Martin Hemberg
@m_hemberg
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Computational biologist. Scrabble addict. Crossfit junkie.
Boston, MA
Joined July 2015
Another great collaboration with @ericmiskalab pushed by the very talented and ambitious @DerRiehl
Latest paper @NAR_Open! Former student @DerRiehl introduces TransposonUltimate: a bundled software for transposon classification, annotation & detection. Examples using C. elegans, R. irregularis and Oryza sativa (japonica) genomes. @criccio517 @m_hemberg
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If you ignore the masks it is like 2019 again. Great to be teaching scrnaseq analysis in person again with actual coffee breaks @talandrews @sterding @ilyakorsunsky
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Please RT! We are hiring Research Scientists/Postdoctoral Candidates/Computational Biologists and Programmers excited about computational challenges in modeling biological data coming from #CRISPR genome editing and #singlecell experiments.
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Now that I am allowed back in the office I am proud to announce my first contribution to the Evergrande center lunch room. This key piece of hardware will likely improve productivity by 0.000001%
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Splendid work by @JoachimDeJonghe and @ge_parada on the splicing analysis, which includes an extension of the MicroExonator pipeline
We then teamed-up with @ge_parada and @m_hemberg to see if the full-length coverage offered by the method uncovered cell-type specific #alternativesplicing motifs, and there was a lot there! This was adapted from their MicroExonator pipeline https://t.co/3dzRJPsrv2 đ(10/n)
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Grateful to have been able to contribute to this fantastic paper. VASA-seq really takes single-cell analysis to a new level as it allows you to profile transcripts and splicing events rather than just genes.
Excited to share VASA-seq online, scRNA-seq providing full gene body coverage & non-coding RNA expression From @AlexandervanOu1 @hollfelderlab @m_hemberg labs, big thanks to @JoachimDeJonghe @ge_parada @AMartinezArias and F.Salmen for the fun dicussions!
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Looking forward to this virtual visit to Cardiff
Dr Martin Hemberg @m_hemberg from Harvard Medical School @harvardmed will give the Science Seminar talk on September 23rd 2pm UK time/9am EST on computational methods for single cell sequencing. Please register at https://t.co/yuzpvxPm7B
@CUBLSResearch @cardiffuni @Harvard
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The first part of a very fascinating investigation of sequences that normally do not exist in genome is out in @GenomeBiology @NadavAhituv @IGeoso @YizharOfer @i_mouratidis
Characterization of nullomers and nullpeptides, short 11-15bp or 4-7aa long sequences missing in the genome & proteome, in various functional units and 30 genomes. Great work by @IGeoso, @YizharOfer, Ioannis Mouratidis and collaboration with @m_hemberg. https://t.co/ekEwrC1X6O
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Fantastic opportunity to work with our team and several awesome labs at Sanger institute! Closes sep12
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This was a bit of an upside-down project. Unlike many other collaborations with experimentalists, here we first spent a lot of time doing computational work before @YizharOfer was able to go into the lab and test our predictions
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Preprint on our new method for early detection of cancer using cell free DNA is out https://t.co/t2REd3K9MM Great collaboration with @NadavAhituv @IGeoso @YizharOfer
medrxiv.org
Cancer diagnosis using cell-free DNA (cfDNA) can significantly improve treatment and survival but has several technical limitations. Here, we show that tumor-associated mutations create neomers, DNA...
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Interested in #CircRNAs, #sperm, #epigeneticinheritance - have a read of our (@ericmiskalab @BohacekLab @m_hemberg @ge_parada) now published article
cell.com
Molecular physiology; Developmental biology; Embryology; Transcriptomics
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This is what 100K cells from the rectum look like đ¤thanks Jae Won Cho @m_hemberg and @hoheyn @victoriamaria_g @Acorrama @ibd_bcn
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Stream if you want to go faster! Several bottlenecks in SC3 removed by graduate student @pittachalk to cluster 2M cells in <20 mins. Read it https://t.co/myvLQqlIgW and try the #scanpy-friendly #python implementation
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Apply! Apply! Apply! Apply here https://t.co/1RcC0cv42n for a 3 year computational postdoc position in my group
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And even bigger apologies to @DerRiehl whose twitter handle I for some reason could not find đ
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with apologies to JRR: TransposonUltimate - one tool to classify them, one tool to annotate them and one tool to from the reads detect them. preprint https://t.co/3qdRPnT5ke, github https://t.co/xCuozbRTaf. Great work by Kevin Riehl @criccio517 in collaboration with @ericmiska
github.com
A set of bioconda packages for transposon annotations. During my masterthesis I downloaded lots of these tools and I want to make it easier for people to install and run these softwares. - DerKevin...
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There is an opening in my group for a quantitative or computational genomics post-doc. If you are interested, please contact me at mhemberg funny-looking-a https://t.co/bmwUDxauzp. Candidates with CS, maths, physics or bio backgrounds are all encouraged. Please RT
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Talks by @segal_eran @UriAlonWeizmann @MarioniLab @KharchenkoLab @MeromitS @smitakr and Elena Ferris
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If you would like to see some of the finest computational biologists around, and me, present their latest results then point your browser here for a May 3 seminar:
cmsa.fas.harvard.edu
On May 3, 2021, the CMSA hosted a symposium on Computational Biology. Over the course of two sessions, speakers discussed topics ranging from big data and medicine to âalien DNA.â [âŚ]
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