Ioannis Vlachos // @ioavlachos.bsky.social Profile
Ioannis Vlachos // @ioavlachos.bsky.social

@ioavlachos

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Director of Spatial Technologies & Bioinformatics. BIDMC / HarvardMed / Broad.

Boston, MA
Joined September 2017
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@ioavlachos
Ioannis Vlachos // @ioavlachos.bsky.social
9 months
**Please Retweet (Re-X?)** .๐Ÿ”ฅPostdoc #jobs in Spatial / Single Cell Omics .Looking to become a #leader in #SpatialBiology? .Love NGS & #MachineLearning? #Positions @harvardmed @broadinstitute .#hiring #lab #boston #research #aiml #biotech #Science.
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@ioavlachos
Ioannis Vlachos // @ioavlachos.bsky.social
23 days
RT @GESTALT_sp: Donโ€™t forget to register to the seminar on June 27 and July 25:. GESTALT - Seminar Series. June 27 - 2025: Dr. Fei Chen.Julโ€ฆ.
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@ioavlachos
Ioannis Vlachos // @ioavlachos.bsky.social
29 days
Can you do multi-modal multi-million cell single cell studies ๐ฐ๐ข๐ญ๐ก๐จ๐ฎ๐ญ ๐ฌ๐ฉ๐ž๐ง๐๐ข๐ง๐  ๐ฆ๐ข๐ฅ๐ฅ๐ข๐จ๐ง๐ฌ $$???.๐Ÿ”ฅSTAMP is fire!!๐Ÿ”ฅ.Multi-million cell atlases are now accessible to all.What a milestone! .From @LGMartelotto @hoheyn @DrJasPlummer .
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@ioavlachos
Ioannis Vlachos // @ioavlachos.bsky.social
1 month
RT @FLGenomics: Community is key when establishing newer technologies. From the scTrends Consortiumโ€™s โ€˜living reviewโ€™ to GESTALT, a WhatsApโ€ฆ.
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@ioavlachos
Ioannis Vlachos // @ioavlachos.bsky.social
2 months
RT @alm_o: Thank you @melinda_bachini and @curecc for supporting my @ASCO YIA application and @ConquerCancerFd for funding our study to advโ€ฆ.
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@ioavlachos
Ioannis Vlachos // @ioavlachos.bsky.social
3 months
ChatGPT prefers humans to be polite! .A lot of discussion about #thankyou and #please when interacting with LLMs such as @ChatGPTapp & @AnthropicAI. Asked ChatGPT 4.0 and it flipped the narrative on where to focus: .the burden is on the developers not users
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@ioavlachos
Ioannis Vlachos // @ioavlachos.bsky.social
5 months
RT @mason_lab: Introducing the Global Alliance for Spatial Technologies (GESTALT).- a groundbreaking global, open,โ€ฆ.
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@ioavlachos
Ioannis Vlachos // @ioavlachos.bsky.social
8 months
If you're around, ping me at the Other Place at ๐Ÿฆ‹.
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@ioavlachos
Ioannis Vlachos // @ioavlachos.bsky.social
8 months
RT @RongFan8: Thrilled to share two @biorxivpreprint papers from my lab and @StimulatedRaman, reporting on the SAME tissue section multi-moโ€ฆ.
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@ioavlachos
Ioannis Vlachos // @ioavlachos.bsky.social
9 months
RT @LukasValihrach: snPATHO-seq, a versatile FFPE single-nucleus RNA sequencing method to unlock pathology archives๐Ÿ‘
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@ioavlachos
Ioannis Vlachos // @ioavlachos.bsky.social
9 months
RT @LGMartelotto: Phewโ€ฆfinally! . snPATHO-seq, a versatile FFPE single-nucleus RNA sequencing method to unlock pathology archives | @CommsBโ€ฆ.
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@ioavlachos
Ioannis Vlachos // @ioavlachos.bsky.social
9 months
STAMP: That's a wrap! Hope it helped.Tried to capture the most common questions I received since the biorxiv. Shout out to @LGMartelotto and the team for the cool tech.
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@ioavlachos
Ioannis Vlachos // @ioavlachos.bsky.social
9 months
TL;DR Highlights for STAMP, please!.- 10-100+ fold lower cost per cell.- 5-20-fold lower cost per sample.- Rich data for deep cell phenotyping.- Multiple instruments can be reused on the same slide
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@ioavlachos
Ioannis Vlachos // @ioavlachos.bsky.social
9 months
Be critical, please! STAMP Plus/minus vs scRNAseq?.- Cost (+).- Targeted vs untargeted (+/-).- 50 cells to 3M cells (+).- Expensive instrument (-).- Samples per run (+).- Instrument bottleneck (-).- RNA+Protein+Anything (+).- Nuclei & cells (=).
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@ioavlachos
Ioannis Vlachos // @ioavlachos.bsky.social
9 months
STAMP: Which spatial assays are compatible?.From the pre-print & discussions with the authors, should be all AND sequential.Imaging-based (Xenium, CosMx, MERSCOPE. ).Sequencing based (Visium (HD, V2). ).Multiplexed IF (PhenoCycler-Fusion, CyCIF, Cell DIVE. )
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@ioavlachos
Ioannis Vlachos // @ioavlachos.bsky.social
9 months
STAMP: ๐—›๐—ผ๐˜„ ๐—น๐—ผ๐˜„ ๐—ฐ๐—ผ๐˜€๐˜ ๐—ถ๐˜€ ๐—ถ๐—ป๐˜€๐—ฎ๐—ป๐—ฒ๐—น๐˜† ๐—น๐—ผ๐˜„ ๐—ฐ๐—ผ๐˜€๐˜?.Orders of magnitude vs single cell assays, even when using expensive preps, such as Xenium 5,000 plex or CosMx 6,000 plex.
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@ioavlachos
Ioannis Vlachos // @ioavlachos.bsky.social
9 months
STAMP: How does it work? How many cells & samples can I analyze?.With some smart tricks, the authors STAMP cells in tight conformations on ANY slide.From ๐Ÿฑ๐Ÿฌ ๐—ฐ๐—ฒ๐—น๐—น๐˜€ to ๐—บ๐—ถ๐—น๐—น๐—ถ๐—ผ๐—ป๐˜€ per region. From ๐Ÿญ to ๐Ÿฎ๐Ÿฌ+ ๐˜€๐—ฎ๐—บ๐—ฝ๐—น๐—ฒ๐˜€ per slide.Image: 2x40K & 1x1M cell STAMPs
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@ioavlachos
Ioannis Vlachos // @ioavlachos.bsky.social
9 months
๐—ฆ๐—ง๐—”๐— ๐—ฃ: single cell (spatial?).Being asked what I think about it (NOT involved). 1) What is STAMP? Should I care about it?.STAMP is a clever way of using ๐˜€๐—ฝ๐—ฎ๐˜๐—ถ๐—ฎ๐—น ๐—ฎ๐˜€๐˜€๐—ฎ๐˜†๐˜€ to get ๐—ถ๐—ป๐˜€๐—ฎ๐—ป๐—ฒ๐—น๐˜† ๐—น๐—ผ๐˜„ ๐—ฐ๐—ผ๐˜€๐˜ ๐˜€๐—ถ๐—ป๐—ด๐—น๐—ฒ ๐—ฐ๐—ฒ๐—น๐—น ๐—ฑ๐—ฎ๐˜๐—ฎ.
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@ioavlachos
Ioannis Vlachos // @ioavlachos.bsky.social
9 months
RT @GenomicsCow: We now have a way to use spatial imagers to overcome single cell struggles, with stamp . . And a wโ€ฆ.
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@ioavlachos
Ioannis Vlachos // @ioavlachos.bsky.social
10 months
RT @RongFan8: Thrilled to report Patho-DBiT, just published in Cell ๐Ÿ˜Š. It allows us to directly โ€œseeโ€ all kinds of RNA species on the sameโ€ฆ.
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