CRISPR Functional Genomics

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SciLifeLab Infrastructure Unit Since 2017. Previously called "High-throughput Genome Engineering (HTGE)"

Primary: Shown in the list of current labels, if end date is not specified.

Started: 2017

Ended: Current

Year 2026

PubMed DOI Crossref
Identification of long non-coding RNAs involved in leukemogenesis and venetoclax response in acute myeloid leukemia through functional CRISPR-dCas9 interference screens
Cozzi E, Neddermeyer A, Miliara S, ..., Lennartsson A, Lehmann S
Noncoding RNA Res 20 (-) 29-43 [2026-10-00; online 2026-10-00]
CRISPR Functional Genomics [Service] NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Pathogenic POLRMT variants in mice impair mtDNA transcription and affect perinatal survival
Alsina D, Rubalcava-Gracia D, Bubb K, ..., Koolmeister C, Larsson NG
JCI Insight 11 (14) - [2026-07-22; online 2026-07-22]
CRISPR Functional Genomics [Service]
PubMed DOI Crossref
USP18 Impacts Cisplatin Resistance in Ovarian Cancer Cells by Modulating DNA Repair.
Corno C, Costantino M, Pettinari P, ..., D'Arcy P, Perego P
Int. J. Biol. Sci. 22 (11) 5780-5798 [2026-05-29; online 2026-05-29]
CRISPR Functional Genomics [Service]
PubMed DOI Crossref
Mitochondria serve as a holdout compartment for aggregation-prone proteins hindering efficient degradation.
Gierisch ME, Barchi E, Marogna M, ..., Salomons FA, Dantuma NP
Nat Commun 17 (1) - [2026-05-07; online 2026-05-07]
CRISPR Functional Genomics [Service] NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]

Year 2025

PubMed DOI Crossref
ZEB1, a novel junctional adhesion molecule A regulator, impacts sensitivity of pancreatic cancer-associated fibroblasts to reovirus.
Dam N, Harryvan TJ, Dang H, ..., Hawinkels LJAC, Kemp V
Mol Ther Oncol 33 (4) 201071 [2025-12-18; online 2025-10-17]
Bioinformatics Support for Computational Resources [Service] CRISPR Functional Genomics [Service] NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
DOI Crossref
Oligodendroglia as functional effectors of Multiple Sclerosis risk variants
Carlström KE, Agirre E, Sun T, ..., Goldman SA, Castelo-Branco G
biorxiv - (-) - [2025-11-12; online 2025-11-12]
CRISPR Functional Genomics [Service] NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
An injury-associated lobular microniche is associated with the classical tumor cell phenotype in pancreatic cancer.
Söderqvist S, Viljamaa A, Geyer N, ..., Fernández Moro C, Gerling M
Nat Commun 16 (1) 8307 [2025-09-26; online 2025-09-26]
Bioinformatics Support for Computational Resources [Service] CRISPR Functional Genomics [Collaborative] NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
SMAD3 and p300 complex scaffolding by long non-coding RNA LIMD1-AS1 promotes TGF-β-induced breast cancer cell plasticity.
Fan C, Cats D, Selle M, ..., Ten Dijke P, Wang Q
Nucleic Acids Res. 53 (16) - [2025-08-27; online 2025-09-01]
CRISPR Functional Genomics [Collaborative] NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Genome-wide identification of modulators of Chlamydia trachomatis parasitophorous vacuole stability highlights an important role for sphingolipid supply.
Babu Sait MR, Jachmann LH, Türköz G, ..., Schmierer B, Sixt BS
PLoS Biol. 23 (8) e3003297 [2025-08-00; online 2025-08-12]
Bioinformatics Support for Computational Resources [Service] CRISPR Functional Genomics [Collaborative] Chemical Biology Consortium Sweden [Service] Integrated Microscopy Technologies Umeå [Technology development] NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Green Listed v2.0: A Web Application for Streamlined Design of Custom CRISPR Screens.
Henkel E, Li Z, Uvehag D, ..., Henkel M, Wermeling F
CRISPR J 8 (3) 216-223 [2025-06-00; online 2025-05-07]
CRISPR Functional Genomics [Collaborative] NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Nuclear AGO2 supports influenza A virus replication through type-I interferon regulation.
Huang HC, Fong M, Nowak I, ..., Angeletti D, Sarshad AA
Nucleic Acids Res. 53 (7) - [2025-04-10; online 2025-04-12]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative] CRISPR Functional Genomics [Service] NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Identification of a SNAI1 enhancer RNA that drives cancer cell plasticity.
Fan C, Wang Q, Krijger PHL, ..., de Laat W, Ten Dijke P
Nat Commun 16 (1) 2890 [2025-03-25; online 2025-03-25]
Bioinformatics Support for Computational Resources [Service] CRISPR Functional Genomics [Collaborative] NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
A large-scale sORF screen identifies putative microproteins involved in cancer cell fitness.
Schlesinger D, Dirks C, Navarro C, ..., Martinez TF, Elsässer SJ
iScience 28 (3) 111884 [2025-03-21; online 2025-01-23]
Bioinformatics Support for Computational Resources [Service] CRISPR Functional Genomics [Service] NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]

Year 2024

PubMed DOI Crossref
VLDLR mediates Semliki Forest virus neuroinvasion through the blood-cerebrospinal fluid barrier.
Martikainen M, Lugano R, Pietilä I, ..., Dimberg A, Essand M
Nat Commun 15 (1) 10718 [2024-12-23; online 2024-12-23]
Bioinformatics Support for Computational Resources [Service] CRISPR Functional Genomics [Service]
PubMed DOI Crossref
LRPPRC and SLIRP synergize to maintain sufficient and orderly mammalian mitochondrial translation.
Rubalcava-Gracia D, Bubb K, Levander F, ..., Koolmeister C, Larsson NG
Nucleic Acids Res. 52 (18) 11266-11282 [2024-10-14; online 2024-08-01]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative] CRISPR Functional Genomics [Service]
PubMed DOI Crossref
Epigenetic regulation of cell state by H2AFY governs immunogenicity in high-risk neuroblastoma.
Nagarajan D, Parracho RT, Corujo D, ..., Buschbeck M, Mao Y
J. Clin. Invest. 134 (21) - [2024-09-10; online 2024-09-10]
Bioinformatics Support for Computational Resources [Service] CRISPR Functional Genomics [Service]
PubMed DOI Crossref
The Crosstalk Analysis between mPSCs and Panc1 Cells Identifies CCN1 as a Positive Regulator of Gemcitabine Sensitivity in Pancreatic Cancer Cells.
Gündel B, Liu X, Pfützenreuter A, ..., Löhr JM, Heuchel R
Int J Mol Sci 25 (17) - [2024-08-29; online 2024-08-29]
CRISPR Functional Genomics [Service]
PubMed DOI Crossref
CRISPR-Cas9 Knockout Screens Identify DNA Damage Response Pathways and BTK as Essential for Cisplatin Response in Diffuse Large B-Cell Lymphoma.
Issa II, Due H, Brøndum RF, ..., Schmierer B, Dybkær K
Cancers (Basel) 16 (13) 2437 [2024-07-02; online 2024-07-02]
Bioinformatics Support for Computational Resources [Service] CRISPR Functional Genomics [Collaborative]
PubMed DOI Crossref
Loss of NEDD8 in cancer cells causes vulnerability to immune checkpoint blockade in triple-negative breast cancer.
Papakyriacou I, Kutkaite G, Rúbies Bedós M, ..., Menden MP, Mao Y
Nat Commun 15 (1) 3581 [2024-04-27; online 2024-04-27]
Bioinformatics Support for Computational Resources [Service] CRISPR Functional Genomics [Service]
PubMed DOI Crossref
Radiolabeled 15-mer peptide internalization is mediated by megalin (LRP2 receptor) in a CRISPR/Cas9-based LRP2 knockout human kidney cell model.
Durinova A, Smutna L, Barta P, ..., Pavek P, Trejtnar F
EJNMMI Radiopharm Chem 9 (1) 32 [2024-04-18; online 2024-04-18]
CRISPR Functional Genomics [Collaborative]
PubMed DOI Crossref
Deletion of the TMEM30A gene enables leukemic cell evasion of NK cell cytotoxicity.
Kristenson L, Badami C, Ljungberg A, ..., Tang KW, Thorén FB
Proc. Natl. Acad. Sci. U.S.A. 121 (15) e2316447121 [2024-04-09; online 2024-04-01]
Bioinformatics Support for Computational Resources [Service] CRISPR Functional Genomics [Service]
DOI Crossref
Abstract 2025: Zeb1 downregulation sensitizes pancreatic cancer-associated fibroblasts to killing by oncolytic reovirus through upregulation of the reovirus receptor junction adhesion molecule A
Dam N, Harryvan TJ, Schmierer B, Hawinkels LJAC, Kemp V
Cancer Res. 84 (6_Supplement) 2025-2025 [2024-03-22; online 2024-03-22]
CRISPR Functional Genomics [Collaborative]
DOI Crossref
A distinctive tumor compartment in pancreatic lobules defined by nascent stroma and classical tumor cell phenotype
Söderqvist S, Viljamaa A, Geyer N, ..., Moro CF, Gerling M
biorxiv - (-) - [2024-03-15; online 2024-03-15]
CRISPR Functional Genomics [Collaborative]
DOI Crossref
Nuclear RNAi Modulates Influenza A Virus Infectivity By Downregulating Type-I Interferon Response
Huang HC, Nowak I, Lobo V, ..., Angeletti D, Sarshad AA
biorxiv - (-) - [2024-03-07; online 2024-03-07]
CRISPR Functional Genomics [Service]

Year 2023

PubMed DOI Crossref
An idiosyncratic zonated stroma encapsulates desmoplastic liver metastases and originates from injured liver.
Fernández Moro C, Geyer N, Harrizi S, ..., Bozóky B, Gerling M
Nat Commun 14 (1) 5024 [2023-08-18; online 2023-08-18]
CRISPR Functional Genomics [Service] NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Investigation of enzalutamide, docetaxel, and cabazitaxel resistance in the castration resistant prostate cancer cell line C4 using genome-wide CRISPR/Cas9 screening.
Haldrup J, Weiss S, Schmidt L, Sørensen KD
Sci Rep 13 (1) 9043 [2023-06-03; online 2023-06-03]
CRISPR Functional Genomics [Service]
PubMed DOI Crossref
CRISPR-Cas9 knockout screen identifies novel treatment targets in childhood high-grade glioma.
Wenger A, Karlsson I, Kling T, Carén H
Clin Epigenetics 15 (1) 80 [2023-05-09; online 2023-05-09]
CRISPR Functional Genomics [Service] Integrated Microscopy Technologies Gothenburg [Service]
DOI Crossref
Abstract 3778: Genome-Scale CRISPRa and CRISPRi screening for lncRNA drivers of prostate cancer progression
Weiss S, Lord A, Schmierer B, ..., Borre M, Sørensen KD
Cancer Res. 83 (7_Supplement) 3778-3778 [2023-04-04; online 2023-04-04]
CRISPR Functional Genomics [Service]

Year 2022

DOI Crossref
Abstract A007: Pancreatic cancer comprises co-existing transcriptional states regulated by distinct master regulator programs
Laise P, Turunen M, Maurer HC, ..., Olive KPP, Califano A
Cancer Res. 82 (22_Supplement) A007-A007 [2022-11-15; online 2022-11-15]
CRISPR Functional Genomics [Service]
PubMed DOI Crossref
New regulators of the tetracycline‐inducible gene expression system identified by chemical and genetic screens
Colicchia V, Häggblad M, Sirozh O, ..., Hühn D, Fernandez‐Capetillo O
FEBS Open Bio 12 (10) 1896-1908 [2022-10-00; online 2022-09-11]
CRISPR Functional Genomics [Service] Chemical Biology Consortium Sweden [Service]
PubMed DOI Crossref
MYC assembles and stimulates topoisomerases 1 and 2 in a "topoisome".
Das SK, Kuzin V, Cameron DP, ..., Levens D, Baranello L
Mol. Cell 82 (1) 140-158.e12 [2022-01-06; online 2021-12-09]
CRISPR Functional Genomics [Service]
PubMed DOI Crossref
Metabolic resistance to the inhibition of mitochondrial transcription revealed by CRISPR-Cas9 screen.
Mennuni M, Filograna R, Felser A, ..., Lytovchenko O, Larsson N
EMBO Rep. 23 (1) e53054 [2022-01-05; online 2021-11-15]
CRISPR Functional Genomics [Service] NGI Short read [Service] National Genomics Infrastructure [Service]

Year 2021

PubMed DOI Crossref
Rapid genome editing by CRISPR-Cas9-POLD3 fusion
Reint G, Li Z, Labun K, ..., Taipale J, Haapaniemi E
Elife 10 (-) - [2021-12-13; online 2021-12-13]
CRISPR Functional Genomics [Collaborative]
PubMed DOI Crossref
Inhibition of the ubiquitin-proteasome system by an NQO1-activatable compound.
Giovannucci TA, Salomons FA, Haraldsson M, ..., Johnsen JI, Dantuma NP
Cell Death Dis 12 (10) 914 [2021-10-06; online 2021-10-06]
CRISPR Functional Genomics [Service] Chemical Biology Consortium Sweden [Collaborative] Global Proteomics and Proteogenomics [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]

Year 2020

DOI Crossref
Developmental and MAPK-responsive transcription factors drive distinct malignant subtypes and genetic dependencies in pancreatic cancer
Laise P, Turunen M, Garcia AC, ..., Olive KP, Califano A
biorxiv - (-) - [2020-10-27; online 2020-10-27]
CRISPR Functional Genomics [Service]
PubMed DOI Crossref
Designing custom CRISPR libraries for hypothesis-driven drug target discovery.
Iyer VS, Jiang L, Shen Y, ..., Schmierer B, Wermeling F
Computational and Structural Biotechnology Journal 18 (-) 2237-2246 [2020-08-18; online 2020-08-18]
Bioinformatics Support for Computational Resources [Service] CRISPR Functional Genomics [Collaborative]
PubMed DOI Crossref
A regulatory role for CHD2 in myelopoiesis.
Shahin Varnoosfaderani F, Palau A, Dong W, ..., Svensson JP, Lennartsson A
Epigenetics 15 (6-7) 702-714 [2020-01-10; online 2020-01-10]
Bioinformatics Support for Computational Resources [Service] CRISPR Functional Genomics [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]

Year 2019

PubMed DOI Crossref
Reply to "CRISPR screens are feasible in TP53 wild-type cells".
Haapaniemi E, Botla S, Persson J, Schmierer B, Taipale J
Mol. Syst. Biol. 15 (8) e9059 [2019-08-00; online 2019-08-30]
CRISPR Functional Genomics [Collaborative]
PubMed DOI Crossref
TGF-β family ligands exhibit distinct signalling dynamics that are driven by receptor localisation.
Miller DSJ, Schmierer B, Hill CS
J. Cell. Sci. 132 (14) - [2019-07-15; online 2019-07-15]
CRISPR Functional Genomics [Collaborative]

Year 2018

PubMed DOI Crossref
Contribution of allelic imbalance to colorectal cancer.
Palin K, Pitkänen E, Turunen M, ..., Taipale J, Aaltonen LA
Nat Commun 9 (1) 3664 [2018-09-10; online 2018-09-10]
Bioinformatics Support for Computational Resources [Service] CRISPR Functional Genomics [Collaborative] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
CRISPR-Cas9 genome editing induces a p53-mediated DNA damage response.
Haapaniemi E, Botla S, Persson J, Schmierer B, Taipale J
Nat. Med. 24 (7) 927-930 [2018-07-00; online 2018-06-11]
CRISPR Functional Genomics [Collaborative] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service] Protein Science Facility (PSF) [Service]

Year 2017

PubMed DOI Crossref
CRISPR/Cas9 screening using unique molecular identifiers.
Schmierer B, Botla SK, Zhang J, ..., Kivioja T, Taipale J
Mol. Syst. Biol. 13 (10) 945 [2017-10-09; online 2017-10-09]
CRISPR Functional Genomics [Technology development]
SciLifeLab Data Centre
Publications 9.5.1