@tylerfunnell

Computational Biologist

 New York, USA
Joined March 2009
  • Tweets69
  • Following138
  • Followers87
3Media
Tyler Funnell retweeted
Ed Reznik@EdReznik8 Aug 2025
For those of you hunting for your next position, please consider applying for a postdoctoral position in our lab. Our science is wild and exciting, and I promise to train and feed (yes, w/free food) you well. It doesn't hurt that we are on a publication hot streak.
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Tyler Funnell retweeted
Teng Fei@StatFei11 Nov 2024
Interested in developing biostatistical / machine learning tools with applications in translational cancer microbiome research? I am hiring a postdoctoral scholar @MSKBiostats! Please feel free to DM if you have questions. linkedin.com/posts/teng-fei-…

We are hiring a postdoctoral fellow in biostatistics at MSKCC. Please feel free to share this post...

We are hiring a postdoctoral fellow in biostatistics at MSKCC. Please feel free to share this post with potential candidates. We encourage the candidates to send application materials as instructed...

linkedin.com
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Tyler Funnell retweeted
Teng Fei@StatFei8 Nov 2024
Excited to share our R package for microbiome data analysis, published @CellRepMethods, which makes log-ratio lasso regression more accessible for R users, supporting continuous, binary and survival (competing risks) outcomes. github.com/vdblab/FLORAL doi.org/10.1016/j.crmeth.202…
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Tyler Funnell retweeted
Adam Weiner@adamcweiner11 Apr 2023
Interested in DNA replication and genomic instability? Our new method PERT identifies S-phase cells and estimates replication timing from single cell whole genome sequencing (scWGS) data with heterogeneous copy number biorxiv.org/content/10.1101/… 1/10

Modeling single cell DNA replication dynamics and aneuploidy in genomically unstable cancers

DNA replication is a highly coordinated cell cycle process that can become dysregulated in cancer, increasing both proliferation and mutation rates. Single-cell whole genome sequencing holds potent...

biorxiv.org
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My new lab at @MSKCancerCenter is recruiting a postdoc and also a computational biologist to work on #microbiome and cancer #immunotherapy. peledlab.org. Postdoc position linked below. compbio position soon. Please reach out. tinyurl.com/3m6vpxzr
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My wife, Vicky, made an award-winning & touching short film "Elephant". It's about a jovial old man trying to process his Alzheimer's diagnosis while agonizing over how to protect his love from heartbreak. vimeo.com/389534683 A love story in time for Valentine's Day 🙂

Elephant

Winner of the Award of Distinction at Canada Shorts: Canadian and International Film Festival A love story about a jovial old man trying to process his Alzheimer's diagnosis while agonizing over how...

vimeo.com
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Exciting opportunity for a Data Engineer to join the van den Brink lab at MSKCC and help us understand how gut bacteria affect cancer patients! linkedin.com/jobs/view/28378…
Hey everyone, for something a little different on Black Friday, I'd like to show you a no budget micro-short my wife (I helped a bit) made before the pandemic. She shot it in <4 hours with a couple of talented SAG actors! vimeo.com/506658049 #indiefilm #shortfilm #Filmmaking

Holiday Cheer: An Unexpected Christmas Visit... Santa?

Poverty is a complex issue, Hunger shouldn’t be… You could make a lasting difference; here is a list of great places to start: ACTION AGAINST HUNGER: https://www.actionagainsthunger.org/ THE HUNGER...

vimeo.com
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Interested in structural variant mutational processes at single genome resolution? latest preprint, product years of hard work, reveals clock-like serrate structural variants. kudos to @tylerfunnell @oflanach , everyone in @sajraparicio & @SohrabShah labs. biorxiv.org/content/10.1101/…

The impact of mutational processes on structural genomic plasticity in cancer cells

Structural genome alterations are determinants of cancer ontogeny and therapeutic response. While bulk genome sequencing has enabled delineation of structural variation (SV) mutational processes...

biorxiv.org
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Tyler Funnell retweeted
Marc Williams@marcjwills_8 Jun 2021
Excited to share some new work with @sajraparicio, @SohrabShah, and teams where we looked at genomic instability at allele-specific resolution in more than 30,000 single-cell whole genomes 1/11
bioRxiv@biorxivpreprint7 Jun 2021
Evolutionary tracking of cancer haplotypes at single-cell resolution biorxiv.org/cgi/content/shor… #bioRxiv
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Tyler Funnell retweeted
bioRxiv@biorxivpreprint7 Jun 2021
Evolutionary tracking of cancer haplotypes at single-cell resolution biorxiv.org/cgi/content/shor… #bioRxiv
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Tyler Funnell retweeted
bioRxiv@biorxivpreprint4 Jun 2021
The impact of mutational processes on structural genomic plasticity in cancer cells biorxiv.org/cgi/content/shor… #bioRxiv
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CellAssign from @SohrabShah and @kieranrcampbell uses a probabilistic model to leverage prior knowledge of cell-type marker genes to annotate scRNA-seq data. nature.com/articles/s41592-0… Read our News & Views on supervised clustering for #SingleCellAnalysis. nature.com/articles/s41592-0…
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Tyler Funnell retweeted
Ed Reznik@EdReznik13 Sep 2019
Twitter friends: My lab is searching for an eccentric, excited computational postdoc/scientist to lead multimodal (metabolic, immunophenotypic, genetic) analysis in RCC and AML. Job ad coming soon, pls spread the word and come join the vibrant community @CompOncMSK @KidneyCancer
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Our method CellAssign for automatically assigning cell types from scRNA-seq data is published today Paper: rdcu.be/bQGtI R package: github.com/irrationone/cella… (1/8)
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Tyler Funnell retweeted
eLife - the journal@eLife2 Mar 2019
Reviewer 2 agreed that the ability to determine structures directly within the cellular environment would "transform structural cell biology" elifesciences.org/articles/3… #fromthedecisionletter #ResearchAdvance
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New from Funnell et al. Integrated structural variation and point mutation signatures in cancer genomes using correlated topic models plos.io/2INiELc Part of our cross journal #MachineLearning in Health and Biomedicine collection collections.plos.org/mlforhe…
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Tyler Funnell retweeted
Sohrab Shah@SohrabShah22 Feb 2019
A new statistical framework for mutation signature discovery out today: journals.plos.org/ploscompbi… . Fantastic work by @tylerfunnell - integrates multiple mutation types into signature discovery with correlated topic models: relevant to cancers with DNA repair defects.

Integrated structural variation and point mutation signatures in cancer genomes using correlated...

Author summary Over time DNA accumulates mutations from a variety of sources. Some mutations result from external mutagens, such as UV radiation, while others result from processes occurring within...

journals.plos.org
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Tyler Funnell retweeted
Sohrab Shah@SohrabShah1 Feb 2019
A new approach for detecting somatic mutations from multi-region tumor sequencing out in @CommsBio . Lots of hard work by Fatemeh Dorri- congratulations! nature.com/articles/s42003-0… #muclone

Somatic mutation detection and classification through probabilistic integration of clonal populat...

Communications Biology - Fatemeh Dorri et al. present MuClone, a method for simultaneous detection and classification of mutations across multiple tumor samples derived from one patient. They show...

nature.com
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Tyler Funnell retweeted
Sohrab Shah@SohrabShah16 Jan 2019
How to classify cell types in single cell RNA-seq data without needing to cluster data up front? Use CellAssign - new method from @kieranrcampbell and Allen Zhang in the lab out today: biorxiv.org/content/early/20… , encodes prior information for probabilistic cell-type assignment.
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