Keywords
E-value & bit score (BLAST), Dynamic programming (Needleman–Wunsch, Smith–Waterman), Substitution matrices (PAM, BLOSUM), Multiple sequence alignment (ClustalΩ, MUSCLE, MAFFT), Position-specific scoring matrix (PSSM), Hidden Markov Models (HMMER, profiles), Gene prediction (AUGUSTUS, GeneMark, Prodigal), Genome mapping/assembly (contigs, scaffolds, N50), RNA-seq pipeline (alignment, normalization, DESeq2/edgeR), Multiple testing control (FDR, Benjamini–Hochberg), Phylogenetics (NJ, ML, bootstrapping), Protein domains & families (Pfam, InterPro), Protein structure prediction (homology modeling; fold prediction),Structure quality (Ramachandran plot, RMSD), Molecular docking (scoring functions, pose ranking),QSAR/ML basics (features, cross-validation, ROC-AUC), Pathway analysis (KEGG/Reactome, enrichment), Network biology (PPI networks, centrality), Biomarkers (diagnostic vs prognostic; validation),ADMET & Rule of Five (drug-likeness), ICAR 6th Deans SyllabusBioinformatics and Biocomputation: Volume 07 : The Question Bank Series - Volume 07
authored by: Amit Kumar & Pranav PraveenLength: 152 mm | Breadth: 12.6 mm | Height: 229 mm | Imprint: CONTENT VIBES | Weight: 220 GMS
his book compresses the bioinformatics core—search & retrieval → genomes & mapping → pair/MSA alignments & phylogeny → HMM/profiles → gene finding & expression → protein structure → pathways/systems → drug discovery & biomarkers—into high-yield, exam-oriented notes. Each chapter starts with definitions and formulas, then moves to algorithms, parameters, and result interpretation with side-by-side tool cheat-sheets (inputs, key flags, outputs, pitfalls). Worked numericals cover E-value/log-odds, substitution matrices, multiple testing (FDR), cross-validation metrics, docking scores, QSAR statistics. End-matter includes unit-wise MCQs (single-best & numerical), Assertion–Reason, Match-the-pairs, and mini caselets with brief keys—ideal for ICAR/SAU PG entrances, ASRB-NET (basics), DBT-BET/JRF, and university exams.
Scoring aids
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Flowcharts for pipelines (RNA-seq, variant calling, homology modeling, virtual screening)
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“Choose-the-tool” tables (BLAST vs HMMER; ClustalΩ vs MUSCLE vs MAFFT; AUGUSTUS vs GeneMark)
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Parameter boxes (gap penalties, word size, HMM thresholds, DE cutoffs)
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Interpretation cues (E-value traps, overfitting in QSAR, docking pose validation)
1 Information Search and Data Retrieval,Bioinformatics and Biocomputation
2 Genome Analysis and Gene Mapping, Bioinformatics and Biocomputation
3 Alignment of Pairs of Sequences, Alignment of Multiple Sequences and Phylogenetic Analysis,Bioinformatics and Biocomputation
4 Tools for Similarity Search and Sequence Alignment, Bioinformatics and Biocomputation
5 Profiles and Hidden Markov Models,Bioinformatics and Biocomputation
6 Gene Identification and Prediction, Gene Expression Analyses,Bioinformatics and Biocomputation
7 Protein Classification and Structure Analysis.Bioinformatics and Biocomputation
8 Visualization, Protein Structure Prediction,Bioinformatics and Biocomputation
9 Computational Methods for Pathway and Systems Biology,Bioinformatics and Biocomputation
10 Technologies and Strategies for Drug Discovery in Bioinformatics and Biocomputation
11 Biomarkers in Drug Development, Computer-Aided Drug Design in Bioinformatics and Biocomputation