@f_hach
 Vancouver, British Columbia
hachlab.org
Joined May 2013
  • Tweets57
  • Following97
  • Followers125
3Media
Faraz Hach retweeted
Hach Lab@HachLab8 Dec 2022
Our work on Freddie, an annotation-indepented isoform discovery using long-reads tool, is finally published at @NAR_Open! Check the open access code and paper: 📄: academic.oup.com/nar/advance… 💾: github.com/vpc-ccg/freddie/ 🐍: conda install -c bioconda freddie

Freddie: annotation-independent detection and discovery of transcriptomic alternative splicing...

Abstract. Alternative splicing (AS) is an important mechanism in the development of many cancers, as novel or aberrant AS patterns play an important role a

academic.oup.com
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Call For Papers is out, key dates announced: Paper submission: Oct 7, 2022 Notification: Nov 20, 2022 Final versions due: Jan 8, 2023 More at recomb2023.bilkent.edu.tr/ke… and recomb2023.bilkent.edu.tr/ca…
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Faraz Hach retweeted
Hach Lab@HachLab24 Jun 2022
Our latest manuscript by Ghazal Ebrahimi and @baraaorabi is now published by @iScience_CP! "Fast and accurate matching of cellular barcodes across short-reads and long-reads of single-cell RNA-seq experiments" 💾: github.com/vpc-ccg/scTagger 📃: sciencedirect.com/science/ar…

GitHub - vpc-ccg/scTagger: 10x single cell short- and long-read RNA sequencing

10x single cell short- and long-read RNA sequencing - vpc-ccg/scTagger

github.com
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Faraz Hach retweeted
Hach Lab@HachLab20 May 2022
If you are at @RECOMBseq, make sure to attend our grad student podium presentation by Ghazal Ebrahimi on scTagger: 📜: biorxiv.org/content/10.1101/… 💿: github.com/vpc-ccg/scTagger

scTagger: Fast and accurate matching of cellular barcodes across short- and long-reads of single-...

Single-cell RNA sequencing allows for characterizing the gene expression landscape at the cell type level. However, because of its use of short-reads, it is severely limited at detecting full-length...

biorxiv.org
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Faraz Hach retweeted
Hach Lab@HachLab14 Feb 2022
Read our latest research published by @SpringerNature's @BioMedCentral on gene fusion detection using long-reads. Our latest tool, Genion, is developed by our PhD student @fkaraoglan_cs 📜: bmcgenomics.biomedcentral.co… 💻: github.com/vpc-ccg/genion 🐍: anaconda.org/bioconda/genion

Genion, an accurate tool to detect gene fusion from long transcriptomics reads

BMC Genomics - The advent of next-generation sequencing technologies empowered a wide variety of transcriptomics studies. A widely studied topic is gene fusion which is observed in many cancer...

link.springer.com
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Faraz Hach retweeted
RECOMBseq@RECOMBseq7 Sep 2021
RECOMB-Seq now has an official YouTube channel! Most talks from 2020 and 2021 are now available here: youtube.com/channel/UCYdQZ9e…

RECOMB-Seq - Biological Sequence Analysis

RECOMB-seq was founded in 2011 as a response to the expanding applications of high-throughput sequencing as a tool of basic science and biomedicine. The conference gathered leading researchers in...

youtube.com
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📢ANNOUNCEMENT: The 2021 Scholar & Research Trainee awardees are advancing science and contributing to world-class #health #research in BC to ultimately improve the health of British Columbians. Meet the 86 recipients: bit.ly/3nmkcyn #MSFHRCommunity
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I'll also be talking about mdBG in this year's RECOMB on Tuesday, August 31 at 3PM. Happening virtually, and free! xitter.cf/recomb21/status/142222…
recomb2021@recomb212 Aug 2021
Some updates! 🎆 The program for #RECOMB2021, featuring six distinguished keynote speakers, is now available! recomb2021.org/program To maximize the opportunity for every member of the community to join #RECOMB2021, we will offer #free registration to the conference! ⬇️
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Faraz Hach retweeted
Lack Lab@lack_lab11 May 2021
Very proud of the latest work from our lab were we aimed to understand why there are vastly more androgen receptor binding sites (ARBS) than AR-regulated genes. We functional tested all common clinical binding sites and found.....genomebiology.biomedcentral.…👇1/n

Functional mapping of androgen receptor enhancer activity

Genome Biology - Androgen receptor (AR) is critical to the initiation, growth, and progression of prostate cancer. Once activated, the AR binds to cis-regulatory enhancer elements on DNA that drive...

link.springer.com
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Faraz Hach retweeted
RECOMBseq@RECOMBseq3 Mar 2021
The paper deadline for RECOMB-Seq 2021 is coming up on March 22! Check out the website for more information. recomb2021.org/recomb-seq-sa…
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Faraz Hach retweeted
Hach Lab@HachLab1 Mar 2021
Our paper on annotation-free detection and discovery of alternative splicing has been accepted to @recomb2020! Congrats to our PhD student @baraaorabi and @VanProstateCtr and thanks to @NSERC_CRSNG and @msfhr for funding! 📰: biorxiv.org/content/10.1101/… 💾: github.com/vpc-ccg/freddie/

Freddie: Annotation-independent Detection and Discovery of Transcriptomic Alternative Splicing...

Alternative splicing (AS) is an important mechanism in the development of many cancers, as novel or aberrant AS patterns play an important role as an independent onco-driver. In addition, cancer-sp...

biorxiv.org
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Today is #WorldCancerResearchDay and we can't think of a better way to celebrate it than to share this picture of TFRI-funded researchers coming together to honour Terry's legacy. We want the world to know how committed we are to finding new cures for cancer...TOGETHER.
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Faraz Hach retweeted
PacBio
@PacBio21 Sep 2020
Checkmate, Chromosome 8: The First End-to-End Sequence of a Human Autosome. Congrats to @glennis_logsdon & the #T2T team on this amazing work! ow.ly/C6xx50Bx40T #HiFiReads
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I'll give a talk tomorrow on indexing k-mers, 8pm CET, public Zoom link below
VanBUG@VanBUG_10 Sep 2020
Our next #VanBUG webinar, by Dr. @RayanChikhi, on "Efficient indexing of k-mer presence and abundance in sequencing datasets", is coming up Wed, Sep 16th 11-12:30pm PST! Zoom Link posted day of event. More details @ vanbug.org #Bioinformatics
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Faraz Hach retweeted
iScience@iScience_CP12 Sep 2020
Long reads weighing down your genome assembly speed? HASLR is a hybrid assembler combining short and long reads to speed it up @f_hach @SFU @RECOMBSeq @RECOMB2020 bit.ly/2RxFuIt Editor @tonzani
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Faraz Hach retweeted
VanBUG@VanBUG_10 Sep 2020
Our next #VanBUG webinar, by Dr. @RayanChikhi, on "Efficient indexing of k-mer presence and abundance in sequencing datasets", is coming up Wed, Sep 16th 11-12:30pm PST! Zoom Link posted day of event. More details @ vanbug.org #Bioinformatics
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Faraz Hach retweeted
𝕐@nomad42111 Sep 2020
WABI 2020 was an awesome virtual conference. Luckily, even if you didn't have a chance to attend, you can watch the talks — algo2020.di.unipi.it/program… !
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Detecting High Scoring Local Alignments in Pangenome Graphs biorxiv.org/cgi/content/shor… #bioRxiv
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Faraz Hach retweeted
Hach Lab@HachLab14 Aug 2020
Our fast hybrid assembler tool, HASLR, just got published by @iScience_CP! Congrats to @haghshenas_e for getting his final PhD work out 🎉 📜: cell.com/iscience/fulltext/S… 💾: github.com/vpc-ccg/haslr 🐍: conda install -c bioconda haslr

GitHub - vpc-ccg/haslr: A fast tool for hybrid genome assembly of long and short reads

A fast tool for hybrid genome assembly of long and short reads - vpc-ccg/haslr

github.com
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Faraz Hach retweeted
𝕐@nomad42113 Aug 2020
I'm very excited to have the pre-print out for puffaligner, an efficient alignment tool based on the pufferfish index (biorxiv.org/content/10.1101/…). This has been a monumental work by Mohsen and @fataltes in terms of design, engineering, testing and benchmarking. 1/10

Puffaligner: An Efficient and Accurate Aligner Based on the Pufferfish Index

Motivation Sequence alignment is one of the first steps in many modern genomic analyses, such as variant detection, transcript abundance estimation and metagenomic profiling. Unfortunately, it is...

biorxiv.org
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