AirLab: a cloud-based platform to manage and share antibody-based single-cell research.


:Single-cell analysis technologies are essential tools in research and clinical diagnostics. These methods include flow cytometry, mass cytometry, and other microfluidics-based technologies. Most laboratories that employ these methods maintain large repositories of antibodies. These ever-growing collections of antibodies, their multiple conjugates, and the large amounts of data generated in assays using specific antibodies and conditions makes a dedicated software solution necessary. We have developed AirLab, a cloud-based tool with web and mobile interfaces, for the organization of these data. AirLab streamlines the processes of antibody purchase, organization, and storage, antibody panel creation, results logging, and antibody validation data sharing and distribution. Furthermore, AirLab enables inventory of other laboratory stocks, such as primers or clinical samples, through user-controlled customization. Thus, AirLab is a mobile-powered and flexible tool that harnesses the capabilities of mobile tools and cloud-based technology to facilitate inventory and sharing of antibody and sample collections and associated validation data.


Genome Biol


Genome biology


Catena R,Özcan A,Jacobs A,Chevrier S,Bodenmiller B




Has Abstract


2016-06-29 00:00:00














  • Zinc finger nuclease-based double-strand breaks attenuate malaria parasites and reveal rare microhomology-mediated end joining.

    abstract:BACKGROUND:Genome editing of malaria parasites is key to the generation of live attenuated parasites used in experimental vaccination approaches. DNA repair in Plasmodium generally occurs only through homologous recombination. This has been used to generate transgenic parasites that lack one to three genes, leading to ...

    journal_title:Genome biology

    pub_type: 杂志文章


    authors: Singer M,Marshall J,Heiss K,Mair GR,Grimm D,Mueller AK,Frischknecht F

    更新日期:2015-11-17 00:00:00

  • Identifying related L1 retrotransposons by analyzing 3' transduced sequences.

    abstract:BACKGROUND:A large fraction of the human genome is attributable to L1 retrotransposon sequences. Not only do L1s themselves make up a significant portion of the genome, but L1-encoded proteins are thought to be responsible for the transposition of other repetitive elements and processed pseudogenes. In addition, L1s ca...

    journal_title:Genome biology

    pub_type: 杂志文章


    authors: Szak ST,Pickeral OK,Landsman D,Boeke JD

    更新日期:2003-01-01 00:00:00

  • Altered retinal microRNA expression profile in a mouse model of retinitis pigmentosa.

    abstract:BACKGROUND:The role played by microRNAs (miRs) as common regulators in physiologic processes such as development and various disease states was recently highlighted. Retinitis pigmentosa (RP) linked to RHO (which encodes rhodopsin) is the most frequent form of inherited retinal degeneration that leads to blindness, for...

    journal_title:Genome biology

    pub_type: 杂志文章


    authors: Loscher CJ,Hokamp K,Kenna PF,Ivens AC,Humphries P,Palfi A,Farrar GJ

    更新日期:2007-01-01 00:00:00

  • A prediction-based resampling method for estimating the number of clusters in a dataset.

    abstract:BACKGROUND:Microarray technology is increasingly being applied in biological and medical research to address a wide range of problems, such as the classification of tumors. An important statistical problem associated with tumor classification is the identification of new tumor classes using gene-expression profiles. Tw...

    journal_title:Genome biology

    pub_type: 杂志文章


    authors: Dudoit S,Fridlyand J

    更新日期:2002-06-25 00:00:00

  • Sex-specific gene expression in preimplantation mouse embryos.

    abstract::The 3.5-day-old blastocyst-stage mouse embryo consists of two tissues and contains approximately 60 cells. This tiny structure has now been observed to express nearly 600 genes in a sex-specific fashion, including at least one gene (Rhox/Pem) expressed only in females from their paternal X chromosome. ...

    journal_title:Genome biology

    pub_type: 杂志文章,评审


    authors: Eakin GS,Hadjantonakis AK

    更新日期:2006-01-01 00:00:00

  • OnTAD: hierarchical domain structure reveals the divergence of activity among TADs and boundaries.

    abstract::The spatial organization of chromatin in the nucleus has been implicated in regulating gene expression. Maps of high-frequency interactions between different segments of chromatin have revealed topologically associating domains (TADs), within which most of the regulatory interactions are thought to occur. TADs are not...

    journal_title:Genome biology

    pub_type: 杂志文章


    authors: An L,Yang T,Yang J,Nuebler J,Xiang G,Hardison RC,Li Q,Zhang Y

    更新日期:2019-12-18 00:00:00

  • Quantification of cell identity from single-cell gene expression profiles.

    abstract::The definition of cell identity is a central problem in biology. While single-cell RNA-seq provides a wealth of information regarding cell states, better methods are needed to map their identity, especially during developmental transitions. Here, we use repositories of cell type-specific transcriptomes to quantify ide...

    journal_title:Genome biology

    pub_type: 杂志文章


    authors: Efroni I,Ip PL,Nawy T,Mello A,Birnbaum KD

    更新日期:2015-01-22 00:00:00

  • Functional CRISPR screen identifies AP1-associated enhancer regulating FOXF1 to modulate oncogene-induced senescence.

    abstract:BACKGROUND:Functional characterization of non-coding elements in the human genome is a major genomic challenge and the maturation of genome-editing technologies is revolutionizing our ability to achieve this task. Oncogene-induced senescence, a cellular state of irreversible proliferation arrest that is enforced follow...

    journal_title:Genome biology

    pub_type: 杂志文章


    authors: Han R,Li L,Ugalde AP,Tal A,Manber Z,Barbera EP,Chiara VD,Elkon R,Agami R

    更新日期:2018-08-17 00:00:00

  • Schmutzi: estimation of contamination and endogenous mitochondrial consensus calling for ancient DNA.

    abstract:UNLABELLED:Ancient DNA is typically highly degraded with appreciable cytosine deamination, and contamination with present-day DNA often complicates the identification of endogenous molecules. Together, these factors impede accurate assembly of the endogenous ancient mitochondrial genome. We present schmutzi, an iterati...

    journal_title:Genome biology

    pub_type: 杂志文章


    authors: Renaud G,Slon V,Duggan AT,Kelso J

    更新日期:2015-10-12 00:00:00

  • Polysome profiling reveals translational control of gene expression in the human malaria parasite Plasmodium falciparum.

    abstract:BACKGROUND:In eukaryotic organisms, gene expression is regulated at multiple levels during the processes of transcription and translation. The absence of a tight regulatory network for transcription in the human malaria parasite suggests that gene expression may largely be controlled at post-transcriptional and transla...

    journal_title:Genome biology

    pub_type: 杂志文章


    authors: Bunnik EM,Chung DW,Hamilton M,Ponts N,Saraf A,Prudhomme J,Florens L,Le Roch KG

    更新日期:2013-11-22 00:00:00

  • Genomic studies of mood disorders -- the brain as a muscle?

    abstract::Recent genomic studies showing abnormalities in the fibroblast growth factor system in the postmortem brains of people with major depressive disorder support previous indications of a role for growth factors in mood disorders. Similar molecular pathways, volumetric changes, and the effects of exercise on mood suggest ...

    journal_title:Genome biology

    pub_type: 杂志文章,评审


    authors: Niculescu AB

    更新日期:2005-01-01 00:00:00

  • Comprehensive evaluation of structural variation detection algorithms for whole genome sequencing.

    abstract:BACKGROUND:Structural variations (SVs) or copy number variations (CNVs) greatly impact the functions of the genes encoded in the genome and are responsible for diverse human diseases. Although a number of existing SV detection algorithms can detect many types of SVs using whole genome sequencing (WGS) data, no single a...

    journal_title:Genome biology

    pub_type: 杂志文章


    authors: Kosugi S,Momozawa Y,Liu X,Terao C,Kubo M,Kamatani Y

    更新日期:2019-06-03 00:00:00

  • The draft genome of the C3 panicoid grass species Dichanthelium oligosanthes.

    abstract:BACKGROUND:Comparisons between C3 and C4 grasses often utilize C3 species from the subfamilies Ehrhartoideae or Pooideae and C4 species from the subfamily Panicoideae, two clades that diverged over 50 million years ago. The divergence of the C3 panicoid grass Dichanthelium oligosanthes from the independent C4 lineages ...

    journal_title:Genome biology

    pub_type: 杂志文章


    authors: Studer AJ,Schnable JC,Weissmann S,Kolbe AR,McKain MR,Shao Y,Cousins AB,Kellogg EA,Brutnell TP

    更新日期:2016-10-28 00:00:00

  • Alternative splicing is required for stage differentiation in malaria parasites.

    abstract:BACKGROUND:In multicellular organisms, alternative splicing is central to tissue differentiation and identity. Unicellular protists lack multicellular tissue but differentiate into variable cell types during their life cycles. The role of alternative splicing in transitions between cell types and establishing cellular ...

    journal_title:Genome biology

    pub_type: 杂志文章


    authors: Yeoh LM,Goodman CD,Mollard V,McHugh E,Lee VV,Sturm A,Cozijnsen A,McFadden GI,Ralph SA

    更新日期:2019-08-01 00:00:00

  • Transcriptional response to alcohol exposure in Drosophila melanogaster.

    abstract:BACKGROUND:Alcoholism presents widespread social and human health problems. Alcohol sensitivity, the development of tolerance to alcohol and susceptibility to addiction vary in the population. Genetic factors that predispose to alcoholism remain largely unknown due to extensive genetic and environmental variation in hu...

    journal_title:Genome biology

    pub_type: 杂志文章


    authors: Morozova TV,Anholt RR,Mackay TF

    更新日期:2006-01-01 00:00:00

  • Caenorhabditis elegans Heterochromatin protein 1 (HPL-2) links developmental plasticity, longevity and lipid metabolism.

    abstract:BACKGROUND:Heterochromatin protein 1 (HP1) family proteins have a well-characterized role in heterochromatin packaging and gene regulation. Their function in organismal development, however, is less well understood. Here we used genome-wide expression profiling to assess novel functions of the Caenorhabditis elegans HP...

    journal_title:Genome biology

    pub_type: 杂志文章


    authors: Meister P,Schott S,Bedet C,Xiao Y,Rohner S,Bodennec S,Hudry B,Molin L,Solari F,Gasser SM,Palladino F

    更新日期:2011-12-20 00:00:00

  • Uncovering metabolic pathways relevant to phenotypic traits of microbial genomes.

    abstract::Identifying the biochemical basis of microbial phenotypes is a main objective of comparative genomics. Here we present a novel method using multivariate machine learning techniques for comparing automatically derived metabolic reconstructions of sequenced genomes on a large scale. Applying our method to 266 genomes di...

    journal_title:Genome biology

    pub_type: 杂志文章


    authors: Kastenmüller G,Schenk ME,Gasteiger J,Mewes HW

    更新日期:2009-01-01 00:00:00

  • Fine-tuning sugar content in strawberry.

    abstract::Fine-tuning quantitative traits for continuous subtle phenotypes is highly advantageous. We engineer the highly conserved upstream open reading frame (uORF) of FvebZIPs1.1 in strawberry (Fragaria vesca), using base editor A3A-PBE. Seven novel alleles are generated. Sugar content of the homozygous T1 mutant lines is 33...

    journal_title:Genome biology

    pub_type: 杂志文章


    authors: Xing S,Chen K,Zhu H,Zhang R,Zhang H,Li B,Gao C

    更新日期:2020-09-03 00:00:00

  • Intraepithelial gamma delta T cells exposed by functional genomics.

    abstract::Epithelial tissues house gammadelta T cells, which are important for the mucosal immune system and may be involved in controlling malignancies, infections and inflammation. Whole-genome gene-expression analysis provides a new way to study the signals required for the activation of gammadelta T cells, their mode of act...

    journal_title:Genome biology

    pub_type: 杂志文章,评审


    authors: Boismenu R,Havran WL

    更新日期:2001-01-01 00:00:00

  • Computational identification of the normal and perturbed genetic networks involved in myeloid differentiation and acute promyelocytic leukemia.

    abstract:BACKGROUND:Acute myeloid leukemia (AML) comprises a group of diseases characterized by the abnormal development of malignant myeloid cells. Recent studies have demonstrated an important role for aberrant transcriptional regulation in AML pathophysiology. Although several transcription factors (TFs) involved in myeloid ...

    journal_title:Genome biology

    pub_type: 杂志文章


    authors: Chang LW,Payton JE,Yuan W,Ley TJ,Nagarajan R,Stormo GD

    更新日期:2008-01-01 00:00:00

  • Whole-genome screening indicates a possible burst of formation of processed pseudogenes and Alu repeats by particular L1 subfamilies in ancestral primates.

    abstract:BACKGROUND:Abundant pseudogenes are a feature of mammalian genomes. Processed pseudogenes (PPs) are reverse transcribed from mRNAs. Recent molecular biological studies show that mammalian long interspersed element 1 (L1)-encoded proteins may have been involved in PP reverse transcription. Here, we present the first com...

    journal_title:Genome biology

    pub_type: 杂志文章


    authors: Ohshima K,Hattori M,Yada T,Gojobori T,Sakaki Y,Okada N

    更新日期:2003-01-01 00:00:00

  • Sirtuins: Sir2-related NAD-dependent protein deacetylases.

    abstract::Silent information regulator 2 (Sir2) proteins, or sirtuins, are protein deacetylases dependent on nicotine adenine dinucleotide (NAD) and are found in organisms ranging from bacteria to humans. In eukaryotes, sirtuins regulate transcriptional repression, recombination, the cell-division cycle, microtubule organizatio...

    journal_title:Genome biology

    pub_type: 杂志文章,评审


    authors: North BJ,Verdin E

    更新日期:2004-01-01 00:00:00

  • RASTA-Bacteria: a web-based tool for identifying toxin-antitoxin loci in prokaryotes.

    abstract::Toxin/antitoxin (TA) systems, viewed as essential regulators of growth arrest and programmed cell death, are widespread among prokaryotes, but remain sparsely annotated. We present RASTA-Bacteria, an automated method allowing quick and reliable identification of TA loci in sequenced prokaryotic genomes, whether they a...

    journal_title:Genome biology

    pub_type: 杂志文章


    authors: Sevin EW,Barloy-Hubler F

    更新日期:2007-01-01 00:00:00

  • Can sequence determine function?

    abstract::The functional annotation of proteins identified in genome sequencing projects is based on similarities to homologs in the databases. As a result of the possible strategies for divergent evolution, homologous enzymes frequently do not catalyze the same reaction, and we conclude that assignment of function from sequenc...

    journal_title:Genome biology

    pub_type: 杂志文章,评审


    authors: Gerlt JA,Babbitt PC

    更新日期:2000-01-01 00:00:00

  • Deep sequencing reveals cell-type-specific patterns of single-cell transcriptome variation.

    abstract:BACKGROUND:Differentiation of metazoan cells requires execution of different gene expression programs but recent single-cell transcriptome profiling has revealed considerable variation within cells of seeming identical phenotype. This brings into question the relationship between transcriptome states and cell phenotype...

    journal_title:Genome biology

    pub_type: 杂志文章


    authors: Dueck H,Khaladkar M,Kim TK,Spaethling JM,Francis C,Suresh S,Fisher SA,Seale P,Beck SG,Bartfai T,Kuhn B,Eberwine J,Kim J

    更新日期:2015-06-09 00:00:00

  • The nuclear receptor ERβ engages AGO2 in regulation of gene transcription, RNA splicing and RISC loading.

    abstract:BACKGROUND:The RNA-binding protein Argonaute 2 (AGO2) is a key effector of RNA-silencing pathways It exerts a pivotal role in microRNA maturation and activity and can modulate chromatin remodeling, transcriptional gene regulation and RNA splicing. Estrogen receptor beta (ERβ) is endowed with oncosuppressive activities,...

    journal_title:Genome biology

    pub_type: 杂志文章


    authors: Tarallo R,Giurato G,Bruno G,Ravo M,Rizzo F,Salvati A,Ricciardi L,Marchese G,Cordella A,Rocco T,Gigantino V,Pierri B,Cimmino G,Milanesi L,Ambrosino C,Nyman TA,Nassa G,Weisz A

    更新日期:2017-10-06 00:00:00

  • Capture Hi-C identifies a novel causal gene, IL20RA, in the pan-autoimmune genetic susceptibility region 6q23.

    abstract:BACKGROUND:The identification of causal genes from genome-wide association studies (GWAS) is the next important step for the translation of genetic findings into biologically meaningful mechanisms of disease and potential therapeutic targets. Using novel chromatin interaction detection techniques and allele specific as...

    journal_title:Genome biology

    pub_type: 杂志文章


    authors: McGovern A,Schoenfelder S,Martin P,Massey J,Duffus K,Plant D,Yarwood A,Pratt AG,Anderson AE,Isaacs JD,Diboll J,Thalayasingam N,Ospelt C,Barton A,Worthington J,Fraser P,Eyre S,Orozco G

    更新日期:2016-11-01 00:00:00

  • A showcase of future plant biology: moving towards next-generation plant genetics assisted by genome sequencing and systems biology.

    abstract::A report on the Cold Spring Harbor Asia conference on Genome Assisted Biology of Crops and Model Plant Systems Meeting, held in Suzhou, China, April 21-25, 2014. ...

    journal_title:Genome biology



    authors: Lee I

    更新日期:2014-05-23 00:00:00

  • Alternative splicing links histone modifications to stem cell fate decision.

    abstract:BACKGROUND:Understanding the embryonic stem cell (ESC) fate decision between self-renewal and proper differentiation is important for developmental biology and regenerative medicine. Attention has focused on mechanisms involving histone modifications, alternative pre-messenger RNA splicing, and cell-cycle progression. ...

    journal_title:Genome biology

    pub_type: 杂志文章


    authors: Xu Y,Zhao W,Olson SD,Prabhakara KS,Zhou X

    更新日期:2018-09-14 00:00:00

  • Species-specific shifts in centromere sequence composition are coincident with breakpoint reuse in karyotypically divergent lineages.

    abstract:BACKGROUND:It has been hypothesized that rapid divergence in centromere sequences accompanies rapid karyotypic change during speciation. However, the reuse of breakpoints coincident with centromeres in the evolution of divergent karyotypes poses a potential paradox. In distantly related species where the same centromer...

    journal_title:Genome biology

    pub_type: 杂志文章


    authors: Bulazel KV,Ferreri GC,Eldridge MD,O'Neill RJ

    更新日期:2007-01-01 00:00:00