do on . I have the following modules in my bioinfo masters: statistics, omics, machine learning and system biology. 1.Can I have some recommendation on topics which I can do my thesis ...
Upcoming Dissertation Defenses
Recent News. August 12, 2024 Upcoming Dissertation Defenses; August 12, 2024 DFCI Data Science Seminar - 8/13; August 12, 2024 Help Planning 2024 Data Adventure Day; August 12, 2024 HBC 'Upcoming Current Topics in Bioinformatics' Workshop - 8/21; August 12, 2024 2024 PQG Conference Earlybird Registration now open!; August 5, 2024 Du Bois Scholars Program Summer Research Presentations ...
2024 National LGBTQ Health Conference Held at Emory
In her role as chair, Guest has led the vision for the conference's speakers and topics, fundraising and grant support, the conference's mentoring program and scholarships, and the pre-conference workshops being held at Rollins today (one where junior investigators meet with NIH program officers to help build successful research programs ...
Schar School Adjunct Professor Lee Roberts is 'Teacher of Distinction'
Schar School of Policy and Government adjunct professor Lee Roberts was recognized as a 2024 Teacher of Distinction by George Mason University's Stearns Center for Teaching and Learning.Roberts, who is a U.S. Army strategic intelligence officer in his 17th year of active-duty service, is the first Schar School adjunct to receive the award since its inception 12 years ago.
Key biofuel-producing microalga believed to be a single species is
But when the COVID-19 pandemic hit, Boland was worried about losing time on his thesis and the possibility of it delaying his graduation. In response, Tim Devarenne, Ph.D., associate head of ...
IMAGES
COMMENTS
A recent study has found that the interest of researchers in these topics plateaued over after the early 2000s [1]. Besides the above mentioned hot topics, the following topics are considered demanding in bioinformatics. Cloud computing, big data, Hadoop. Machine learning. Artificial intelligence.
MSc thesis: In the Bioinformatics group, we offer a wide range of MSc thesis projects, from applied bioinformatics to computational method development. Here is a list of available MSc thesis projects.Besides the fact that these topics can be pursued for a MSc thesis, they can also be pursued as part of a Research Practice.. BSc thesis: As a BSc student you will work as an apprentice alongside ...
An innovative journal that provides a forum for new discoveries in bioinformatics. It focuses on how new tools and applications can bring insights to specific biological problems. ... Research Topics. Submission open The Application of Multi-omics Analysis in Translational Medicine. HaiHui Huang; Madhu Chetty; 210 views Submission open
This project will assess whether AMGs generally evolve into distinct shorter versions of the bacterial gene and whether the transfer of metabolic genes from phages to bacteria is a prevalent phenomenon. To this end, publicly available genomes of phages and bacteria will be scanned for metabolic genes (Shaffer et al. 2020).
Bioinformatics. Bioinformatics. Our Research Focus. Today's data sets are of such magnitude and complexity that advanced bioinformatics methods are essential to their integration, management and dissemination. Our bioinformatics work incorporates data from both mouse and human genetic and genomic research and provides the annotations and ...
Open thesis topics. Within our group we can offer various topics in the field of applied bioinformatics, high-throughput data analysis, genome and metagenome research as well as postgenomics and systems biology. Below you can find a list of suggested open topics for BSc and MSc theses and student projects.
PhD Theses PhD students at the Bioinformatics Laboratory In Progress Lashgari, D. Kinetic maturation in the Germinal Center. University of Amsterdam, Amsterdam. Supported by AMC.
All UNC Charlotte dissertations and theses can be found in ProQuest University of North Carolina at Charlotte. Dissertations of past Ph.D. students from the Bioinformatics program. 2017 Adam Price: Ph.D., Bioinformatics and Computational Biology Understanding Bias in Next-Generation Sequencing Technologies and Analyses Benika Hall: Ph.D., Bioinformatics and Computational BiologyConstructing ...
Theses. Thesis Preparation and Filing: Staff from the University Archives and the UCLA Graduate Division present information on University regulations governing manuscript preparation and completion of degree requirements. Students should plan to attend at least one quarter before they plan to file a thesis or dissertation.
However, the bioinformatics analysis of cell communication from scRNA-seq data is a quite young and fast evolving research area, and much work has still to be done to improve the quality of current bioinformatics analyses. Theses on this topic will focus on developing computational models to infer cell-cell communication from sequencing count data.
Functional Data Analysis and its Application in Biomedical Research . Li, Haiou (Georgetown University, 2023) The objective of the dissertation is to develop new statistical methods for functional data analysis motivated by several biomedical research. In many applications with functional observations, the main goals of statistical ...
The thesis track is designed for MS in Bioinformatics students who are interested in conducting research. This track is strongly advised if you may be interested in pursuing a PhD in the future. Researching and writing a master's thesis is an academically intensive process that takes the place of 8 credits of traditional coursework.
Study in the Computational Biology and Bioinformatics PhD program emphasizes original research that culminates in a doctoral dissertation. A separately published guide, available from the Department of Quantitative and Computational Biology, provides additional information on the topics listed below, along with other program policies.
The oral presentation will be open to the public and all members of the Bioinformatics Data Science program. The Dissertation Committee will approve the candidate's dissertation. The student and the primary faculty advisor will be responsible for making all corrections to the dissertation document and for meeting all Graduate College deadlines.
The doctoral dissertation will be submitted to each member of the doctoral committee at least four weeks before the final examination. The student will defend his or her final thesis after the committee's evaluation and will pass or fail depending on the committee's decision. PLEASE READ: FAQ on scheduling exams. UCSD Writing Hub's services for ...
In the Master's program in bioinformatics, you must do a 30 ECTS Master's thesis. You must start your 30 ECTS thesis no later than February 1 (or September 1) a year and a half after commencement of your studies (i.e. February 2021 for students admitted in summer 2019, or September 2021 for students admitted in winter 2020).
Must be a graduate student in the Biomedical Sciences PhD Program, in the Bioinformatics Track, and must have approval of instructor/mentor to register for his/her section of the course. Students must take their Qualifying Exam before registering for the Thesis course. 1. Syllabus Template/Revised: July 31, 2019 Office of the Provost/University ...
Master`s Thesis Bioinformatics Masters Degree Programme, Institute of Biomedical Technology University of Tampere, Finland Tommi Rantapero May, 2012 . ii ACKNOWLEDGEMENTS This work has been done in the Genetic Predisposition to Prostate Cancer group lead by Prof. Johanna Schleutker in the Institute of Biomedical Technology, University of ...
Electronic Collections. A number of recent theses and dissertations prepared at Oxford are available to download from the Oxford Research Archive (ORA). The British Library provides access to UK theses through its EThOS service [currently unavailable]. Already digitised UK theses can be downloaded freely as PDF files.
This dissertation aims to design novel machine learning-based models to transform biomedical big data into valuable biological insights. The research presented in this dissertation focuses on three bioinformatics domains: splice junction classification, gene regulatory network reconstruction, and lesion detection in mammograms.
I'm a biotechnology student with interest in bioinformatics. To finish my bachelor's degree, I need to prepare a short thesis (about 15 pages long). Do you guys have any good idea that could fit in this quite small schema. I have some very basic knowledge on this field; I've worked in R (basic statistics) and I know basics of Python (I wouldn't ...
Thesis topic ideas!!! Hi all ! I completed my undergraduate degree in Btech. Bioinformatics this year (passed with 7/10 gpa). Now i am trying to apply for masters in computer science with specialisation in bioinformatics in canada , most of my desired colleges offer thesis based courses and even though i have a couple publications to my name but they were all in a group of 7-8 people so i dont ...
Help on how to decide masters thesis topic. academic. I am doing my masters now and I have to submit a thesis for my program. I am not sure on what topic should I do on . I have the following modules in my bioinfo masters: statistics, omics, machine learning and system biology. 1.Can I have some recommendation on topics which I can do my thesis ...
Recent News. August 12, 2024 Upcoming Dissertation Defenses; August 12, 2024 DFCI Data Science Seminar - 8/13; August 12, 2024 Help Planning 2024 Data Adventure Day; August 12, 2024 HBC 'Upcoming Current Topics in Bioinformatics' Workshop - 8/21; August 12, 2024 2024 PQG Conference Earlybird Registration now open!; August 5, 2024 Du Bois Scholars Program Summer Research Presentations ...
In her role as chair, Guest has led the vision for the conference's speakers and topics, fundraising and grant support, the conference's mentoring program and scholarships, and the pre-conference workshops being held at Rollins today (one where junior investigators meet with NIH program officers to help build successful research programs ...
Schar School of Policy and Government adjunct professor Lee Roberts was recognized as a 2024 Teacher of Distinction by George Mason University's Stearns Center for Teaching and Learning.Roberts, who is a U.S. Army strategic intelligence officer in his 17th year of active-duty service, is the first Schar School adjunct to receive the award since its inception 12 years ago.
But when the COVID-19 pandemic hit, Boland was worried about losing time on his thesis and the possibility of it delaying his graduation. In response, Tim Devarenne, Ph.D., associate head of ...