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 Rv3322c/-:

update plot	correlation	link to info on gene
Rv2287/yjcE	(cc=0.5032)	info on Rv2287/yjcE
Rv3749c/-	(cc=0.5009)	info on Rv3749c/-
Rv1356c/-	(cc=0.4972)	info on Rv1356c/-
Rv1366/-	(cc=0.4906)	info on Rv1366/-
Rv0649/fabD2	(cc=0.488)	info on Rv0649/fabD2
Rv1703c/-	(cc=0.4862)	info on Rv1703c/-
Rv0226c/-	(cc=0.4846)	info on Rv0226c/-
Rv1531/-	(cc=0.4686)	info on Rv1531/-
Rv1367c/-	(cc=0.4683)	info on Rv1367c/-
Rv3056/dinP	(cc=0.4657)	info on Rv3056/dinP

Correlation of Rv3322c/- with Rv1366/-

Normalized LFCs for Rv3322c/-:
(description and provenance of datasets)

	Rv3322c/-	Rv1366/-
Fe_supp_jason_reseq	-0.672	-0.884
low_pH_jason_reseq	-1.981	-0.172
NO_jason_reseq	-0.459	-0.294
B6_jason_reseq	-0.711	-0.871
MHCII_jason_reseq	0.159	-0.267
Isoniazid02	0.298	0.148
Rifampicin4	-0.376	-0.376
Ethambutol3	-0.229	0.269
Meropenem3	0.261	0.237
Vancomycin16	0.337	0.172
Rv2680_day32	-2.622	-0.969
H37Rv_KO_MarP	0.673	0.518
hypoxia_3wks	0.295	-0.235
hypoxia_6wks	-0.395	-0.048
glycerol	0.445	-0.78
cholesterol	0.496	-0.44
AJ	0.145	0.134
Bibs02	-0.121	-0.823
Bibs02c	1.126	0.656
BL6	0.151	0.376
BL6a	0.042	0.397
BXD01	-0.014	0.834
BXD010	-0.289	1.115
BXD011	-0.546	0.35
BXD03	0.111	-0.278
BXD04	-0.571	0.315
BXD05	-0.376	0.231
BXD06	-0.318	0.323
BXD07	0.232	0.476
BXD08	-0.409	0.506
BXD09	-1.079	-0.012
CAST	-1.026	-0.142
CCcont	0.329	0.646
DS01	0.193	0.301
DS02	0.607	-0.254
DS04	0.342	0.263
DS0c	-0.668	0.525
GP01	-0.78	1.227
GP02	1.469	1.296
GP0c	0.374	0.54
NOD	-0.174	0.148
NZO	1.124	0.839
PWK	-0.661	0.406
H37Rv_KO_CtpC	-1.284	0.467
H37Rv_KO_CtpD	-0.464	-0.907
H37Rv_KO_Rv1272	-0.455	0.341
H37Rv_KO_SugABC	0.883	0.902
H37Rv_KO_MbtN	-1.609	0.392
Trans05	0.744	0.557
macrophage_unactivated	0.451	0.107
IL1	-2.658	-0.739
Rapamycin	-2.51	-0.681
Tcell	0.274	0.694
GMCSF	-1.114	-1.117
IFNab	-1.022	-0.593
IFNg	-2.29	-1.384
IFNg_GMCSF1	-0.575	-1.628
Rv1432_day32	-0.296	-0.55
Rv1565c_day32	0.264	0.175
secA2_input	0.553	-0.188
delta_Rv3594	-0.018	-0.249
delta_Rv3717	-0.191	0.371
delta_Rv3811	-0.391	-0.665
delta_Rv0954	-0.416	0.813
PonA1	-1.392	0.726
EccD1_KO	0.5	-0.276
EspI_KO	0.73	0.262
PE35_KO	-0.079	0.379
PPE68_KO	-0.31	0.534
glycerol2	0.726	1.188
lignocerate	0.678	1.47
oleate	0.591	0.387
phosphatidylcholine	0.735	1.27
acetate	0.18	1.549
glucAc	0.223	1.226
Rv0950ko	0.118	0.856
Rv1096ko	-0.29	0.32
Rv3684ko	0.416	0.534
delta_otsA_trehalose	0.667	1.077