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 Rv1530/adh:

update plot	correlation	link to info on gene
Rv1526c/-	(cc=0.533)	info on Rv1526c/-
Rv1175c/fadH	(cc=0.44)	info on Rv1175c/fadH
Rv2575/-	(cc=0.4046)	info on Rv2575/-
Rv1548c/PPE21	(cc=0.3944)	info on Rv1548c/PPE21
Rv1167c/-	(cc=0.394)	info on Rv1167c/-
Rv0254c/cobU	(cc=0.3911)	info on Rv0254c/cobU
Rv2147c/-	(cc=0.3906)	info on Rv2147c/-
Rv3545c/cyp125	(cc=0.3814)	info on Rv3545c/cyp125
Rv2038c/-	(cc=0.38)	info on Rv2038c/-
Rv2345/-	(cc=0.3752)	info on Rv2345/-

Correlation of Rv1530/adh with Rv2345/-

Normalized LFCs for Rv1530/adh:
(description and provenance of datasets)

	Rv1530/adh	Rv2345/-
Fe_supp_jason_reseq	-0.429	-0.019
low_pH_jason_reseq	0.318	-0.962
NO_jason_reseq	0.173	-0.053
B6_jason_reseq	-1.638	-0.063
MHCII_jason_reseq	-0.594	0.065
Isoniazid02	-0.509	-1.199
Rifampicin4	0.712	0.509
Ethambutol3	-0.496	-1.019
Meropenem3	-0.419	-1.409
Vancomycin16	-0.058	-0.655
Rv2680_day32	-0.921	-0.466
H37Rv_KO_MarP	0.667	-0.02
hypoxia_3wks	0.0	0.032
hypoxia_6wks	0.384	0.257
glycerol	0.541	0.192
cholesterol	0.141	-0.086
AJ	1.365	0.0
Bibs02	-0.729	-0.278
Bibs02c	-0.409	-0.205
BL6	-0.033	0.138
BL6a	0.369	0.118
BXD01	0.065	0.14
BXD010	-0.033	0.141
BXD011	0.264	-0.262
BXD03	1.111	-0.04
BXD04	0.0	0.291
BXD05	1.058	0.374
BXD06	0.249	0.147
BXD07	0.258	0.238
BXD08	-0.26	0.434
BXD09	0.534	0.199
CAST	-0.38	-0.225
CCcont	0.18	0.024
DS01	-0.123	0.0
DS02	-0.866	-0.498
DS04	-1.086	-0.142
DS0c	-0.947	-0.057
GP01	-0.358	0.277
GP02	-0.934	0.072
GP0c	0.908	0.147
NOD	0.854	0.265
NZO	0.413	-0.237
PWK	-0.102	-0.058
H37Rv_KO_CtpC	0.956	0.373
H37Rv_KO_CtpD	1.399	0.605
H37Rv_KO_Rv1272	1.299	0.291
H37Rv_KO_SugABC	1.981	0.767
H37Rv_KO_MbtN	0.235	0.628
Trans05	-0.571	0.501
macrophage_unactivated	1.376	-0.114
IL1	0.552	0.338
Rapamycin	0.169	0.473
Tcell	0.091	0.039
GMCSF	0.491	0.599
IFNab	0.635	0.311
IFNg	0.561	0.216
IFNg_GMCSF1	-0.273	0.182
Rv1432_day32	-0.697	0.194
Rv1565c_day32	0.431	0.175
secA2_input	1.13	0.233
delta_Rv3594	0.603	0.271
delta_Rv3717	0.287	0.055
delta_Rv3811	-0.126	0.352
delta_Rv0954	0.809	0.371
PonA1	0.526	-0.321
EccD1_KO	0.599	0.704
EspI_KO	0.077	0.767
PE35_KO	0.312	0.429
PPE68_KO	0.086	0.176
glycerol2	0.115	0.277
lignocerate	0.569	0.284
oleate	0.06	0.702
phosphatidylcholine	0.521	0.153
acetate	0.924	-0.462
glucAc	0.689	-0.232
Rv0950ko	-0.706	0.434
Rv1096ko	-0.881	-0.567
Rv3684ko	-0.413	-0.54
delta_otsA_trehalose	0.621	0.582