Almost 5 years ago we started working on a project to look at stem cell migration in planarians. We established a great collaboration with Mark Hill and James Thompson at the Oxford Institute of Radiation Oncology which allowed us to improve … Continued
Our mighty leader Aziz has been recognised in the 2016/17 Oxford Recognition of Distinction excercise and has become a fully grown up Professor… So there is hope for us all then. Here is a picture of Aziz looking much cooler then … Continued
Aziz attended a workshop on Parhyale research organised by Anastasios Pavlopoulos and Michalis Averof, two of our collaborators on the genome project. The diversity of research being pursued was startling and the scope seems to have expanded with the availability … Continued
Our labs new pre-print is now available here on BioRxiv. It is one of many papers the lab has contributed too which are available as pre-prints before publication. In this study we thought hard about ways in which we could identify … Continued
Graduate student Sounak Sahu, presented his work in DNA Damage at this specialist meeting, explaining how planarians are a promising novel system to understand DNA Damage and Repair in adult stem cells. He also gave his first video interview… … Continued
We have published our paper describing the genome of the amphipod crustacean Parhyale hawaiensis. The paper is available here Congratulations to all our collaborators. We will add more to the lab website about Parhyale soon!
“Extracellular Vesicles” Gordon Research Conference 21st-26th August 2016. I was invited to give a talk on my previous research at the Gordon Research Conference titled “Extracellular Vesicles”,Sunday River, Newry, USA from 21st August to 26th August 2016. It took nearly … Continued
The 4th European Meeting on Planarian Biology was held in the charming Spanish town of Sant Feliu de Guixols, overlooking the azure waters of the Costa Brava. The 3-day conference (25-27th September) provided an opportunity to share recent advances in … Continued
Frontiers in DNA Repair Meeting Berlin – Brandenburg Academy of Sciences, Germany September 12, 2016 It was in June when I received an email informing me that I had been selected to give a short talk in the “Frontiers in … Continued
I recently attended the EMBL Transcription and Chromatin meeting in Heidelberg, Germany (27.08-30.08.2016), one of the most important events in the field of epigenetics. The meeting comprised 62 densely packed talks and an impressive number of posters (293). The main … Continued
Meeting dates and locations 2016 2nd Cologne Ageing Conference, April 3rd-5th, 2016, Cologne, Germany Attending: Aziz (invited Speaker) EMBO Workshop: Multiple functions of piRNAs and PIWI proteins, April 6th-9th, 2016, Montpelier, France Attended: Aziz (invited speaker) EMBL … Continued
On the 7th October, I travelled to the Alfamar beach resort in the Algarve, south Portugal to attend the Joint meeting of the Portuguese, Spanish, and British societies for Developmental Biology. The location of the meeting was a welcome getaway … Continued
Ellen has defended her thesis pending some textual corrections. Ellen developed the X-ray shielded irradiation assay that many members of the lab use as standard for planarian stem cell work, and this assay forms a central part of our … Continued
I was invited to visit and give a seminar at the Institute of Biotechnology in Helsinki and then to be a Keynote Speaker at the Finnish Society for Developmental Biology meeting that took place at the Hyytiälä lakeside field station about … Continued
The Aboobaker lab is delighted to be hosting the ISFB 2015. AN ABSTRACT BOOK (UPDATED REGULARLY UNTIL THE START OF THE MEETING) CAN BE DOWNLOADED HERE ISFB-Abstractsbook REGISTRATION FOR THIS MEETING IS NOW OPEN. Places are currently … Continued
Aboobaker lab and guests fully equipped with walking shoes, waterproof jackets and wellingtons took off on a field trip to Slapton Ley, Devon (http://www.slnnr.org.uk) in hope to collect flatworms, exchange ideas and form collaborations…to be continued…
During the time I spent at Planarian lab at Oxford I studied planarians collected by the lab on their recent field trip to Slapton Ley (Devon). The map below shows several locations, where four sampling populations were found. Following species … Continued
Julia writes… It was a delight to have become part of the research team at Aboobaker lab. The team was particularly welcoming and patient in explaining the lab’s outstanding work. It was great to be able to participate in a … Continued
Damian Kao successfully defended his PhD thesis (pending corrections to the final version). His grilling was administered by Professor Richard Emes (Nottingham) and Professor Mark Blaxter (Edinburgh). Some pictures of the ensuing celebrations follow.
We are delighted that Damian has returned to us from the Manhattan HackerSchool.
We are delighted to welcome Nobuyoshi Kosaka to the group. Nobu has been awarded a JSPS fellowship to join us.
Congratulations and welcome to Alvina Lai for being awarded an EMBO long term fellowship for her research in the Aboobaker Lab. These highly competitive fellowships provide prestigious funding for the most talented postdoctoral researchers.
Congratulations to Jordi on publication of his fantastic paper on the role of the CCR4/NOT1 mRNA deadenylation complex in controlling stem cell differentiation in planarians. the paper is here This was work started in The Aboobaker lab and finished … Continued
The conference took place during the last days of October 2013 at the Genome Campus in Hinxton, near Cambridge. The title of the conference “Regenerative Medicine: From Biology to therapy” could also have been the title of the opening lecture … Continued
The lab is very proud to announce that our colleague Ellen Aboukhatwa has been awarded a prize for her “Transfer talk” in the Department of Zoology here in Oxford. CONGRATULATIONS! Ellen presented her work on developing planarians as a model … Continued
Finally after what seems the longest time the lab has published our paper on the single methyl biding domain (MBD) protein in the genome of the planarian Schmidtea mediterranea. This paper represents a lot of work by a lot of … Continued
We are big suporters of Open Access in the lab and have made an effort in recent years to publish in OA journals or take OA options wherever we can afford to. One of my favourite journals, because it fits … Continued
Our work on the planarian ortholog of the TALE class homeobox protein PBX/extradenticle has been published in the journal “Development”. This work was begun by Daniel Felix during his PhD thesis where he observed a very strong phenotype for this … Continued
At the end of last year Peter Holland, the Head of Department, had the interesting idea that a few of us should get together and edit Wikipedia pages. It was an enjoyable day, where about 30 of us gathered in … Continued
When I was a child, I had this persistent belief that I will live forever. Recently, I have been wondering if living forever is indeed a tangible thing or science fiction. To understand and think about ways of delaying or … Continued
Regeneration is the process by which animals replace tissue or structures after they are lost. Regeneration abilities vary within the Animal Kingdom. For example, many invertebrates such as planarians and hydra can regenerate all of their bodies even after they have … Continued
The lab will move physically over the summer and we will officially start in Oxford on October 1st. We will be based in the Department of Zoology at Oxford, and Aziz will be attached to Lady Margaret Hall as A Tutor … Continued
Information theory as an interdiciplinary field consisting of engineering, physics, bioinformatics, mathematics, and many others started with Claude E. Shannon‘s 1948 paper, “A mathematical theory of communication“. Advancements in this field have been instrumental in improving communication across the world from … Continued
We had a lot of great questions/comments posted in the comments section of the youtube video released a month ago. I’ve copied and categorized all the relevant questions and comments in this entry. There were a lot of people asking … Continued
I gave an overview of the 3 planarian transcriptomes in my last blog post. Since we do not have immediate access to all the raw data that went into the transcriptomes, we have to resort to merging the assembled transcriptomes according … Continued
This post is taken directly from my blog at blog.nextgenetics.net. In terms of sequences, there are currently quite a lot of data in the planarian (Schmidtea medterranea) field. We have an assembled genome from University of Washington’s genome institute and various transcriptome assemblies using different sequencing platforms. … Continued