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 Rv0826/-:

update plot	correlation	link to info on gene
Rv0654/-	(cc=0.4795)	info on Rv0654/-
Rv0364/-	(cc=0.4478)	info on Rv0364/-
Rv3575c/-	(cc=0.4461)	info on Rv3575c/-
Rv0402c/mmpL1	(cc=0.4363)	info on Rv0402c/mmpL1
Rv1546/-	(cc=0.4303)	info on Rv1546/-
Rv3837c/-	(cc=0.4262)	info on Rv3837c/-
Rv2187/fadD15	(cc=0.4131)	info on Rv2187/fadD15
Rv0825c/-	(cc=0.4126)	info on Rv0825c/-
Rv0645c/mmaA1	(cc=0.4096)	info on Rv0645c/mmaA1
Rv0134/ephF	(cc=0.4074)	info on Rv0134/ephF

Correlation of Rv0826/- with Rv1546/-

Normalized LFCs for Rv0826/-:
(description and provenance of datasets)

	Rv0826/-	Rv1546/-
Fe_supp_jason_reseq	-0.48	-1.364
low_pH_jason_reseq	-1.4	0.452
NO_jason_reseq	0.845	1.315
B6_jason_reseq	0.127	0.499
MHCII_jason_reseq	0.272	0.705
Isoniazid02	0.013	0.208
Rifampicin4	-0.168	0.923
Ethambutol3	-0.011	-0.024
Meropenem3	0.061	1.798
Vancomycin16	-0.154	0.297
Rv2680_day32	1.381	0.993
H37Rv_KO_MarP	0.161	0.174
hypoxia_3wks	0.0	1.647
hypoxia_6wks	0.038	1.576
glycerol	-0.696	-0.999
cholesterol	-0.232	0.0
AJ	0.35	0.292
Bibs02	0.339	-0.013
Bibs02c	-0.118	-0.456
BL6	0.35	0.777
BL6a	-0.267	-0.432
BXD01	0.556	1.411
BXD010	0.217	-0.225
BXD011	-0.054	0.766
BXD03	-0.116	-0.517
BXD04	0.293	1.519
BXD05	0.171	0.631
BXD06	0.29	0.322
BXD07	-0.027	0.986
BXD08	0.383	0.644
BXD09	-0.039	1.048
CAST	0.075	0.823
CCcont	-0.029	-1.829
DS01	0.222	-0.31
DS02	0.348	-0.714
DS04	0.631	0.769
DS0c	-0.104	0.449
GP01	0.061	1.724
GP02	0.156	0.682
GP0c	-0.147	1.278
NOD	-0.037	1.259
NZO	0.538	0.324
PWK	0.585	0.828
H37Rv_KO_CtpC	0.112	0.419
H37Rv_KO_CtpD	-0.155	-1.857
H37Rv_KO_Rv1272	0.09	1.129
H37Rv_KO_SugABC	0.121	-0.047
H37Rv_KO_MbtN	0.803	1.098
Trans05	0.704	1.966
macrophage_unactivated	0.388	-0.319
IL1	-0.071	0.231
Rapamycin	-0.316	-1.068
Tcell	0.3	0.254
GMCSF	0.335	-0.364
IFNab	-0.532	-1.119
IFNg	0.126	-0.631
IFNg_GMCSF1	0.902	0.28
Rv1432_day32	1.446	1.587
Rv1565c_day32	0.074	0.873
secA2_input	0.404	0.734
delta_Rv3594	0.119	-0.506
delta_Rv3717	0.554	1.626
delta_Rv3811	0.306	0.427
delta_Rv0954	0.328	-0.187
PonA1	-0.304	-0.549
EccD1_KO	-0.257	-0.135
EspI_KO	0.536	0.627
PE35_KO	-0.615	-0.715
PPE68_KO	-0.656	-0.531
glycerol2	-0.015	0.3
lignocerate	0.179	-0.58
oleate	0.213	1.136
phosphatidylcholine	0.262	0.245
acetate	-0.025	-0.884
glucAc	-0.139	-1.069
Rv0950ko	0.51	0.0
Rv1096ko	0.73	-0.075
Rv3684ko	1.035	1.264
delta_otsA_trehalose	-0.544	0.431