Mission

mcbUSA’s Summer Undergraduate Research Program (SURP) at UC Berkeley strives to connect undergraduate UC Berkeley students to biology-related labs for meaningful summer research.



For Students

We have extended deadlines for eight projects. The link to the application is here. It will be due on 5PM, April 12th.

Please come out to the SURP Info Sessions on Friday, March 6, 5:00-6:00PM at Barrows 170, and on Tuesday, March 17, 8:00-9:00PM at Barrows 170 to hear from several labs’ representatives and/or ask logistical application questions!

The mcbUSA club advisor has asked us to cancel the info session on March 17, 8:00-9:00PM. We apologize if you were planning on going to the info session.

Slides from several labs that presented/planned to present in SURP info sessions are posted here:

Lab descriptions are out! Please note that some lab descriptions may be posted at a later date. Errors in the descriptions are reflective of the SURP coordinators, not the labs. Please contact us at mcbusasurp@gmail.com if you notice anything you think might not be quite right.

Project NameExtended DeadlineTopicProfessor/PI/PostdocOrganizationQualificationsTime Commitment Lab’s Preferred Research Start Date
Building a novel data integration for biogeochemical datasetsYesData infrastructure, Software developmentEsther SingerLBNLsoftware development, computational biology, bioinformatics, programming in R and/or python and/or C++flexible, full-time or 3-5 full days per weekJune 1
Cloning, expression and purification of DNA repair proteins and/or protein complexes from E. coli vs. insect cells for biochemical, biophysical and structrual characterization.DNA repair, protein complexes, protein-protein interactions, recombinant protein expression technologies from vector constructions to protein purificationMiaw-Sheue TsaiBiological Systems and Engineering Division at Lawrence Berkeley National LaboratoryJunior or senior standing, taken chemistry and biology lectures and lab courses, familiar with wet lab settings; punctual, organized, reliable, communicative, responsive, inquisitive, attention to detail, independent, team player15-20 hours per week or 3 days a week (5-6 hours each day), 10-12 weeks6/1/2020 Monday
Construction of a heteromeric clamp loader in T4 bacteriophage to study subunit-specific roles of the DNA clamp loader. synthetic biology, deep mutational scanning, DNA replication, clamp loader, sliding clamp, T4 bacteriophageJohn KuriyanMCBinterest in biochemistry, protein design and synthetic biology.12+ hours per weekJun-20
cryo-EM of PRC2Investigating the structural underpinnings of epigenetics by cryo-EMEva NogalesMCBThe candidate is expected to have a foundation of biochemical knowledge and the desire to expand on it. Previous experience with experimental molecular biology is preferred. Good documentation habits, reliability, patience, eye for detail and the ability to work in a team are very important.To start as soon as possible and stay for as long as possible. Absolute minimum of 12 hour/week. 20 prefered.ASAP
Development of computational tools for the analyses of biophysical dataYesComputational BiophysicsPetrus ZwartMCB department at UC BerkeleyProgramming in python. Decent math skillsMinimum time commitment depends on project. Depends on project and student.
Engineering Pseudomonas putida for Heterologous Gene ExpressionYessynthetic biology, genetic engineering, bioreactor and consolidated bioprocessing developmentThomas EngLBNL / Biosciences Area / Biological Systems and Engineering / Joint Bioenergy InstituteMCB.140L is suggested, or other biology laboratory experience.For the summer, ~20-30hrs a week. Time commitment is flexible but should be discussed in advance.Flexible.
From bacteria to cancer: radionuclide applicationsradionuclides, drug development, theranosticsDahlia AnLawrence Berkeley National Laboratory (LBL); Nuclear Engineering department at UC BerkeleyCHEM 1A, CHEM 1AL, comfortable working with animal models and radionuclides, excellent written and verbal communication skillsFull-time over the summerASAP
FUNgal BIG DataYesdata mining in fungal genomesIgor GrigorievJGI @ LBNL and PMB @ UCBerkeleyprogramming and data mining skills with biological backgroundflexibleany time
Have invasive rhizobia escaped their bacteriophage enemies?phages, rhizobia, host range, biogeography, invasion biologyJannick Van CauwenbergheIB department at UC BerkeleyYou must have a strong work ethic and an interest in microbiology and ecology. You must be dedicated to learning from and contributing to the project, which involves meticulous laboratory procedures, attention to detail, continuous care of bacteria, and sometimes boring and repetitive protocols, but exciting and rewarding results. Experience with sterile technique and bacterial culturing is a plus, but not required. Applicants with a genuine interest in biology will be favored.about 9-10 hours per week26-May
How neurons talk to the blood: Neuronal regulation of blood cell transdifferentiation by oxygen sensingCell signaling, developmental & stem cell biology, hematopoiesis, nervous system, microenvironment, Drosophila, oxygen sensing, sensory neurons, transdifferentiation, blood cell, tissue macrophage, adaptation, neuronal channels, calcium signaling, activin signaling, transcription factors, scRNAseqKatja BruecknerUCSF/ Broad Center; Cell & Tissue Biology; CVRIWe are looking for talented and enthusiastic students with some previous lab experience; experience with Drosophila is preferred.Full time during the summer; continuation during the school year and future paid position possible.TBD
Identification of novel lipoprotein particles associated with cardiovascular disease and other disorders.Lipoprotein metabolismRonald KraussNST Dept at UC Berkeley and Depts of Medicine and Pediatrics, UCSFAt least introductory biochemistry and molecular biology, with previous experience in a research laboratory.At least 30 hours/wk1-Jun
Improving Biofuel Crop Yield under Drought Stress from Field to LabYesMicrobial ecology, bioinformatics, computational modelingEsther SingerLawrence Berkeley National LaboratoryBackground in computational biology (e.g. working with R/python, statistics, DNA sequence analysis), molecular methods (DNA extraction, PCR, pipetting) and/or soil chemistry, microscopy (confocal and electron)3-5 full days per weekJune 1, 2020
Investigating Mitochondrial Inheritance During MeiosisMeiotic rejuvenation, organelle remodelingElcin UnalMCBcurious mind, attention to detail, good organization skills and time management, familiarity with basic molecular biology techniques (PCR, transformation, cloning)- preferred but not necessary15-20h during the summer, can be adjusted laterMay 2020 or later
Investigation of intracellular trafficking and secretory pathways involved in regulating inflammatory proteins by Chlamydia trachomatis to detect drug targets and develop a rational vaccine.C. trachomatis, intracellular trafficking, immune response, primary cells, dual RNA-seqDeborah DeanMCB, UC Berkeley; School of Medicine, UCSFUndergrads interested in multidimentional and fulfilling lab experience – no prior experience required although some courses in molecular biology and genetic/genomics would be helpfulFull time in the summer – opportunity to continue during the school year Mid to late May or 1st week in June
Kinetics of DNA target search in CRISPR-Cas Systemsprotein/nucleic acid interactions, biochemistry, enzyme mechanism, conformational dynamics, CRISPR, prokaryotic adaptive immunityJohn KuriyanMCBstrong quantitative analytical skills, interest in biochemistry/biophysics, intention to take MCB C100A (or similar)20+ hours per week during the summer (flexible, will be discussed in advance), potentially to continue into the academic yearflexible (early June)
Microbial Community Analysis and Functional Evaluation in SoilsYesenvironmental microbiologyRomy ChakrabortyEcology, LBNLmicrobiology courses, laboratory experience- media formulation, genomic DNA extraction30-40 hours/week.May 15th
Molecular regulation of IgE class switch recombination Immunology, Allergy, Asthma, B cells, IgEChristopher AllenUCSFShould already have some experience working in lab and knowledge of basic techniques, such as pipetting.Ideally the student would do full time research in lab for several weeks during the summer. It may be possible to continue this research part-time during the school year. Ideally in late May / early June
New approaches to understanding and treating asthma and cystic fibrosisasthma, cystic fibrosis, airway epithelial cell biology, gene regulation, gene editingDavid ErleUCSF Department of MedicineCollege-level courses in cell biology, biochemistry, and genetics (at least two of these three areas). Basic lab skills (eg pipetting) gained either through lab courses or previous work or volunteer experience. Experience with cell culture and molecular biology are desirable but not necessary; training in techniques will be provided.Minimum of three full days per week for 2 months (or equivalent)Flexible
Regulation of MSC differentiation by macrophages Mesenchymal stem cells, osteogenesis, macrophage, inflammation, progranulinRobert NissensonVAMC Endocrine Unit, UCSF. Located at 1700 Owens St., Mission Bay.Basic laboratory skills with a high level of motivation.Ideally full time (or close to it). By June. Earlier if possible.
Role of C. trachomatis, microbiota and host immune and signaling pathways in urogenital and rectal infectionsC. trachomatis, microbiota, host immune response, host-pathogen interactions, dual RNA-seqDeborah DeanMCB, UC Berkeley; School of Medicine, UCSFUndergrads interested in multidimentional and fulfilling lab experience – no prior experience required although some courses in molecular biology and genetic/genomics would be helpfulFull time during the summer – opportunity to continue during the school year Mid to late May or 1st week in June
Roles of TGF-beta signaling in epithelial-mesenchymal transdifferentiationcell signaling, TGF-beta, cancer stem cell biology, epithelial-mesenchymal transdifferentiationRik DerynckUCSF: Broad Center of Regeneration Medicine, Cell & Tissue Biology, Cancer CenterWe are looking for talented and enthusiastic students with some previous lab experience in molecular biology and cell culture.Full time during the summer; continuation during the school year and future paid position possible.TBD
Subcellular Dynamics in Multicellular Systems Yesimaging, microscopy, zebrafish, cell-cell signalingGokul UpadhyayulaMCB at UC BerkeleyCell culture, transfections, molecular cloning / python, C/C++8 hrs/ dayASAP
Structural studies of plant immune receptorsCryo-electron microscopy, Biochemistry, Immunology, Plant biologyEva NogalesMCB at UC BerkeleyThe candidate is expected to have a foundation of biochemical knowledge and the desire to expand on it. Previous experience with experimental molecular biology is preferred. Good documentation habits, reliability, patience, eye for detail and the ability to work in a team are very important.15 hours/weekApril-May 2020
Testing the effect of drought on the emission of poplar volatile organic compoundsbiofuels, climate change, renewable energy, plant cell walls, poplar, pectin, volatilesJenny MortimerLBNL Biosciences, EGSB Department; Joint Bioenergy Institute, Feedstocks DivisionBasic analytical chemistry, but all methods will be taught. Experience of working with plants perferred.We would prefer full time for 8-10 weeks, but we can be flexible. A stipend will be available. June 8th (but again, this can be negotiated)
The Ecological Genetics of Daily Rhythms in Sunflower Reproductionplant biology, developmental biology, circadian clock, plant-environment interaction, sunflower, fieldwork, natural variation, evolution, genetics, image analysisBenjamin BlackmanPlant and Microbial BiologyStudents with strong interests in plant-environment interaction, genetics, evolution, and ecology will find the experience most rewarding. Attention to detail and good record-keeping skills are essential. The student should be comfortable and enthusiastic about working in field conditions for extended periods, and they will be expected to follow guidelines for safely doing so. Students who are interested in working full time (wage or stipend support may be available) are especially encouraged to apply.40 hr/week for 10 weeks minimum26-May-19
The impact of phages on their bacterial hostsbacteria, phage, microbiology, molecular biology, geneticsYolanda HuangBiosciences at LBNL; Bioengineering at UC BerkeleyPipetting, basic microbiology or molecular biology techniques, some Python / R (if want to pursue computational work)Full time (or close to)May
The interplay of the ocular microbiome, chlamydial species, and host immune responses in the heathy versus diseased eye among trachoma patientsChlamydia species, host-pathogen interactions, trachomaDeborah DeanMCB, UC Berkeley; School of Medicine, UCSFUndergrads interested in multidimentional and fulfilling lab experience – no prior experience required although some courses in molecular biology and genetic/genomics would be helpfulFull time in the summer – opportunity to continue during the school year Mid to late May or 1st week in June
Using X ray free electron laser to study the mechanism of water oxidation in Photosystem IIYesPhotosynthesis, X ray crystallography, X ray spectroscopy, catalysis, protein biochemistryRuchira ChatterjeeMBIB, Lawrence Berkeley National LaboratoryPursuing bachelors in Molecular and Cellular Biology or Chemistry2 or 3 months‘May 15


For Labs

FAQ:

Q: How do I join?

A: Fill out the SURP participation form for each project you want to have undergraduate Berkeley students for through SURP. (Note that the SURP application deadline for undergraduates is March 22, thus a lab who joins SURP on March 21 will likely not attract many applicants.)

Please email the SURP coordinators soon after you submit the participation form so that we can display your project description onto this website as soon as possible. (We will try to do so within one day.)

In order to protect the privacy of undergraduate applicants, we have withheld the participation form link. Please email mcbusasurp@gmail.com for the participation form link. We apologize for the inconvenience.

Q: Why should I join?

A: Only if you are in need of undergraduate researchers. SURP provides a communication link between you and UC Berkeley undergraduates interested in summer research.

Q: Do I need to pay the undergraduates I accept from SURP?

A: It is your choice whether or not to pay the undergraduates you accept.

Q: How are students matched to projects?

A: Students apply to up to three projects. If applicants apply to your project(s) through SURP, SURP will send you all such applications. You decide which students your lab wishes to accept.

Q: If my lab is full, should I still join SURP?

A: No. SURP’s purpose is to connect undergraduates looking for summer research to labs who want undergraduate researchers. If your lab does not need more undergraduates for summer 2020, you do not have a reason to join.

Q: When will I receive the undergraduates’ applications?

A: You will receive them by April 1. Please select the applicants you wish to accept by April 24th by contacting them directly and notifying the SURP coordinators of your decision by emailing mcbusasurp@gmail.com.

Q: What information will I get from the applications?

A: The application includes the applicant’s:

  • general information (name, year, classes taken, contact info, etc.)
  • statement of interest for your project
  • unofficial transcript
  • resume
  • any supplemental questions you wish to include*

Q: Will I be able to receive extra information from my applicants?

A: You will have the chance to interview your applicants before and/or after you select them on April 24. *If you wish to ask extra supplemental questions to applicants applying to your project(s), please email the SURP coordinators at mcbusasurp@gmail.com.

If you have any residual questions, please email the SURP coordinators at mcbusasurp@gmail.com.