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 Rv0402c/mmpL1

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

	Rv0826/-	Rv0402c/mmpL1
Fe_supp_jason_reseq	-0.48	-0.098
low_pH_jason_reseq	-1.4	-0.151
NO_jason_reseq	0.845	-0.284
B6_jason_reseq	0.127	0.084
MHCII_jason_reseq	0.272	0.146
Isoniazid02	0.013	-0.105
Rifampicin4	-0.168	-0.138
Ethambutol3	-0.011	0.152
Meropenem3	0.061	0.327
Vancomycin16	-0.154	0.18
Rv2680_day32	1.381	0.708
H37Rv_KO_MarP	0.161	0.473
hypoxia_3wks	0.0	0.064
hypoxia_6wks	0.038	-0.203
glycerol	-0.696	-0.867
cholesterol	-0.232	0.52
AJ	0.35	0.39
Bibs02	0.339	0.619
Bibs02c	-0.118	0.69
BL6	0.35	0.112
BL6a	-0.267	0.686
BXD01	0.556	0.337
BXD010	0.217	0.354
BXD011	-0.054	0.717
BXD03	-0.116	0.325
BXD04	0.293	0.219
BXD05	0.171	0.265
BXD06	0.29	0.321
BXD07	-0.027	0.233
BXD08	0.383	0.307
BXD09	-0.039	0.229
CAST	0.075	0.42
CCcont	-0.029	0.017
DS01	0.222	0.135
DS02	0.348	0.038
DS04	0.631	0.045
DS0c	-0.104	-0.025
GP01	0.061	0.205
GP02	0.156	-0.055
GP0c	-0.147	-0.137
NOD	-0.037	0.529
NZO	0.538	0.374
PWK	0.585	0.32
H37Rv_KO_CtpC	0.112	-0.235
H37Rv_KO_CtpD	-0.155	0.213
H37Rv_KO_Rv1272	0.09	0.142
H37Rv_KO_SugABC	0.121	0.314
H37Rv_KO_MbtN	0.803	-0.025
Trans05	0.704	-0.024
macrophage_unactivated	0.388	-0.177
IL1	-0.071	-0.024
Rapamycin	-0.316	-0.298
Tcell	0.3	0.075
GMCSF	0.335	0.121
IFNab	-0.532	-0.345
IFNg	0.126	0.243
IFNg_GMCSF1	0.902	0.239
Rv1432_day32	1.446	1.897
Rv1565c_day32	0.074	0.316
secA2_input	0.404	-0.318
delta_Rv3594	0.119	0.049
delta_Rv3717	0.554	-0.028
delta_Rv3811	0.306	0.288
delta_Rv0954	0.328	0.123
PonA1	-0.304	0.351
EccD1_KO	-0.257	0.174
EspI_KO	0.536	-0.106
PE35_KO	-0.615	0.28
PPE68_KO	-0.656	0.198
glycerol2	-0.015	0.308
lignocerate	0.179	0.363
oleate	0.213	0.432
phosphatidylcholine	0.262	0.437
acetate	-0.025	0.013
glucAc	-0.139	-0.081
Rv0950ko	0.51	0.32
Rv1096ko	0.73	0.739
Rv3684ko	1.035	0.671
delta_otsA_trehalose	-0.544	-0.726