Ivan Liachko
@ivanliachko.bsky.social
Scientist, father, founder/CEO of PhaseGenomics; opinions are my own and probably not the position of the company.
Reposted by Ivan Liachko
🌿 New in @NaturePlants! Researchers used Phase Genomics’ Hi-C to build a haplotype-resolved chromosome-scale #genome of a hybrid eelgrass (Zostera marina × Z. pacifica), revealing genomic clues to low-light tolerance that could boost coastal restoration. www.nature.com/articles/s41...
Hybridization and low-light adaptability in California eelgrass (Zostera spp.) - Nature Plants
Seagrass genomes of the deep-water Zostera pacifica and shallow-water Z. marina from the Eastern Pacific Ocean provide evidence for low-light adaptation exemplified in the wild hybrid Z. marina × paci...
www.nature.com
November 6, 2025 at 7:27 PM
🌿 New in @NaturePlants! Researchers used Phase Genomics’ Hi-C to build a haplotype-resolved chromosome-scale #genome of a hybrid eelgrass (Zostera marina × Z. pacifica), revealing genomic clues to low-light tolerance that could boost coastal restoration. www.nature.com/articles/s41...
Reposted by Ivan Liachko
Phase Genomics’ Hi-C tech helped undergrads assemble the “best duckweed genome yet,” giving them hands-on research experience, boosting PhD prospects, and advancing plant biology. Full story from Alex Harkess at HudsonAlpha on YouTube: na2.hubs.ly/H01P7mG0
October 28, 2025 at 3:31 PM
Phase Genomics’ Hi-C tech helped undergrads assemble the “best duckweed genome yet,” giving them hands-on research experience, boosting PhD prospects, and advancing plant biology. Full story from Alex Harkess at HudsonAlpha on YouTube: na2.hubs.ly/H01P7mG0
Reposted by Ivan Liachko
Happy #WorldPhageDay.
Tiny, abundant, and anything but boring, phages shape microbial communities, move genes around, and can tip the balance in all kinds of ecosystems.
The catch: to know a #phage only you must know its host. ProxiMeta Hi-C technology gives us that link.
Tiny, abundant, and anything but boring, phages shape microbial communities, move genes around, and can tip the balance in all kinds of ecosystems.
The catch: to know a #phage only you must know its host. ProxiMeta Hi-C technology gives us that link.
October 22, 2025 at 6:33 PM
Happy #WorldPhageDay.
Tiny, abundant, and anything but boring, phages shape microbial communities, move genes around, and can tip the balance in all kinds of ecosystems.
The catch: to know a #phage only you must know its host. ProxiMeta Hi-C technology gives us that link.
Tiny, abundant, and anything but boring, phages shape microbial communities, move genes around, and can tip the balance in all kinds of ecosystems.
The catch: to know a #phage only you must know its host. ProxiMeta Hi-C technology gives us that link.
Reposted by Ivan Liachko
🌳 New chromosome-level Ulmus minor (field elm) genome unlocks clues to Dutch elm disease resistance. Using long reads and Hi-C, the team built this 2.1Gb genome and mapped clusters of resistance genes conserved across elm species to aid restoration.
na2.hubs.ly/H01HQ2Q0
na2.hubs.ly/H01HQ2Q0
October 21, 2025 at 8:25 PM
🌳 New chromosome-level Ulmus minor (field elm) genome unlocks clues to Dutch elm disease resistance. Using long reads and Hi-C, the team built this 2.1Gb genome and mapped clusters of resistance genes conserved across elm species to aid restoration.
na2.hubs.ly/H01HQ2Q0
na2.hubs.ly/H01HQ2Q0
Reposted by Ivan Liachko
In this great new paper, the authors use metagenomic Hi-C to show that #phage with broad host range are fairly common, contrary to the prevailing view on their biology. Cutting edge methods like Hi-C are shedding light on our blind spots in the microbial world.
Phages with a broad host range are common across ecosystems - Nature Microbiology
Proximity-ligation-based sequencing from 111 samples and 5 environments reveals that a substantial proportion of phages infect multiple species.
www.nature.com
September 29, 2025 at 5:32 PM
In this great new paper, the authors use metagenomic Hi-C to show that #phage with broad host range are fairly common, contrary to the prevailing view on their biology. Cutting edge methods like Hi-C are shedding light on our blind spots in the microbial world.
Reposted by Ivan Liachko
Join us at the Microbiome Innovation One Health Conference in Oxford on Sept 15! @ivanliachko.bsky.social will present how ProxiMeta™ maps microbes, viruses, plasmids & resistance genes, bringing clarity to complexity across human, animal and environmental health.
September 11, 2025 at 5:52 PM
Join us at the Microbiome Innovation One Health Conference in Oxford on Sept 15! @ivanliachko.bsky.social will present how ProxiMeta™ maps microbes, viruses, plasmids & resistance genes, bringing clarity to complexity across human, animal and environmental health.
Reposted by Ivan Liachko
🧬 Important Slug News!
Researchers assembled a chromosome-scale #genome for Deroceras laeve using Proximo Hi-C and @pacbio.bsky.social - making it a useful model for study of #genomics, #evolution, and slimyness... Congrats to Alfredo Varela-Echavarría & team!
🔗 academic.oup.com/g3journal/ad...
Researchers assembled a chromosome-scale #genome for Deroceras laeve using Proximo Hi-C and @pacbio.bsky.social - making it a useful model for study of #genomics, #evolution, and slimyness... Congrats to Alfredo Varela-Echavarría & team!
🔗 academic.oup.com/g3journal/ad...
September 4, 2025 at 4:46 PM
🧬 Important Slug News!
Researchers assembled a chromosome-scale #genome for Deroceras laeve using Proximo Hi-C and @pacbio.bsky.social - making it a useful model for study of #genomics, #evolution, and slimyness... Congrats to Alfredo Varela-Echavarría & team!
🔗 academic.oup.com/g3journal/ad...
Researchers assembled a chromosome-scale #genome for Deroceras laeve using Proximo Hi-C and @pacbio.bsky.social - making it a useful model for study of #genomics, #evolution, and slimyness... Congrats to Alfredo Varela-Echavarría & team!
🔗 academic.oup.com/g3journal/ad...
Reposted by Ivan Liachko
Glad I saw @ivanliachko.bsky.social present on mind-blowing applications of proximity ligation, including metagenomics--linking plasmids, phages and genomes across microbiomes. I see major impact for precision #phagetherapy (and #onehealth)
Godspeed @phasegenomics.bsky.social
tinyurl.com/yaubcrpt
Godspeed @phasegenomics.bsky.social
tinyurl.com/yaubcrpt
The Future of Phage Therapy: Can Bacteriophages Replace Antibiotics? |
Witness how Phase Genomics revolutionizes DNA analysis through Hi-C technology, enabling breakthroughs in microbiome research, cancer diagnostics, and bacteriophage therapeutics to combat antibiotic r...
www.scispot.com
August 28, 2025 at 9:06 AM
Glad I saw @ivanliachko.bsky.social present on mind-blowing applications of proximity ligation, including metagenomics--linking plasmids, phages and genomes across microbiomes. I see major impact for precision #phagetherapy (and #onehealth)
Godspeed @phasegenomics.bsky.social
tinyurl.com/yaubcrpt
Godspeed @phasegenomics.bsky.social
tinyurl.com/yaubcrpt
Reposted by Ivan Liachko
A fungus among us: Proximo Hi‑C + @pacbio.bsky.social HiFi produced telomere‑to‑telomere genomes for VCG‑01111/01112, uncovering 4 accessory chromosomes, >3.6 My divergence, SIX6 and novel effectors—pinpointing drivers of high virulence. www.mdpi.com/2309-608X/11...
August 21, 2025 at 6:33 PM
A fungus among us: Proximo Hi‑C + @pacbio.bsky.social HiFi produced telomere‑to‑telomere genomes for VCG‑01111/01112, uncovering 4 accessory chromosomes, >3.6 My divergence, SIX6 and novel effectors—pinpointing drivers of high virulence. www.mdpi.com/2309-608X/11...
Reposted by Ivan Liachko
She doesn’t need a hero, she is the hero we need. 🤩
August 17, 2025 at 4:41 PM
She doesn’t need a hero, she is the hero we need. 🤩
New study uses long-read + @phasegenomics.bsky.social Hi-C to assemble chromosome-scale #genome of Trichomonas vaginalis and bird-infecting relatives, revealing key genes tied to bird-to-human spillover. Congrats to Jane Carlton, @mikeschatz.bsky.social and team!
Comparative genomics of the parasite Trichomonas vaginalis reveals genes involved in spillover from birds to humans - Nature Communications
The sexually transmitted human parasite Trichomonas vaginalis belongs to a clade of host-switching trichomonads that parasitize mammals, birds, livestock, and pets. Here the authors describe a chromos...
nature.com
August 12, 2025 at 4:53 PM
New study uses long-read + @phasegenomics.bsky.social Hi-C to assemble chromosome-scale #genome of Trichomonas vaginalis and bird-infecting relatives, revealing key genes tied to bird-to-human spillover. Congrats to Jane Carlton, @mikeschatz.bsky.social and team!
Reposted by Ivan Liachko
Structural variants often go undetected by traditional cytogenetics. A new review in Genes shows how Genomic Proximity Mapping™ (GPM) detects complex SVs right from FFPE. Read more Dr. Patrick Gonzales at the University of Kansas Medical Center: www.mdpi.com/2073-4425/16...
August 6, 2025 at 4:28 PM
Structural variants often go undetected by traditional cytogenetics. A new review in Genes shows how Genomic Proximity Mapping™ (GPM) detects complex SVs right from FFPE. Read more Dr. Patrick Gonzales at the University of Kansas Medical Center: www.mdpi.com/2073-4425/16...
Reposted by Ivan Liachko
When sample quality is low, insight usually is too. Not with Genomic Proximity Mapping™ (GPM).
Phase Genomics’ GPM works on #FFPE and mosaic samples. It’s just one assay, no metaphase prep, and no tradeoff in resolution. A new preprint shows how: www.medrxiv.org/content/10.1...
Phase Genomics’ GPM works on #FFPE and mosaic samples. It’s just one assay, no metaphase prep, and no tradeoff in resolution. A new preprint shows how: www.medrxiv.org/content/10.1...
August 4, 2025 at 5:50 PM
When sample quality is low, insight usually is too. Not with Genomic Proximity Mapping™ (GPM).
Phase Genomics’ GPM works on #FFPE and mosaic samples. It’s just one assay, no metaphase prep, and no tradeoff in resolution. A new preprint shows how: www.medrxiv.org/content/10.1...
Phase Genomics’ GPM works on #FFPE and mosaic samples. It’s just one assay, no metaphase prep, and no tradeoff in resolution. A new preprint shows how: www.medrxiv.org/content/10.1...
Reposted by Ivan Liachko
This is very cool
A major advance in the field of human #genetics and #cancer #genomics! As always, we are proud to have been able to contribute our small part to this huge undertaking.
🧬 130 haplotypes, many T2T
🧬 Closed 92% of assembly gaps
🧬 1,852 complex SVs
🧬 1,246 centromeres
www.nature.com/articles/s41...
🧬 130 haplotypes, many T2T
🧬 Closed 92% of assembly gaps
🧬 1,852 complex SVs
🧬 1,246 centromeres
www.nature.com/articles/s41...
Complex genetic variation in nearly complete human genomes - Nature
Using sequencing and haplotype-resolved assembly of 65 diverse human genomes, complex regions including the major histocompatibility complex and centromeres are analysed.
www.nature.com
July 28, 2025 at 5:55 PM
This is very cool
Reposted by Ivan Liachko
🌸 Chromosome-scale genome of Petunia hybrida assembled with Proximo Hi-C, PacBio HiFi, Illumina & Bionano. 7 pseudochromosomes, 99.8% BUSCO with Hi-C being key for resolving repeats. A powerful resource for Solanaceae genetics & breeding. #genome #HiC
📄 hubs.la/Q03ypPmb0
📄 hubs.la/Q03ypPmb0
July 25, 2025 at 6:11 AM
🌸 Chromosome-scale genome of Petunia hybrida assembled with Proximo Hi-C, PacBio HiFi, Illumina & Bionano. 7 pseudochromosomes, 99.8% BUSCO with Hi-C being key for resolving repeats. A powerful resource for Solanaceae genetics & breeding. #genome #HiC
📄 hubs.la/Q03ypPmb0
📄 hubs.la/Q03ypPmb0
By popular demand by you, #genomics people - this buffer is super useful for Hi-C and we'll give you some if you ask for it, no strings attached.
July 23, 2025 at 7:49 PM
By popular demand by you, #genomics people - this buffer is super useful for Hi-C and we'll give you some if you ask for it, no strings attached.
Reposted by Ivan Liachko
🌱🧬Researchers released haplotype-resolved, chromosome-level genomes of Eupatorium splendens - a plant known for medicinal properties and ability to thrive in contaminated soils. A powerful resource for studying stress adaptation & secondary metabolism. www.nature.com/articles/s41...
Haplotype-resolved chromosome-level genome sequence of Elsholtzia splendens (Nakai ex F.Maek.) - Scientific Data
Scientific Data - Haplotype-resolved chromosome-level genome sequence of Elsholtzia splendens (Nakai ex F.Maek.)
www.nature.com
July 22, 2025 at 6:34 PM
🌱🧬Researchers released haplotype-resolved, chromosome-level genomes of Eupatorium splendens - a plant known for medicinal properties and ability to thrive in contaminated soils. A powerful resource for studying stress adaptation & secondary metabolism. www.nature.com/articles/s41...
Reposted by Ivan Liachko
🍓 Meet ‘Yuexin’ - a next-gen #strawberry with smoother texture, better shelf life, and sweeter aroma. Scientists have released its fully phased #genome, revealing the genetic secrets behind these tasty traits. Proximo #HiC +
@pacbio.bsky.social for the win! 🧬
🔗 hubs.la/Q03tZvZD0
@pacbio.bsky.social for the win! 🧬
🔗 hubs.la/Q03tZvZD0
July 15, 2025 at 8:07 PM
🍓 Meet ‘Yuexin’ - a next-gen #strawberry with smoother texture, better shelf life, and sweeter aroma. Scientists have released its fully phased #genome, revealing the genetic secrets behind these tasty traits. Proximo #HiC +
@pacbio.bsky.social for the win! 🧬
🔗 hubs.la/Q03tZvZD0
@pacbio.bsky.social for the win! 🧬
🔗 hubs.la/Q03tZvZD0
Reposted by Ivan Liachko
“It’s not a brute force technology. It’s a clever technology.”
— Jon Chee, CEO @ Excedr
In the finale of The Biotech Startups Podcast, Jon and @ivanliachko.bsky.social unpack how smart science powers Phase Genomics' impact in cancer research, metagenomics & more👇
youtu.be/fqL6ZvS2sNQ?...
— Jon Chee, CEO @ Excedr
In the finale of The Biotech Startups Podcast, Jon and @ivanliachko.bsky.social unpack how smart science powers Phase Genomics' impact in cancer research, metagenomics & more👇
youtu.be/fqL6ZvS2sNQ?...
Growth Without Venture Capital: The Bootstrapped Biotech Playbook | Ivan Liachko (Part 4/4)
YouTube video by The Biotech Startups Podcast | Excedr
youtu.be
July 9, 2025 at 4:28 PM
“It’s not a brute force technology. It’s a clever technology.”
— Jon Chee, CEO @ Excedr
In the finale of The Biotech Startups Podcast, Jon and @ivanliachko.bsky.social unpack how smart science powers Phase Genomics' impact in cancer research, metagenomics & more👇
youtu.be/fqL6ZvS2sNQ?...
— Jon Chee, CEO @ Excedr
In the finale of The Biotech Startups Podcast, Jon and @ivanliachko.bsky.social unpack how smart science powers Phase Genomics' impact in cancer research, metagenomics & more👇
youtu.be/fqL6ZvS2sNQ?...
Reposted by Ivan Liachko
New💩🚰👨🔬 study in #EnvMicrobiology uses shotgun & Hi-C metagenomics to reveal rapid shifts in antibiotic resistance genes and their microbial hosts, highlighting the dynamic nature of resistomes. #AMR #Metagenomics
🔗https://hubs.la/Q03tZ1Jf0
🔗https://hubs.la/Q03tZ1Jf0
July 8, 2025 at 8:11 PM
New💩🚰👨🔬 study in #EnvMicrobiology uses shotgun & Hi-C metagenomics to reveal rapid shifts in antibiotic resistance genes and their microbial hosts, highlighting the dynamic nature of resistomes. #AMR #Metagenomics
🔗https://hubs.la/Q03tZ1Jf0
🔗https://hubs.la/Q03tZ1Jf0
Reposted by Ivan Liachko
TBT: 🧬 Throwing it back to a cool study from Aug 2021! Using proximity ligation, this paper explores the two-compartment genome of R. irregularis, a model arbuscular mycorrhizal symbiont, using Proximo #HiC and @nanoporetech.com sequencing. @Blunt_Microbe
🔗 Full study: hubs.la/Q03tZ6Ch0
🔗 Full study: hubs.la/Q03tZ6Ch0
July 3, 2025 at 5:18 PM
TBT: 🧬 Throwing it back to a cool study from Aug 2021! Using proximity ligation, this paper explores the two-compartment genome of R. irregularis, a model arbuscular mycorrhizal symbiont, using Proximo #HiC and @nanoporetech.com sequencing. @Blunt_Microbe
🔗 Full study: hubs.la/Q03tZ6Ch0
🔗 Full study: hubs.la/Q03tZ6Ch0
Reposted by Ivan Liachko
“If we don’t commercialize this, it’s going to be a crime against science.” - @ivanliachko.bsky.social, Founder and CEO
Hear how a postdoc aha moment became a platform accelerating #microbiome research, tackling #AMR & more on the Biotech Startups Podcast: www.youtube.com/watch?v=U2UG...
Hear how a postdoc aha moment became a platform accelerating #microbiome research, tackling #AMR & more on the Biotech Startups Podcast: www.youtube.com/watch?v=U2UG...
How 3D Genome Mapping is Changing Everything We Know About DNA | Ivan Liachko (Part 3/4)
YouTube video by The Biotech Startups Podcast | Excedr
www.youtube.com
July 2, 2025 at 5:57 PM
“If we don’t commercialize this, it’s going to be a crime against science.” - @ivanliachko.bsky.social, Founder and CEO
Hear how a postdoc aha moment became a platform accelerating #microbiome research, tackling #AMR & more on the Biotech Startups Podcast: www.youtube.com/watch?v=U2UG...
Hear how a postdoc aha moment became a platform accelerating #microbiome research, tackling #AMR & more on the Biotech Startups Podcast: www.youtube.com/watch?v=U2UG...
Reposted by Ivan Liachko
Unleashing the wild side of lupins! 🌕🐺🍃
Researchers built #genomes of rough-seeded lupins - L. cosentinii & L. digitatus - revealing unique #gene expansions tied to stress resilience and seed traits. A howling good resource for legume breeding! #HiC
🔗 hubs.la/Q03v1F2c0
Researchers built #genomes of rough-seeded lupins - L. cosentinii & L. digitatus - revealing unique #gene expansions tied to stress resilience and seed traits. A howling good resource for legume breeding! #HiC
🔗 hubs.la/Q03v1F2c0
July 1, 2025 at 8:45 PM
Unleashing the wild side of lupins! 🌕🐺🍃
Researchers built #genomes of rough-seeded lupins - L. cosentinii & L. digitatus - revealing unique #gene expansions tied to stress resilience and seed traits. A howling good resource for legume breeding! #HiC
🔗 hubs.la/Q03v1F2c0
Researchers built #genomes of rough-seeded lupins - L. cosentinii & L. digitatus - revealing unique #gene expansions tied to stress resilience and seed traits. A howling good resource for legume breeding! #HiC
🔗 hubs.la/Q03v1F2c0
Reposted by Ivan Liachko
Can’t see the full picture with karyotyping or microarrays?
New research in
@Genes_MDPI
shows how Genomic Proximity Mapping (GPM) detects structural variants other tools miss - translocations, insertions & CN-LOH - even from FFPE!
hubs.la/Q03v2s2N0
#Cancer #Cytogenetics
New research in
@Genes_MDPI
shows how Genomic Proximity Mapping (GPM) detects structural variants other tools miss - translocations, insertions & CN-LOH - even from FFPE!
hubs.la/Q03v2s2N0
#Cancer #Cytogenetics
June 27, 2025 at 5:41 PM
Can’t see the full picture with karyotyping or microarrays?
New research in
@Genes_MDPI
shows how Genomic Proximity Mapping (GPM) detects structural variants other tools miss - translocations, insertions & CN-LOH - even from FFPE!
hubs.la/Q03v2s2N0
#Cancer #Cytogenetics
New research in
@Genes_MDPI
shows how Genomic Proximity Mapping (GPM) detects structural variants other tools miss - translocations, insertions & CN-LOH - even from FFPE!
hubs.la/Q03v2s2N0
#Cancer #Cytogenetics