Biological data management and phylogenetic analysis process method

Abstract

The invention discloses a biological data management and phylogenetic analysis process method, and relates to the technical field of biological data management. The invention relates to biological data management, which comprises the following steps of data acquisition and input, data storage and organization, data detection and query, data analysis and visualization and report generation and sharing. The invention discloses a phylogenetic analysis process method for biological data management. The method comprises the following steps of sample preparation and culture, data acquisition, data management, phylogenetic analysis and result display and report generation. According to the invention, the monitoring mechanism is arranged to monitor the two culture dishes in turn and collect data, and then through the culture mechanism and the adding mechanism, medicaments can be automatically added into the culture dishes, so that the cell culture effect can be greatly improved, the success of experiments and the acquisition of research results are promoted, and the trouble of manual operation is avoided.

Description

Technical Field

[0001] The present invention relates to the technical field of biological data management, and in particular to a biological data management and phylogeny analysis process method. Background Art

[0002] Biological data management refers to the process of systematically collecting, storing, organizing, analyzing and sharing various types of data (such as sample information, experimental records, experimental results, etc.) generated during biological experiments. Its goal is to ensure the integrity, consistency and traceability of data to support the transparency and repeatability of scientific research and promote teamwork and knowledge sharing. Through effective data management, researchers can obtain important information more quickly, optimize experimental design, and make scientific decisions based on data.

[0003] During the biological culture process, some antibiotics, chemical inducers, buffers and other reagents need to be added to the culture dish, which can greatly improve the effect of cell culture, promote the success of the experiment and the acquisition of research results. However, during the operation, manual addition is required, which is more troublesome. In view of the above problems, the inventors proposed a biological data management and phylogenetic analysis process method to solve the above problems. Summary of the invention

[0004] In order to solve the problem that adding reagents manually during the culture process is too troublesome; the purpose of the present invention is to provide a biological data management and phylogenetic analysis process method.

[0005] To solve the above technical problems, the present invention adopts the following technical solution: a biological data management, comprising the following steps:

[0006] Step 1: Data collection and entry;

[0007] Step 2: Data storage and organization;

[0008] Step 3: Data detection and query;

[0009] Step 4: Data analysis and visualization;

[0010] Step 5: Generate and share the report.

[0011] Preferably, data collection and entry in step 1: establish a user-friendly interface that allows experimenters to enter sample information (sample ID, source, biological species, experimental date, etc.) through a form, and supports file upload function to import sequencing data or experimental logs;

[0012] Data storage and organization in step 2: Use a relational database (such as MySQL or PostgreSQL) to store data and design structured data tables, such as sample tables, sequencing data tables, and experimental record tables. Ensure data integrity and consistency;

[0013] Data detection and query in step 3: Implement powerful query functions, allowing users to quickly retrieve records based on different parameters (such as sample ID, date range, experiment type, etc.). Provide multi-condition filtering and sorting functions to facilitate data analysis;

[0014] Data analysis and visualization in step 4: integrated data analysis module, supports basic statistical analysis (such as mean value, standard deviation), and generates visualization charts (such as pie charts, bar charts, line charts), helping researchers to intuitively understand the experimental results. Integrated data analysis module, supports basic statistical analysis (such as mean value, standard deviation), and generates visualization charts (such as pie charts, bar charts, line charts), helping researchers to intuitively understand the experimental results;

[0015] Report generation and sharing in step 5: Automated report generation tools summarize experimental data and analysis results, generate standardized experimental reports (such as PDF format), facilitate sharing and archiving, and support online collaboration and feedback with other researchers or teams.

[0016] A phylogenetic analysis process method for biological data management, characterized in that it includes the following steps:

[0017] S1. Sample preparation and culture: sample selection, culture conditions and recording culture information;

[0018] S2, data collection: growth data recording and nucleic acid extraction;

[0019] S3, Data management: database construction and data cleaning;

[0020] S4. Phylogenetic analysis: sequence alignment and construction of phylogenetic tree;

[0021] S5. Result presentation and report generation: data visualization and report writing.

[0022] Preferably, sample selection in S1: appropriate biological materials (bacteria, fungi, etc.) are selected according to the research objectives;

[0023] Cultivation condition settings in S1: setting temperature, humidity, etc. in the incubator;

[0024] Record culture information in S1: Use an electronic laboratory notebook to record inoculation time and culture conditions;

[0025] Growth data recording in S2: regular collection of OD values, cell counts, etc.;

[0026] Nucleic acid extraction in S2: Extract sample DNA / RNA as planned and record sample-related metadata;

[0027] Building databases in S3: managing sample information, growth data, and sequence data;

[0028] Data cleaning in S3: ensuring data consistency and handling missing values;

[0029] Sequence alignment in S4: Alignment was performed using software such as Clustal Omega;

[0030] Construction of phylogenetic tree in S4: Use tools such as MEGA or RAxML to perform support statistics;

[0031] Data visualization in S5: Phylogenetic tree diagrams were generated using FigTree or iTOL;

[0032] Report writing in S5: Integrate results with figures and tables, write standardized lab reports, share results, and invite feedback.

[0033] A method for streamlining phylogenetic analysis used in biological data management includes an incubator, characterized in that the incubator includes a box body and a monitoring component, the monitoring component is installed in the box body, a monitoring mechanism is installed in the box body, a culturing mechanism is installed in the box body, and an adding mechanism is installed at the top of the inner wall of the box body.

[0034] Preferably, the monitoring mechanism includes an external annular slideway, an internal gear ring is slidably provided in the external annular slideway, a mounting plate is installed at the bottom end of the internal gear ring, the monitoring component is installed at the bottom end of the mounting plate, a rotating rod is rotatably inserted at the top of the box body, a gear is installed on the outside of the rotating rod, the gear and the internal gear ring are meshed with each other, a No. 1 motor is installed at the top of the box body, the end of the No. 1 motor output shaft is inserted through the box body and fixedly connected to the rotating rod, a placement plate is fixedly provided on the inner wall of the box body, a symmetrically distributed threaded rod is rotatably provided at the bottom end of the placement plate, a threaded slider is threadedly sleeved on the outside of the threaded rod, and symmetrically distributed sliding grooves are opened in the placement plate, and two of the threaded sliders are movably inserted in the two sliding grooves A placement box is installed on the top of the threaded slider, a cover plate is movably inserted in the placement box, two fixing rods are fixedly provided at both ends of the cover plate, square grooves are opened on both sides of the top of the placement box, and the two fixing rods located on both sides of the cover plate are movably inserted in the two square grooves respectively, symmetrically distributed vertical rods are fixed on both sides of the top of the placement plate, and symmetrically distributed guide rods are fixed on the top of the cover plate, a No. 2 motor is installed on both sides of the box body, the end of the output shaft of the No. 2 motor is inserted through the box body and fixedly connected to the threaded rod, the adding mechanism includes an electric cylinder, the electric cylinder is installed on the top of the box body, the electric cylinder is inserted through the box body and fixedly provided with a fixing plate, and a number of nozzles are installed in the fixing plate.

[0035] Compared with the prior art, the present invention has the following beneficial effects:

[0036] 1. In the present invention, the monitoring mechanism can be set to monitor the two culture dishes in turn and collect data. Then, the culture mechanism and the adding mechanism can automatically add the agent to the culture dish, which can greatly improve the effect of cell culture, promote the success of the experiment and the acquisition of research results, and avoid the troublesome manual operation;

[0037] 2. In the present invention, by arranging the threaded rod, the threaded slider, the placement box and the cover plate to cooperate with each other, the placement box can be driven to move, and the cover plate can be opened at the same time, so that the nozzle can add the medicine into the culture dish conveniently, avoiding the problem of troublesome manual operation;

[0038] 3. In the present invention, by arranging the inner gear ring, the outer annular slideway and the detection component and other structures to cooperate with each other, the data of the culture dishes in the two placement boxes can be detected and recorded in time. BRIEF DESCRIPTION OF THE DRAWINGS

[0039] In order to more clearly illustrate the embodiments of the present invention or the technical solutions in the prior art, the drawings required for use in the embodiments or the description of the prior art will be briefly introduced below. Obviously, the drawings described below are only some embodiments of the present invention. For ordinary technicians in this field, other drawings can be obtained based on these drawings without paying creative work.

[0040] Figure 1 It is a schematic diagram of the overall structure of the present invention;

[0041] Figure 2 It is a side schematic diagram of the overall structure of the present invention;

[0042] Figure 3 It is a cross-sectional schematic diagram of the box body and its connection structure of the present invention;

[0043] Figure 4 For the present invention Figure 3 The enlarged structural diagram at A in the middle;

[0044] Figure 5 For the present invention Figure 3 The enlarged structural diagram at B in the middle;

[0045] Figure 6 It is a schematic cross-sectional side view of the box body and its connection structure of the present invention;

[0046] Figure 7 For the present invention Figure 6 The enlarged structural diagram in the middle.

[0047] In the figure: 1. Box body; 2. Monitoring mechanism; 201. External annular slide; 202. Internal gear ring; 203. Mounting plate; 204. Monitoring assembly; 205. Rotating rod; 206. Gear; 207. Motor No. 1; 3. Cultivation mechanism; 301. Placement plate; 302. Threaded rod; 303. Threaded slider; 304. Sliding groove; 305. Placement box; 306. Cover plate; 307. Motor No. 2; 310. Square groove; 311. Fixed rod; 312. Vertical rod; 313. Guide rod; 4. Adding mechanism; 401. Electric cylinder; 402. Fixed plate; 403. Nozzle. DETAILED DESCRIPTION

[0048] The following will be combined with the drawings in the embodiments of the present invention to clearly and completely describe the technical solutions in the embodiments of the present invention. Obviously, the described embodiments are only part of the embodiments of the present invention, not all of the embodiments. Based on the embodiments of the present invention, all other embodiments obtained by ordinary technicians in this field without creative work are within the scope of protection of the present invention.

[0049] like Figure 1-7As shown, the present invention provides a biological data management method, comprising the following steps:

[0050] Step 1: Data collection and entry;

[0051] Step 2: Data storage and organization;

[0052] Step 3: Data detection and query;

[0053] Step 4: Data analysis and visualization;

[0054] Step 5: Generate and share the report.

[0055] Data collection and entry in step 1: Establish a user-friendly interface that allows experimenters to enter sample information (sample ID, source, biological species, experimental date, etc.) through a form, and support file upload function to import sequencing data or experimental logs;

[0056] Data storage and organization in step 2: Use a relational database (such as MySQL or PostgreSQL) to store data and design structured data tables, such as sample tables, sequencing data tables, and experimental record tables. Ensure data integrity and consistency;

[0057] Data detection and query in step 3: Implement powerful query functions, allowing users to quickly retrieve records based on different parameters (such as sample ID, date range, experiment type, etc.). Provide multi-condition filtering and sorting functions to facilitate data analysis;

[0058] Data analysis and visualization in step 4: integrated data analysis module, supports basic statistical analysis (such as mean value, standard deviation), and generates visualization charts (such as pie charts, bar charts, line charts), helping researchers to intuitively understand the experimental results. Integrated data analysis module, supports basic statistical analysis (such as mean value, standard deviation), and generates visualization charts (such as pie charts, bar charts, line charts), helping researchers to intuitively understand the experimental results;

[0059] Report generation and sharing in step 5: Automated report generation tools summarize experimental data and analysis results, generate standardized experimental reports (such as PDF format), facilitate sharing and archiving, and support online collaboration and feedback with other researchers or teams.

[0060] By adopting the above technical solutions, the design of this biological data management system is simple and efficient, ensuring that every link from data collection to result sharing is effectively managed, enhancing the work efficiency and data utilization efficiency of scientific researchers. Through systematic management, users can explore and analyze biological experimental data more comprehensively, providing solid support for scientific research.

[0061] A phylogenetic analysis process method for biological data management, characterized in that it includes the following steps:

[0062] S1. Sample preparation and culture: sample selection, culture conditions and recording culture information;

[0063] S2, data collection: growth data recording and nucleic acid extraction;

[0064] S3, Data management: database construction and data cleaning;

[0065] S4. Phylogenetic analysis: sequence alignment and construction of phylogenetic tree;

[0066] S5. Result presentation and report generation: data visualization and report writing.

[0067] Sample selection in S1: Select appropriate biological materials (bacteria, fungi, etc.) according to the research objectives;

[0068] Cultivation condition settings in S1: setting temperature, humidity, etc. in the incubator;

[0069] Record culture information in S1: Use an electronic laboratory notebook to record inoculation time and culture conditions;

[0070] Growth data recording in S2: regular collection of OD values, cell counts, etc.;

[0071] Nucleic acid extraction in S2: Extract sample DNA / RNA as planned and record sample-related metadata;

[0072] Building databases in S3: managing sample information, growth data, and sequence data;

[0073] Data cleaning in S3: ensuring data consistency and handling missing values;

[0074] Sequence alignment in S4: Alignment was performed using software such as Clustal Omega;

[0075] Construction of phylogenetic tree in S4: Use tools such as MEGA or RAxML to perform support statistics;

[0076] Data visualization in S5: Phylogenetic tree diagrams were generated using FigTree or iTOL;

[0077] Report writing in S5: Integrate results with figures and tables, write standardized lab reports, share results, and invite feedback.

[0078] By adopting the above technical solutions, the process from sample culture to data management and phylogenetic analysis can be made efficient and reliable, promoting teamwork and advancing the progress of biological research.

[0079] A method for streamlining phylogenetic analysis used in biological data management includes a culture box, wherein the culture box includes a box body 1 and a monitoring component 204. The monitoring component 204 can monitor biological materials in a culture dish. The monitoring component 204 is installed in the box body 1. A monitoring mechanism 2 is installed in the box body 1. A culture mechanism 3 is installed in the box body 1. An adding mechanism 4 is installed at the top of the inner wall of the box body 1.

[0080] The monitoring mechanism 2 includes an external annular slide 201, an internal gear ring 202 is slidably provided in the external annular slide 201, a mounting plate 203 is installed at the bottom end of the internal gear ring 202, the monitoring component 204 is installed at the bottom end of the mounting plate 203, a rotating rod 205 is rotatably inserted at the top of the box body 1, a gear 206 is installed on the outside of the rotating rod 205, the gear 206 and the internal gear ring 202 are meshed with each other, a No. 1 motor 207 is installed at the top of the box body 1, and the end of the output shaft of the No. 1 motor 207 is inserted through the box body 1 and fixedly connected to the rotating rod 205.

[0081] By adopting the above technical solution, the output shaft end of the No. 1 motor 207 drives the monitoring component 204 to rotate, so that it can be moved above the two culture dishes to facilitate data monitoring.

[0082] The inner wall of the box body 1 is fixedly provided with a placement plate 301, and the bottom end of the placement plate 301 is rotatably provided with a symmetrically distributed threaded rod 302, and the outer threaded sleeve of the threaded rod 302 is provided with a threaded slider 303, and the placement plate 301 is provided with a symmetrically distributed sliding groove 304, and two threaded sliders 303 are movably inserted in the two sliding grooves 304, and a placement box 305 is installed on the top of the threaded slider 303, and a cover plate 306 is movably inserted in the placement box 305, and two fixedly provided at both ends of the cover plate 306 A fixing rod 311, square grooves 310 are opened on both sides of the top of the placement box 305, and the two fixing rods 311 located on both sides of the cover plate 306 are movably inserted into the two square grooves 310 respectively, and symmetrically distributed vertical rods 312 are fixed on both sides of the top of the placement plate 301, and symmetrically distributed guide rods 313 are fixed on the top of the cover plate 306. No. 2 motor 307 is installed on both sides of the box body 1, and the end of the output shaft of the No. 2 motor 307 is inserted through the box body 1 and fixedly connected to the threaded rod 302.

[0083] By adopting the above technical solution, the output end of the second motor 307 drives the placement box 305 to move, which is convenient for movement and thus convenient for adding medicine.

[0084] The adding mechanism 4 includes an electric cylinder 401 , which is installed on the top of the box body 1 . The electric cylinder 401 is inserted through the box body 1 and fixed with a fixing plate 402 . A plurality of nozzles 403 are installed in the fixing plate 402 .

[0085] By adopting the above technical solution, the nozzle 403 can add medicine into the culture dish, so that a plurality of nozzles 403 can add medicine into the culture dish.

[0086] Working principle: firstly, place the material in the culture dish, connect the multiple nozzles 403 to different external agents respectively, then start the No. 2 motor 307, so that the No. 2 motor 307 starts to work, the output shaft end of the No. 2 motor 307 rotates to drive the threaded rod 302 to rotate, the threaded rod 302 rotates to drive the threaded slider 303 to move in the sliding groove 304, the threaded slider 303 moves to drive the placement box 305 to the middle, at this time, the guide rod 313 at the top of the cover plate 306 will contact the vertical rod 312, As the placement box 305 moves, the cover plate 306 is blocked by the vertical rod 312 and stops moving, so that the cover plate 306 moves to the side of the placement box 305, and then the culture dish is placed in the placement box 305. Then, it can be reset by the above method, and another placement box 305 is placed in the same way by the same amplification. Another set of culture dishes is placed in the placement box 305. During monitoring, the No. 1 motor 207 is started at this time, so that the No. 1 motor 207 starts to work, and the No. 1 motor 207 output shaft The rotation of the end drives the rotating rod 205 to rotate, and the rotation of the rotating rod 205 drives the gear 206 to rotate. The rotation of the gear 206 drives the meshing inner gear ring 202 to slide in the external annular slide 201, so that the mounting plate 203 can be driven to rotate, and then the monitoring component 204 can be mobilized to rotate, and the monitoring component 204 can be moved to the top of the two culture dishes respectively, so that the data of the two culture dishes can be monitored. When it is necessary to add medicine to the culture dish, the culture dish to be added with medicine is moved to the middle of the placement plate 301, and the electric cylinder 401 is started at this time, so that the electric cylinder 401 starts to work, and the output end of the electric cylinder 401 drives the fixed plate 402 to move downward, and the fixed plate 402 moves downward to drive the nozzle 403 to move downward, so that the nozzle 403 moves to the top of the culture dish, and then the external medicine can be sprayed into the culture dish through the nozzle 403, so that the medicine can be automatically added during the culture process, which can greatly improve the effect of cell culture, promote the success of the experiment and the acquisition of research results, and avoid the more troublesome problem of manual addition.

[0087] Obviously, those skilled in the art can make various changes and modifications to the present invention without departing from the spirit and scope of the present invention. Thus, if these modifications and variations of the present invention fall within the scope of the claims of the present invention and their equivalents, the present invention is also intended to include these modifications and variations.

Claims

1. A biological data management system, characterized in that: The following steps are involved: Step 1: Data collection and entry; Step 2: Data storage and organization; Step 3: Data detection and query; Step 4: Data analysis and visualization; Step 5: Generate and share the report.

2. A biological data management system as claimed in claim 1, characterized in that: Data collection and entry in step 1: Establish a user-friendly interface that allows experimenters to enter sample information through a form and supports file upload functions to import sequencing data or experimental logs; Data storage and organization in step 2: Use a relational database to store data and design structured data tables, such as sample tables, sequencing data tables, and experimental record tables. Ensure data integrity and consistency; Data detection and query in step 3: Implement powerful query functions, allowing users to quickly retrieve records based on different parameters. Provide multi-condition filtering and sorting functions to facilitate data analysis; Data analysis and visualization in step 4: integrated data analysis module, supports basic statistical analysis, and generates visualization charts to help researchers intuitively understand the experimental results. Integrated data analysis module, supports basic statistical analysis, and generates visualization charts to help researchers intuitively understand the experimental results; Report generation and sharing in step 5: Automated report generation tools summarize experimental data and analysis results, generate standardized experimental reports for easy sharing and archiving, and support online collaboration and feedback with other researchers or teams.

3. A phylogenetic analysis process method for biological data management according to any one of claims 1 to 2, characterized in that: The following steps are involved: S1. Sample preparation and culture: sample selection, culture conditions and recording culture information; S2, data collection: growth data recording and nucleic acid extraction; S3, Data management: database construction and data cleaning; S4. Phylogenetic analysis: sequence alignment and construction of phylogenetic tree; S5. Result presentation and report generation: data visualization and report writing.

4. The method for streamlining phylogenetic analysis for biological data management according to claim 1, wherein: Sample selection in S1: Select appropriate biological materials according to the research objectives; Cultivation condition settings in S1: setting temperature and humidity in the incubator; Record culture information in S1: Use an electronic laboratory notebook to record inoculation time and culture conditions; Growth data recording in S2: regular collection of OD values ​​and cell counts; Nucleic acid extraction in S2: Extract sample DNA / RNA as planned and record sample-related metadata; Building databases in S3: managing sample information, growth data, and sequence data; Data cleaning in S3: ensuring data consistency and handling missing values; Sequence alignment in S4: Alignment was performed using Clustal Omega software; Construction of phylogenetic tree in S4: Use MEGA or RAxML tools to perform support statistics; Data visualization in S5: Phylogenetic tree diagrams were generated using FigTree or iTOL; Report writing in S5: Integrate results with figures and tables, write standardized lab reports, share results, and invite feedback.

5. A method for streamlining phylogenetic analysis for biological data management as claimed in claim 3, comprising an incubator, characterized in that: The incubator comprises a box body (1) and a monitoring component (204), wherein the monitoring component (204) is installed in the box body (1), a monitoring mechanism (2) is installed in the box body (1), a culturing mechanism (3) is installed in the box body (1), and an adding mechanism (4) is installed at the top of the inner wall of the box body (1).

6. A phylogenetic analysis process for biological data management as claimed in claim 5, characterized in that: The monitoring mechanism (2) comprises an external annular slideway (201), an internal gear ring (202) is slidably provided inside the external annular slideway (201), a mounting plate (203) is installed at the bottom end of the internal gear ring (202), the monitoring component (204) is installed at the bottom end of the mounting plate (203), a rotating rod (205) is rotatably inserted at the top end of the box body (1), a gear (206) is installed on the outside of the rotating rod (205), the gear (206) and the internal gear ring (202) are meshed with each other, and a No. 1 motor (207) is installed at the top end of the box body (1), and the output shaft end of the No. 1 motor (207) is inserted through the box body (1) and fixedly connected to the rotating rod (205).

7. The method for streamlining phylogenetic analysis for biological data management according to claim 5, characterized in that: A placement plate (301) is fixedly provided on the inner wall of the box body (1), and a symmetrically distributed threaded rod (302) is rotatably provided at the bottom end of the placement plate (301), and a threaded slider (303) is threadedly sleeved on the outer side of the threaded rod (302), and a symmetrically distributed sliding groove (304) is opened in the placement plate (301), and two threaded sliders (303) are movably inserted in the two sliding grooves (304), and a placement box (305) is installed on the top of the threaded slider (303), and a cover plate (306) is movably inserted in the placement box (305), and two ends of the cover plate (306) are fixedly provided with A fixing rod (311), square grooves (310) are provided on both sides of the top of the placement box (305), and the two fixing rods (311) located on both sides of the cover plate (306) are movably inserted into the two square grooves (310) respectively, and symmetrically distributed vertical rods (312) are fixedly provided on both sides of the top of the placement plate (301), and symmetrically distributed guide rods (313) are fixedly provided on the top of the cover plate (306), and a No. 2 motor (307) is installed on both sides of the box body (1), and the output shaft end of the No. 2 motor (307) is inserted through the box body (1) and fixedly connected to the threaded rod (302).

8. The method for streamlining phylogenetic analysis for biological data management according to claim 5, characterized in that: The adding mechanism (4) comprises an electric cylinder (401), the electric cylinder (401) being mounted on the top of the box (1), the electric cylinder (401) being inserted through the box (1) and being fixed with a fixing plate (402), and a plurality of nozzles (403) being mounted in the fixing plate (402).

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