CN110257521A - The application of miRNA-30a and its target gene in lung cancer detection - Google Patents

The application of miRNA-30a and its target gene in lung cancer detection Download PDF

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CN110257521A
CN110257521A CN201910609477.2A CN201910609477A CN110257521A CN 110257521 A CN110257521 A CN 110257521A CN 201910609477 A CN201910609477 A CN 201910609477A CN 110257521 A CN110257521 A CN 110257521A
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梁凌波
罗凤鸣
袁波
朱文君
陈雪梅
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West China Hospital of Sichuan University
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Abstract

The present invention relates to the application of miR-30a and its target gene in detection lung cancer.Lung cancer is the most common malignant tumour within the scope of our times, although clinically also applying some markers in diagnosis lung cancer, but the sensibility and specificity of detection is limited, and finding the relevant tumor marker of novel pulmonary cancer diagnosis or new mark compositions seems most important for the early diagnosis of lung cancer.Inventor analyzes with high-flux sequence and data, screens good lung cancer marker, provides new lung cancer gene diagnosis target spot for clinic.

Description

The application of miRNA-30a and its target gene in lung cancer detection
Technical field
The present invention relates to molecular diagnosis fields, and in particular to the application of miR-30a and its target gene in detection lung cancer.
Background technique
It is about the non-coding microRNA of 22 nucleotide that miRNA, which is a kind of endogenous, highly conserved, length,. MiRNA can be specifically bound by its end 5' with the end the 3' non-translational region (3'UTR) of target gene, played and adjusted in post-transcriptional level Control effect.It can cause the degradation of said target mrna when miRNA and target gene 3'UTR are combined in a manner of the pairing of base complete complementary, and The protein translation of mRNA can then be inhibited in such a way that non-fully complementary pairing combines.
Lung cancer is the first cause of the most common malignant tumour and cancer mortality within the scope of our times, great threat The health and lives of the mankind.Between Past 30 Years, the death rate of the lung cancer in China is risen year by year, lung cancer lethal patient about 40 every year Ten thousand, become China's increasing degree maximum, harm malignant tumour the most serious.Although in recent years in method of lung cancer diagnosis, operation There is new development in terms of technology and chemotherapeutics, but the 5 years survival rates of patients with lung cancer always are still very low, only 15% is left It is right.Why so low the overall 5 years survival rates of lung cancer are, be primarily due to most patients with lung cancer it is medical when oneself be in advanced stage, or relatively early It occurs as soon as and sends out transfer and lose surgical radical treatment chance.Currently used method of lung cancer diagnosis includes chest x-ray, low dosage spiral Brushing piece or biopsy, BALF cytology inspection are taken etc. under CT, expectorative cytology inspection, bronchoscope, but various Detection methods sensibility, specificity, in terms of exist limitation.Although clinically also applying blood serum tumor markers Diagnosing.Common marker includes carcinomebryonic antigen (CEA), cytokeratin 21-1 segment (CYFRA21-1), sugar antigen 125,153,199 (CA125, CA153, CA199), tissue polypeptide antigen (TPA) etc..But the sensitivity of these tumor-marker analyte detections Property and specificity it is limited, find the control of the relevant tumor marker of novel pulmonary cancer diagnosis or new therapeutic strategy for lung cancer Seem most important.
The present invention is based on high-flux sequence method, the survey of two generations is carried out to the cancerous tissue and cancer beside organism of 3 patients with lung adenocarcinoma Sequence obtains the expression data of its miRNA and mRNA, meanwhile, in conjunction with bioinformatic analysis and literature survey, from candidate's MiR-30a and its target gene EFNA3, CTHRC1, RTKN2, JAM2 are picked out in miRNA, carry out subsequent analysis, as the result is shown The target gene combination of miR-30a can be very good diagnosing, and the present invention provides new lung cancer gene diagnosis marker for clinic.
Summary of the invention
The purpose of the present invention is to provide a kind of pulmonary cancer diagnosis reagent, the pulmonary cancer diagnosis reagent is able to detect in sample The transcription of the target gene of miR-30a or expression, target gene are selected from down in the transcription situation of miR-30a, or detection sample One or more of column gene: EFNA3, CTHRC1, RTKN2 or JAM2.
The miR-30a sequence is SEQ ID NO 1:5 '-uguaaacauccucgacuggaag-3 '.
Further, lung cancer is non-small cell lung cancer, and non-small cell lung cancer includes lung squamous cancer, adenocarcinoma of lung, lung adenosquamous carcinoma, big thin Born of the same parents' cancer etc.;Preferably, lung cancer is adenocarcinoma of lung.
The sample is tumor tissues or peripheral blood.
Preferably, the combination of two of target gene EFNA3, CTHRC1, RTKN2 or JAM2 gene;It is furthermore preferred that target gene For the combination of the combination of the combination of gene RTKN2 and EFNA3, RTKN2 and JAM2, EFNA3 and JAM2 or EFNA3 and CTHRC1 Combination.
Preferably, three or three combinations of target gene EFNA3, CTHRC1, RTKN2 or JAM2 gene;It is furthermore preferred that target gene For the combination of gene RTKN2, EFNA3 and CTHRC1.
Further, pulmonary cancer diagnosis reagent is using high-flux sequence method and/or the hybridization of quantifying PCR method and/or probe Method detects the transcription of miR-30a or its target gene in sample.
It is preferred that using two generation PCR sequencing PCRs, spectrum chip method, northern hybridizing method, ribozyme protection analytical technology, RAKE method, The transcription of miR-30a or its target gene in situ hybridization, fluorescence quantitative PCR method detection sample.
Preferably, the quantifying PCR method includes specific amplification miR-30a or the primer of its target gene;Described It include the probe of the nucleic acid array hybridizing with miR-30a or its target gene based on probing procedure.
Further, pulmonary cancer diagnosis reagent is the expression using the target gene of miR-30a in immunization method detection sample Reagent.
It is preferred that the expression of the target gene of miR-30a is western blot in the immunologic detection method detection sample And/or ELISA and/colloidal gold detection method.
Further, the ELISA method for detecting the expression of target gene EFNA3, CTHRC1, RTKN2 or JAM2 is to be examined using ELISA Test agent box.The monoclonal antibody of commercially available EFNA3, CTHRC1, RTKN2 or JAM2 can be used in antibody in the kit. Further, the kit includes: the solid phase carrier for being coated with the monoclonal antibody of EFNA3, CTHRC1, RTKN2 or JAM2, enzyme Mark secondary antibody, the substrate of enzyme, protein standard substance, negative controls, dilution, cleaning solution, enzyme reaction terminate liquid etc..
Further, the colloidal gold method of detection EFNA3, CTHRC1, RTKN2 or JAM2 albumen is to use detection reagent Commercially available EFNA3, CTHRC1, RTKN2 or JAM2 monoclonal antibody can be used in box, the antibody.Further, the colloid Golden detection kit uses colloidal gold immunochromatographimethod technology or colloidal gold percolation.Further, the gold-immunochromatographyreagent reagent for assay Detection zone (T) specking on box nitrocellulose filter has anti-EFNA3, CTHRC1, RTKN2 or JAM2 monoclonal antibody, quality control region (C) specking has Immunoglobulin IgG.
The object of the invention is also to provide above-mentioned pulmonary cancer diagnosis reagents to prepare the application in pulmonary cancer diagnosis preparation.
Definition:
The method for detecting the expression of miRNA at this stage mainly includes based on high throughput sequencing technologies, based on nucleotide The miRNA detection method of hybridization and based on PCR.MiRNA detection method based on probe hybridization technique is a kind of direct Detection Method, It does not need to expand sample rna in advance, including northern hybridizing method, miRNA chip of expression spectrum, ribozyme protection analysis skill The technologies such as art, RAKE method, in situ hybridization, bead-based flow-cytometry.
(1) Northern hybridizes
Also known as Northern blot is most classic detection eucaryote RNA size, estimates the experimental method of its abundance.Base Present principles are as follows: fixing miRNA sample on carrier (such as silicon wafer, microballoon or film) first, then miscellaneous with the probe by label It hands over, carries out signal detection after washing extra hybridization probe;It can also be first fixed complementary with target miRNA sequence on carrier Then DNA probe hybridizes with the sample miRNA by label, then carries out signal detection.The method of signal label includes isotope Label, fluorescent marker and nano gold mark etc..
(2) miRNA chip of expression spectrum
Principle is equally using the target molecule on label probe detection solid support.Pass through miRNA in design chips Gene and internalcontrol sequence, can Accurate Analysis go out the expression of corresponding miRNA in sample.Genetic chip has the excellent of high throughput Point can once detect whole expression of several hundred a genes in same sample.The liquid-phase chip that Luminex company develops (Liquid chip) is also known as multifunctional suspending dot matrix (Multi analyte suspension array, MASA), is out new Generation biochip technology.Liquid-phase chip system is made of many spherulas for main matrix, is fixed with not on every kind of spherula With probe molecule, in order to distinguish different probes, each for label probe sphere matrix all have one it is unique Color numbers constitute liquid-phase chip system as soon as these spherulas are suspended in a liquid-phase system.The system can be to same Multiple and different molecules in one trace sample carry out quick qualitative and quantitative analysis simultaneously, and this detection technique is referred to as FMAP (Flexible multianalyte profiling) technology.Molecule hybridization carries out in aaerosol solution, detects speed pole Fastly.
(3) ribozyme protection analytical technology (RPA)
The detection of miRNA can also protect analytical technology using ribozyme, and the probe marked and RNA sample to be measured are mixed Close, hybridize after thermal denaturation, non-hybridized RNA and the single-chain nucleic acid enzymic digestion of extra probe, after heat inactivation nuclease purifying by Probe, colour developing is separated by electrophoresis finally by denaturation PAGE in the RNA molecule of protection.This new method based on solution hybridization is simple Quickly, high sensitivity, but be also only used for analyzing known miRNA.
(4) RAKE method
RAKE method (RNA primed array based Klenow emzyme) is the base in miRNA microarray The Klenow segment of DNA polymerase i, the method for hybridizing miRNA with fixed DNA probe are utilized on plinth.RAKE can be sensitive MiRNA is specifically detected, suitable for largely quickly screening all known miRNA.It can be in specific cell and tumour Detect miRNA express spectra situation.Moreover, RAKE method can also be from the tissue of the paraffin embedding secured by formalin It isolates miRNA and analyzes it, to analyze the door that miRNA opens hope from archive sample.
(5) in situ hybridization (in situ hybridization)
Hybridization in situ technique can intuitively understand miRNA expression way, be a kind of easier of observation miRNA spatial and temporal expression Method, normal mark mode include digoxin, biotin, fluorescent marker etc..In situ hybridization (Locked on the basis of locked nucleic acid Nucleic Acid (LNA) based in situ hybridization (LNA-ISH)) it is the more probe side of current application Formula.
(6) bead-based flow-cytometry (bead-based flow cytometry)
It is a kind of liquid-phase chip technology, FCM analysis is organically combined with chip technology, had concurrently by this method The features such as flux is big, detection speed is fast, high sensitivity and specificity are good.
(7) Real-Time Fluorescent Quantitative PCR Technique (Real-time PCR, RT-PCR)
Fluorescence detection PCR instrument can be to the cumulative speed drafting dynamic changing curve of extension increasing sequence during entire PCR.Anti- Answer the initial concentration of target sequence in mixed system bigger, it is desirable that the PCR cycle number for obtaining amplified production specific output is (general to use Specific threshold recurring number Ct is expressed) it is fewer.Since miRNA length is only 22nt, it is such that traditional qRT-PCR is not suitable for amplification Short segment.There are several real time quantitative PCR methods for miRNA, such as tailing method, neck ring method now.Neck ring method is a kind of Ideal miRNA detects qRT-PCR method: special loop-stem structure primer is designed first, using miRNA to be measured as template reverse transcription The first chain of cDNA is synthesized, which is stem Loop primer, and stem loop structure, which is opened, substantially increases the length of cDNA, then Real-time quantitative PCR amplification is carried out by template design primer of the cDNA of synthesis.QRT-PCR has specificity height, sensitivity good, fast A variety of advantages such as fast simple.
(8) PCR sequencing PCR
MiRNA known to major part is that discovery and identification is sequenced by cDNA clone.The method needs first to construct miRNA CDNA library, then carry out PCR amplification, amplified production is then cloned on expression vector and is sequenced.Takada develops one kind and changes Into amplification PCR cloning PCR (miRNA amplification profiling, mRAP), mRAP method first connects at the 3 ' ends of miRNA Connector, then with the reverse transcription primer reverse transcription complementary with connector.Because specific reverse transcriptase has end deoxynucleotide Enzymatic activity, some nucleotide (mainly deoxycytidylic acid) can be connected to 3 ' ends of the cDNA chain that reverse transcription goes out.When 5 ' terminations For head with after poly (C) the cohesive end annealing of cDNA chain, a pair of of general primer, which is added, can be realized the PCR amplification to cDNA.By It, can be directly with the expression quantity of miRNA in clone and a small amount of tissue of sequencing technologies detection in mRAP High sensitivity.Sequence label gram Grand method is a kind of having developed the higher miRAGE of detection efficiency on the basis of serial analysis of gene expression (SAGE) technology (miRNA SAGE) PCR cloning PCR, the method sub-series big by generation, can detect multiple miRNA by single sequencing reaction, bright It is aobvious to improve detection efficiency.
High-flux sequence (High-throughput sequencing) is also known as next-generation sequencing technologies (nextgeneration sequencing) is the change to tradition sequencing revolution, once to hundreds of thousands to millions of DNA molecular carries out sequencing, greatly improves sequencing efficiency.This kind of large scale sequencing technology greatly improves multiple objects The solution reading rate of kind hereditary information, for the sequence information for obtaining all miRNA, decryption miRNA map provides guarantee.It is high simultaneously Flux sequencing to carry out the analysis of careful overall picture to the transcript profile and genome of species, so being otherwise known as Deep sequencing (deep sequencing).The representative of high-flux sequence platform is 454 sequenators of Roche Holding Ag (Roche) (Roch GSFLX sequencer), Solexa genome analysis instrument (the Illumina Genome of Illumina company ) and the SOLiD sequenator of ABI (ABI SOLiD sequencer) Analyzer.
Known antigen or antibody are adsorbed on surface of solid phase carriers by enzyme-linked immunosorbent assay (ELISA), make enzyme mark The technology that the antigen-antibody reaction of note is carried out in solid phase surface.ELISA detection kit can according to testing goal and operating procedure It is divided into indirect method, double-antibody method, competition law, double site one-step method, prize law and surveys IgM antibody, using Avidin and biotin ELISA.Horseradish peroxidase (HRP) or alkaline phosphatase (AP) may be selected in chromogenic substrate in ELISA detection kit.
Common immune colloid gold detection technique: (1) immune colloid gold light microscopic decoration method cell suspension smear or peripheral blood Slice, can be dyed with the antibody of colloid gold label, can also be enhanced with silver-colored developer solution and be marked on the basis of colloid gold label Note, makes the silver atoms being reduced be deposited on marked gold particle surface, the sensibility of colloid gold label can be remarkably reinforced.(2) Immune colloid gold electronic speculum decoration method can with the antibody of colloid gold label or antiantibody with negative staining Virus Sample or peripheral blood are ultra-thin cuts Piece combines, and then carries out negative staining.(3) dot immunogold filtration assay application miillpore filter makees carrier, first by antigen or antibody point in On film, sample to be examined is added after closing, the corresponding antigen of antibody test or antibody of colloid gold label are used after washing.(4) colloidal gold The antigen of specificity or antibody are fixed on film, colloid gold label reagent (antibody or monoclonal by immunochromatographic method with ribbon Antibody) it is adsorbed on bonding pad, after sample to be examined is added in the sample pad of test strips one end, through capillary action to Forward It is dynamic, it reacts to each other after dissolving the colloid gold label reagent on bonding pad, when being moved to the region of fixed antigen or antibody, to The conjugate of inspection object and gold marked reagent occurs specific binding therewith again and is trapped, and being gathered in detection takes, and can pass through naked eyes Observe colour developing result.The method has developed into diagnosis test paper, and use is very convenient.
Detailed description of the invention
Fig. 1 is the ROC curve figure of the target gene combination of two diagnosis adenocarcinoma of lung of miR-30a
Fig. 2 is the ROC curve figure of three or the three combined diagnosis adenocarcinoma of lung of target gene of miR-30a
Fig. 3 is the ROC curve figure of the target gene Combining diagnosis adenocarcinoma of lung of miR-30a
Specific embodiment
The extraction of 1 sample collection of embodiment and total serum IgE
3 pulmonary adenocarcinomas and cancer beside organism are all from the sample of hospital surgical excision, and all samples are in vitro 10 points It is put into liquid nitrogen container within clock, is subsequently transferred to store in -80 DEG C of refrigerators.
1 extracting method:
1) 80mg tissue block is taken, 800 μ l Lysis/Binding buffers are added, tissue block is carried out using homogenizer even Slurry.Sample will be placed in and keep low-temperature condition on ice during homogenate.
2) 1/10 volume Homogenate Additive is added into the above-mentioned tissue sample being homogenized, and is put on ice Set 10min.
3) be added with the water-saturated phenols of Lysis/Binding buffer equivalent volumes, shake 45s, 10000 × g room temperature from Heart 5min.
4) supernatant is carefully taken out into new test tube, and the dehydrated alcohol of 1.25 times of volumes is added, after mixing, moves into purification column In, 10,000 × g is centrifuged 15s, outwells the liquid in collecting pipe.Since the maximum volume of pillar only has 700 μ l, again This multiple step operation, until all supernatants all filter completion.
5) 700 μ l miRNA eluents 1, room temperature are added into centrifugation pillar, 10000 × g is centrifuged 15s, outwells collection Liquid uses new collecting pipe instead.
6) the step for being added in centrifugal column with 500 μ l eluents 2/3,10000 × g again, being centrifuged 10s, repeat is primary.
7) it is centrifuged 1min, 10000 × g, discards extra liquid.
8) aforesaid liquid is transferred to new centrifuge tube, adds DEPC processing 30s, the 10000 × g of 95 DEG C of 100 μ l preheatings, Centrifugation.
9) using the ratio of nanodrop measurement RN A concentration and 260nm/280nm.
10) RNA obtained is stored in -80 DEG C of refrigerators.
2 extraction standards:
Measure the ratio of RNA concentration and 260nm/280nm: the purity requirement of total serum IgE is that OD260/OD280 value should be 1.8 To between 2.2;The detection of RNA integrality: with the integrality of 1% agarose gel electrophoresis detection RNA;
According to the requirement of sequencing company, 3 μ g of total amount or more is sequenced in tiny RNA, and concentration is more than 300ng/ μ l.
The sequencing of embodiment 2 and data analysis
The foundation and the sequencing of upper machine of sequencing library are carried out by sequencing company, used sequenator is Illumina company HiSeq2000 sequenator.
Statistical analysis, FDR<0.001, log2 (FC) absolute value>1, two group are carried out according to the data that sequencing company provides The difference of count average value is greater than 100.It is to select the apparent miRNA of differential expression in filtering to differential expression miRNA people, with lung The extraordinary molecular marker miR-30a of cancer correlation enters our research range, and miR-30a is in adenocarcinoma of lung cancerous tissue Expression quantity is higher than cancer beside organism.
Identification miRNA target gene is the extremely important step for studying specific organization and cell miRNA function.Using including These algorithm forecasted variances of RNA22, miRanda, miRDB, miRWalk, PICTAR2 and Targetscan express miR-30a's Target gene, in conjunction in sequencing mRNA differential expression as a result, picking effect more from the differential expression mRNA of target gene Two cance high-expression genes EFNA3, CTHRC1 outstanding, two low expressions gene RTKN2, JAM2 carry out subsequent experiment.
The evaluation analysis of 3 diagnostic of embodiment
Method for the efficiency evaluation of individual molecule or diagnostic model is to establish Receiver Operating Characteristics (receiver Operating characteristic, ROC) curve, judge to examine by area under calculated curve (Area UnderCurve) Disconnected ability.Area value under ROC curve is between 1.0 and 0.5, and in the case where AUC > 0.5, AUC is closer to 1, explanation Diagnosis effect is better, and AUC has lower accuracy in 0.5-0.7, and AUC has certain accuracy in 0.7-0.9, AUC 0.9 with There is high accuracy when upper.
We download the data in TCGA database in relation to adenocarcinoma of lung, obtain data set (533 adenocarcinoma of lung cancerous tissues MRNA data, the mRNA data of 59 cancer beside organisms), and then it is analyzed, the results show that RTKN2+EFNA3 when combination of two, The AUC value of RTKN2+JAM2, RTKN2+CTHRC1, EFNA3+JAM2, EFNA3+CTHRC1, JAM2+CTHRC1 diagnosis adenocarcinoma of lung Respectively 0.981,0.988,0.845,0.923,0.975,0.607 (see Fig. 1), three gene associations diagnose in adenocarcinomas of lung RTKN2+EFNA3+JAM2, RTKN2+EFNA3+CTHRC1, EFNA3+JAM2+CTHRC1 combine AUC be 0.605,0.993, 0.647 (see Fig. 2), in four gene associations diagnosis adenocarcinomas of lung RTKN2+EFNA3+JAM2+CTHRC1 combination AUC be 0.871 (see Fig. 3), diagnosis effect is preferably RTKN2+EFNA3, RTKN2+JAM2, EFNA3+JAM2, EFNA3+ in above-mentioned combination of two CTHRC1, diagnosis effect preferably RTKN2+EFNA3+CTHRC1 in three or three combinations, but with the increase of gene diagnose it is quasi- True rate is declined, and does not recommend the combination of four genes for diagnosing, and the application, which explores to find, can be used for clinical adenocarcinoma of lung diagnosis In accessory molecule diagnosis assortment of genes object, have good potential applicability in clinical practice.
The ROC analysis of 1 difference expression gene of table combination
Specific embodiments above, the present invention is further explained, for explaining only the invention, and should not be understood as to the present invention Limitation.It will be understood by those skilled in the art that: it without departing from the principle and spirit of the present invention can be right These embodiments carry out a variety of change, modification, replacement and modification, and the scope of the present invention is defined by the claims and their equivalents.

Claims (10)

1. a kind of pulmonary cancer diagnosis reagent, the pulmonary cancer diagnosis reagent is able to detect the transcription situation of miR-30a in sample, Huo Zhejian The transcription of the target gene of miR-30a or expression in test sample sheet, target gene are selected from one or more of following gene: EFNA3, CTHRC1, RTKN2 or JAM2.
2. pulmonary cancer diagnosis reagent according to claim 1, which is characterized in that target gene EFNA3, CTHRC1, RTKN2 or The combination of two of JAM2 gene;Preferably, target gene be the combination of gene RTKN2 and EFNA3, the combination of RTKN2 and JAM2, The combination of EFNA3 and JAM2 or the combination of EFNA3 and CTHRC1.
3. pulmonary cancer diagnosis reagent according to claim 1, which is characterized in that target gene EFNA3, CTHRC1, RTKN2 or Three or three combinations of JAM2 gene;It is furthermore preferred that target gene is the combination of gene RTKN2, EFNA3 and CTHRC1.
4. pulmonary cancer diagnosis reagent according to claim 1 to 3, which is characterized in that pulmonary cancer diagnosis reagent is to use MiR-30a or its target gene in high-flux sequence method and/or quantifying PCR method and/or probing procedure detection sample Transcription.
5. pulmonary cancer diagnosis reagent according to claim 1 to 3, which is characterized in that using two generation PCR sequencing PCRs, spectrum Chip method, northern hybridizing method, ribozyme protection analytical technology, RAKE method, in situ hybridization, fluorescence quantitative PCR method detect sample The transcription of miR-30a or its target gene in this.
6. pulmonary cancer diagnosis reagent according to claim 4, which is characterized in that the quantifying PCR method includes specificity Expand miR-30a or the primer of its target gene;Described based on probing procedure includes core with miR-30a or its target gene The probe of acid sequence hybridization.
7. pulmonary cancer diagnosis reagent according to claim 1 to 3, which is characterized in that pulmonary cancer diagnosis reagent is to use Immunization method detects the reagent of the expression of the target gene of miR-30a in sample.
8. pulmonary cancer diagnosis reagent according to claim 7, which is characterized in that immunologic detection method be westernblot and/ Or ELISA and/colloidal gold detection method.
9. pulmonary cancer diagnosis reagent according to claim 1, which is characterized in that sample is tumor tissues or peripheral blood.
10. pulmonary cancer diagnosis reagent described in any one of claim 1-9 is preparing the application in pulmonary cancer diagnosis preparation.
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