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Indeed, we observed an inverse relation between MYB and ZEB1 expression in two in vitro EMT cell models, in matched human breast tumors and lymph node metastases, and in human breast cancer cell lines.
In our study, we confirmed RAI3 mRNA overexpression by cDNA dot blot analysis, showing RAI3 upregulation in 60% of a large collection of 50 matched human breast carcinomas compared to the corresponding normal breast tissues.
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However, the peptide NP_958883 best matched human NP_003002.
Annotation revealed that 29,160 (75.2%) ESTs matched human gene symbols.
Stable long-term depletion, or up-regulation, of OPN gene expression in a matched, isogenic pair of human breast cancer cell lines of differing metastatic proficiency reproducibly changed their ability to colonize distant organs.
As breast cancer is well-known to be a hormone-dependent malignancy, it is noteworthy to know whether TTC9A is over-expressed in breast cancer tissues and if its expression is correlated with hormone receptor status. 25 matched pairs of human breast cancer tissue and the adjacent normal tissue were analyzed for TTC9A mRNA expression.
Another study, using matched malignant and nonmalignant human breast cancer cell lines, showed that the nonmalignant line had Dlc1 transcript levels 3-fold greater than the malignant clone [ 11].
We quantitatively evaluated these approaches on 16 ovarian cancer RNASeq datasets with matched genotyping arrays and a human breast cancer genome sequenced to >40× (haploid) coverage with ground truth data and show systematically that the SNVMix models outperform competing approaches.
One hundred primary human breast cancers and matched nodal metastasis, and thirty primary node negative breast cancers were obtained from the de-identified tumor bank and database of UMSCCC Tissue Core Facility.
Freshly excised human breast tumor and matched benign specimens were obtained from female patients after they were informed about all process and signed the consent accepting to participate in this study (Informed Consent).
(B) In situ hybridization analysis of miR-33a expression in human breast cancer tissues and matched normal tissues.
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