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Scherf GmbH gene expression profile
Gene Expression Profile, supplied by Scherf GmbH, used in various techniques. Bioz Stars score: 90/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
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Article Title: CHEK2 genomic and proteomic analyses reveal genetic inactivation or endogenous activation across the 60 cell lines of the US National Cancer Institute
Article Snippet: The NCI-60 panel also provides a unique database because of its extensive characterization for genome-wide gene expression across multiple platforms, micro-RNA and protein expression ( Scherf et al., 2000 ; Nishizuka et al., 2003 ; Bussey et al., 2006 ; Shankavaram et al., 2007 ; Reinhold et al., 2010 ); gene copy number by array comparative genomic hybridization (aCGH) ( Nishizuka et al., 2003 ); karyotypic aberrations by spectral karyotyping ( Roschke et al., 2003 ); oncogene mutations by capillary sequencing ( Ikediobi et al., 2006 ) and sensitivity to more than 400 000 natural and synthetic compounds through in vitro toxicity screening ( Shoemaker, 2006 ; Holbeck et al., 2010 ; Reinhold et al., 2010 ).

Article Title: Role of cis-regulatory elements on the ring-specific hrp3 promoter in the human parasite Plasmodium falciparum.
Article Snippet: Identification of promoter elements responsible for regulation of gene expression has been hampered by the AT richness of P. falciparum intergenic regions.. Nested deletions of histidine-rich protein 3 (hrp3) promoter suggested the presence of a multipartite ring-specific element.. Linker scanning (LS) of this ring-specific promoter showed that the alteration of several promoter regions decreased the luciferase activity compared to the wild-type configuration, indicating that these regions played a role in gene expression.

Article Title: Gordon Research Conferences
Article Snippet: c conferences, where leading investigators from around the globe discuss their latest work and future challenges in a uniquely informal, interactive format.. Session II 2009 meetings will be held in New England in the United States and internationally in Italy, China, Switzerland, and the United Kingdom.. Apply to a Gordon Research Conference now and see why attendees consistently rate them “the best conference I’ve attended this year”.

Article Title: Botulinum toxin type A in multimodal management of age-related macular degeneration and related diseases.
Article Snippet: Age related macular degeneration (AMD) is the major cause of visual loss in the aging population in the Western world.. In past decade, intra ocular injections of anti-vascular endothelial growth factor (anti-VEGF) pharmaceuticals have revolutionized therapy for exudative (edematous-wet) AMD and become standard practice for the near term.. However repeated intra-ocular injections are required for years and long terms results have been limited.

Gene Expression:

Article Title: Gene expression profile of peripheral blood mononuclear cells in response to HIV-VLPs stimulation
Article Snippet: .. Ross DT, Scherf U, Eisen MB, Perou CM, Rees C, Spellman PT, Iyer V, Jeffrey SS, Van de Rijn M, Waltham M, Pergamenschikov A, Lee JC, Lashkari D, Shalon D, Myers TG, Weinstein JN, Botstein D, Brown PO: Systematic variation in gene expression patterns in human cancer cell lines. ..

Article Title: Differential gene expression as a potential classifier of 2-(4-amino-3-methylphenyl)-5-fluorobenzothiazole-sensitive and -insensitive cell lines.
Article Snippet: 2-(4-Amino-3-methylphenyl)-5-fluorobenzothiazole (5F-203) is a candidate antitumor agent empirically discovered with the aid of the National Cancer Institute (NCI) Anticancer Drug Screen.. In an effort to determine whether basal expression of genes could be used to classify cell sensitivity to this agent, serial analysis of gene expression (SAGE) libraries were generated for three sensitive and two insensitive human tumor cell lines.. When the SAGE tags expressed within these cell line libraries were compared and evaluated for differences, several genes seemed more highly expressed in 5F-203-sensitive cell lines than in the insensitive cell lines.

Article Title: Toxicogenomics and cross-species biomarker discovery: applications in drug discovery and safety assessment.
Article Snippet: Toxicogenomics has evolved into a useful technique for providing greater mechanistic insights into adverse effects that will spur the development of novel approaches for identifying and understanding toxicity issues.. The ability to capture a snapshot of the transcriptome at any given time during the development of an adverse phenotype allows unprecedented molecular views into the dynamic physiological changes that are occurring on either time or dose continuum for a toxicology study of interest advancing our basic knowledge of adverse events, and providing the necessary scientific framework for developing new strategies and tools for safety assessment programs.. The development of an effective subset of cost effective devices for identifying toxicity earlier in the drug development process will help identify the most promising candidate compounds to move forward leading to a reduction in compound attrition due to toxicity.

Activity Assay:

Article Title: Toxicogenomics and cross-species biomarker discovery: applications in drug discovery and safety assessment.
Article Snippet: Toxicogenomics has evolved into a useful technique for providing greater mechanistic insights into adverse effects that will spur the development of novel approaches for identifying and understanding toxicity issues.. The ability to capture a snapshot of the transcriptome at any given time during the development of an adverse phenotype allows unprecedented molecular views into the dynamic physiological changes that are occurring on either time or dose continuum for a toxicology study of interest advancing our basic knowledge of adverse events, and providing the necessary scientific framework for developing new strategies and tools for safety assessment programs.. The development of an effective subset of cost effective devices for identifying toxicity earlier in the drug development process will help identify the most promising candidate compounds to move forward leading to a reduction in compound attrition due to toxicity.



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NGS analysis identified the variant c.1088_1089del within the CAPN6 gene ( NM_014289.4 ) in the family examined. ( A ) Both the chromosomal and exon localization of the CAPN6 gene and variant are depicted. ( B ) The Integrative Genomics Viewer (IGV) image displays this variant, with arrows indicating the father, mother, and their three sons. ( C ) Confirmation of the variant through conventional Sanger sequencing is presented for the father, mother, and their three sons, as indicated by the black arrows. Specifically, the variant has been found in hemizygous condition in the affected male offspring while in heterozygous condition for both the mother and daughter.

Journal: International Journal of Molecular Sciences

Article Title: Potential Link Between a Disruptive CAPN6 Variant and Neurodevelopmental Disorders

doi: 10.3390/ijms27031140

Figure Lengend Snippet: NGS analysis identified the variant c.1088_1089del within the CAPN6 gene ( NM_014289.4 ) in the family examined. ( A ) Both the chromosomal and exon localization of the CAPN6 gene and variant are depicted. ( B ) The Integrative Genomics Viewer (IGV) image displays this variant, with arrows indicating the father, mother, and their three sons. ( C ) Confirmation of the variant through conventional Sanger sequencing is presented for the father, mother, and their three sons, as indicated by the black arrows. Specifically, the variant has been found in hemizygous condition in the affected male offspring while in heterozygous condition for both the mother and daughter.

Article Snippet: CAPN6 gene expression patterns of placenta tissues were obtained from the Human Protein Atlas (HPA) database ( https://www.proteinatlas.org/ ) (accessed on 26 May 2025).

Techniques: Variant Assay, Sequencing

Pedigree analysis of the examined family with an X-linked genetic disorder associated with the mutation c.1088_1089del (p.Asp363GlyfsTer2) in the CAPN6 ( NM_014289.4 ) gene. Both the mother and the daughter exhibited mild intellectual disability. Furthermore, both the male sons exhibited severe neurodevelopmental and mild motor coordination disorders. Red arrows indicate the specific position of the variant. Blue and red asterisks indicate wild type and mutated sequence, respectively.

Journal: International Journal of Molecular Sciences

Article Title: Potential Link Between a Disruptive CAPN6 Variant and Neurodevelopmental Disorders

doi: 10.3390/ijms27031140

Figure Lengend Snippet: Pedigree analysis of the examined family with an X-linked genetic disorder associated with the mutation c.1088_1089del (p.Asp363GlyfsTer2) in the CAPN6 ( NM_014289.4 ) gene. Both the mother and the daughter exhibited mild intellectual disability. Furthermore, both the male sons exhibited severe neurodevelopmental and mild motor coordination disorders. Red arrows indicate the specific position of the variant. Blue and red asterisks indicate wild type and mutated sequence, respectively.

Article Snippet: CAPN6 gene expression patterns of placenta tissues were obtained from the Human Protein Atlas (HPA) database ( https://www.proteinatlas.org/ ) (accessed on 26 May 2025).

Techniques: Mutagenesis, Variant Assay, Sequencing

Domain organization and structural prediction of wild-type CAPN6. ( A ) Schematic representation of the functional domains of CAPN6, annotated according to the ProRule and InterPRO databases. A black arrow marks the mutation site at position 363 in the amino acid sequence. ( B ) Structural model generated using AlphaFold3, with domains colored according to panel. ( A ) The mutation site (Asp363) is highlighted in turquoise and indicated by a black square. ( C ) Close-up view of the wild-type residue (turquoise) and its hydrogen-bonding interactions with Asp365 and Asn369. Structural visualization and modeling were performed using UCSF ChimeraX.

Journal: International Journal of Molecular Sciences

Article Title: Potential Link Between a Disruptive CAPN6 Variant and Neurodevelopmental Disorders

doi: 10.3390/ijms27031140

Figure Lengend Snippet: Domain organization and structural prediction of wild-type CAPN6. ( A ) Schematic representation of the functional domains of CAPN6, annotated according to the ProRule and InterPRO databases. A black arrow marks the mutation site at position 363 in the amino acid sequence. ( B ) Structural model generated using AlphaFold3, with domains colored according to panel. ( A ) The mutation site (Asp363) is highlighted in turquoise and indicated by a black square. ( C ) Close-up view of the wild-type residue (turquoise) and its hydrogen-bonding interactions with Asp365 and Asn369. Structural visualization and modeling were performed using UCSF ChimeraX.

Article Snippet: CAPN6 gene expression patterns of placenta tissues were obtained from the Human Protein Atlas (HPA) database ( https://www.proteinatlas.org/ ) (accessed on 26 May 2025).

Techniques: Structural Proteomics, Functional Assay, Mutagenesis, Sequencing, Generated, Residue