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 Rv2087/-:

update plot	correlation	link to info on gene
Rv2270/lppN	(cc=0.5536)	info on Rv2270/lppN
Rv3768/-	(cc=0.5282)	info on Rv3768/-
Rv1208/gpgS	(cc=0.5178)	info on Rv1208/gpgS
Rv2042c/-	(cc=0.515)	info on Rv2042c/-
Rv0692/-	(cc=0.5137)	info on Rv0692/-
Rv2652c/-	(cc=0.504)	info on Rv2652c/-
Rv2344c/dgt	(cc=0.5032)	info on Rv2344c/dgt
Rv1436/gap	(cc=0.503)	info on Rv1436/gap
Rv1236/sugA	(cc=0.5012)	info on Rv1236/sugA
Rv1023/eno	(cc=0.4919)	info on Rv1023/eno

Correlation of Rv2087/- with Rv2042c/-

Normalized LFCs for Rv2087/-:
(description and provenance of datasets)

	Rv2087/-	Rv2042c/-
Fe_supp_jason_reseq	2.344	0.688
low_pH_jason_reseq	0.0	0.137
NO_jason_reseq	0.0	-0.055
B6_jason_reseq	0.0	-0.072
MHCII_jason_reseq	0.0	0.315
Isoniazid02	0.089	0.02
Rifampicin4	1.289	0.384
Ethambutol3	2.23	2.783
Meropenem3	2.705	0.063
Vancomycin16	-0.17	0.313
Rv2680_day32	0.335	0.0
H37Rv_KO_MarP	0.0	0.272
hypoxia_3wks	0.0	0.064
hypoxia_6wks	2.955	-0.351
glycerol	-0.709	0.942
cholesterol	0.381	0.589
AJ	0.0	1.044
Bibs02	-0.642	1.056
Bibs02c	1.353	0.831
BL6	-0.439	0.211
BL6a	-0.696	-0.053
BXD01	-0.458	-0.283
BXD010	-0.45	-0.629
BXD011	-0.448	-0.626
BXD03	-0.475	-1.535
BXD04	-0.434	0.078
BXD05	-0.339	1.035
BXD06	-0.469	-0.269
BXD07	-0.486	-0.112
BXD08	-0.467	0.391
BXD09	-0.494	-0.018
CAST	0.0	0.362
CCcont	-0.24	-0.898
DS01	-0.83	0.178
DS02	-0.764	-0.147
DS04	-0.15	-0.391
DS0c	-0.762	0.528
GP01	0.368	-0.053
GP02	1.656	0.277
GP0c	1.835	-0.22
NOD	2.151	0.661
NZO	-0.701	0.485
PWK	-0.494	0.374
H37Rv_KO_CtpC	-0.571	0.361
H37Rv_KO_CtpD	-0.098	0.806
H37Rv_KO_Rv1272	1.264	0.018
H37Rv_KO_SugABC	-0.159	-1.488
H37Rv_KO_MbtN	1.968	0.283
Trans05	0.678	0.161
macrophage_unactivated	1.531	1.348
IL1	0.0	0.353
Rapamycin	2.081	0.703
Tcell	0.0	0.534
GMCSF	1.281	0.771
IFNab	0.417	0.29
IFNg	0.0	0.834
IFNg_GMCSF1	1.838	1.225
Rv1432_day32	0.0	-0.703
Rv1565c_day32	0.0	0.531
secA2_input	-2.248	-0.163
delta_Rv3594	0.684	1.234
delta_Rv3717	1.939	1.377
delta_Rv3811	1.228	1.382
delta_Rv0954	-0.375	-0.074
PonA1	1.333	0.447
EccD1_KO	2.897	1.154
EspI_KO	1.292	2.116
PE35_KO	3.436	1.896
PPE68_KO	5.071	2.56
glycerol2	0.0	0.073
lignocerate	0.0	-0.829
oleate	0.0	0.36
phosphatidylcholine	0.0	-0.409
acetate	0.0	-1.24
glucAc	0.0	-1.571
Rv0950ko	1.809	1.339
Rv1096ko	0.0	0.0
Rv3684ko	-0.832	0.318
delta_otsA_trehalose	0.382	-1.136