TnSeqCorr

• These are correlations of TnSeq responses across 82 experimental conditions.
• LFCs (log2-fold-changes) were computed for each gene in each condition relative to a relevant control condition (e.g. H37Rv grown on 7H9).
• The LFCs were normalized by dividing by the standard deviation for each condition. (so roughly, |LFC|>2 are the outliers, i.e. tails of the distribution)
• Note that essential genes often have LFCs around 0.
• Data for some genes is not available if they have less than 3 TA sites, or the dynamic range of LFCs is less than 2.0 across all conditions. (This is the case for many essential genes.)
• 'leverage' on each plot is a statistical score that indicates how much the regression is influenced by a few outlier points; the traditional threshold is indicated on the plots (3p/n, which is about 0.07 for this dataset), but in practice, cases with leverage > ~0.2 seem to be the least reliable (most misleading) correlation coefficients.

Top 10 genes with highest correlation to Rv2529/-:
Show top 50 genes. Show bottom 10 genes with LOWEST correlation.

Most correlated genes.

update plot	correlation	link to info on gene
Rv2071c/cobM	(cc=0.5615)	info on Rv2071c/cobM
Rv1215c/-	(cc=0.5143)	info on Rv1215c/-
Rv0658c/-	(cc=0.5138)	info on Rv0658c/-
Rv1785c/cyp143	(cc=0.4703)	info on Rv1785c/cyp143
Rv0907/-	(cc=0.4624)	info on Rv0907/-
Rv0844c/narL	(cc=0.4601)	info on Rv0844c/narL
Rv0454/-	(cc=0.4512)	info on Rv0454/-
Rv3430c/-	(cc=0.4468)	info on Rv3430c/-
Rv0279c/PE_PGRS4	(cc=0.4465)	info on Rv0279c/PE_PGRS4
Rv1729c/-	(cc=0.446)	info on Rv1729c/-

Correlation of Rv2529/- with Rv2071c/cobM

Normalized LFCs for Rv2529/-:
(description and provenance of datasets)

Comparison of LFCs between selected condtions.

condition	Rv2529/-	Rv2071c/cobM
Fe_supp_jason_reseq	0.069	-0.581
low_pH_jason_reseq	0.074	-0.599
NO_jason_reseq	0.039	-0.084
B6_jason_reseq	-0.675	-1.398
MHCII_jason_reseq	-0.446	-1.519
Isoniazid02	0.842	1.014
Rifampicin4	0.233	0.143
Ethambutol3	2.382	1.172
Meropenem3	1.251	0.476
Vancomycin16	0.048	0.093
Rv2680_day32	1.313	1.19
H37Rv_KO_MarP	0.03	-0.128
hypoxia_3wks	-0.327	-0.343
hypoxia_6wks	-1.138	-0.447
glycerol	1.641	1.027
cholesterol	-0.435	0.585
AJ	1.007	-0.113
Bibs02	-0.55	0.102
Bibs02c	0.355	-0.186
BL6	-0.326	0.405
BL6a	0.31	0.0
BXD01	0.255	0.632
BXD010	0.607	0.254
BXD011	0.402	0.312
BXD03	0.79	0.3
BXD04	0.524	0.524
BXD05	1.084	0.145
BXD06	0.391	0.376
BXD07	0.405	0.468
BXD08	1.154	0.899
BXD09	0.491	0.354
CAST	0.829	-0.135
CCcont	0.234	0.852
DS01	-0.149	-0.091
DS02	0.0	-0.106
DS04	-0.122	-0.319
DS0c	0.533	-0.083
GP01	1.169	1.257
GP02	1.674	1.231
GP0c	0.805	1.225
NOD	0.166	1.355
NZO	-0.727	-0.488
PWK	-0.55	0.091
H37Rv_KO_CtpC	0.567	0.105
H37Rv_KO_CtpD	0.164	0.936
H37Rv_KO_Rv1272	1.426	0.693
H37Rv_KO_SugABC	0.562	1.0
H37Rv_KO_MbtN	0.016	0.85
Trans05	0.976	0.57
macrophage_unactivated	-0.836	-0.874
IL1	0.098	-0.575
Rapamycin	-0.068	-0.255
Tcell	-0.336	-1.15
GMCSF	-0.119	-0.364
IFNab	0.789	-0.218
IFNg	-0.537	-0.74
IFNg_GMCSF1	-0.399	-0.097
Rv1432_day32	-0.096	-0.297
Rv1565c_day32	0.276	-0.032
secA2_input	-0.695	0.888
delta_Rv3594	-0.207	-0.459
delta_Rv3717	-0.073	-0.237
delta_Rv3811	-1.596	-0.373
delta_Rv0954	-1.774	-0.377
PonA1	0.081	-0.735
EccD1_KO	0.0	-0.674
EspI_KO	-0.191	-0.282
PE35_KO	0.481	0.216
PPE68_KO	0.272	-0.093
glycerol2	-0.294	0.242
lignocerate	0.037	0.261
oleate	0.084	0.333
phosphatidylcholine	0.181	0.466
acetate	0.326	-0.18
glucAc	0.282	0.0
Rv0950ko	0.169	0.121
Rv1096ko	0.434	-0.881
Rv3684ko	0.242	-0.757
delta_otsA_trehalose	1.514	0.164