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 Rv0797/-:

update plot	correlation	link to info on gene
Rv3327/-	(cc=0.6362)	info on Rv3327/-
Rv2701c/suhB	(cc=0.5058)	info on Rv2701c/suhB
Rv0039c/-	(cc=0.4582)	info on Rv0039c/-
Rv0095c/-	(cc=0.4567)	info on Rv0095c/-
Rv2859c/-	(cc=0.4407)	info on Rv2859c/-
Rv2715/-	(cc=0.4327)	info on Rv2715/-
Rv1935c/echA13	(cc=0.429)	info on Rv1935c/echA13
Rv2043c/pncA	(cc=0.4214)	info on Rv2043c/pncA
Rv2124c/metH	(cc=0.4191)	info on Rv2124c/metH
Rv1562c/treZ	(cc=0.3978)	info on Rv1562c/treZ

Correlation of Rv0797/- with Rv3327/-

Normalized LFCs for Rv0797/-:
(description and provenance of datasets)

	Rv0797/-	Rv3327/-
Fe_supp_jason_reseq	-0.488	-1.02
low_pH_jason_reseq	0.877	0.432
NO_jason_reseq	0.018	-0.118
B6_jason_reseq	0.073	0.114
MHCII_jason_reseq	0.285	0.012
Isoniazid02	0.294	-0.765
Rifampicin4	0.866	-0.799
Ethambutol3	0.522	-0.218
Meropenem3	1.577	1.569
Vancomycin16	0.748	-0.592
Rv2680_day32	0.23	0.044
H37Rv_KO_MarP	-0.023	0.134
hypoxia_3wks	0.451	0.49
hypoxia_6wks	-0.119	0.217
glycerol	-0.622	-0.307
cholesterol	1.999	1.415
AJ	-0.234	0.407
Bibs02	-0.101	0.163
Bibs02c	0.452	0.158
BL6	0.784	0.388
BL6a	0.367	0.149
BXD01	0.379	-0.025
BXD010	-0.02	-0.247
BXD011	-0.15	-0.103
BXD03	0.007	-0.261
BXD04	-0.047	-0.16
BXD05	0.685	0.437
BXD06	0.174	-0.346
BXD07	0.64	0.147
BXD08	0.102	-0.32
BXD09	0.059	-0.313
CAST	0.267	0.672
CCcont	0.316	-0.288
DS01	0.406	0.123
DS02	-0.107	0.02
DS04	0.611	0.274
DS0c	-0.156	0.24
GP01	-0.333	-0.214
GP02	0.44	0.377
GP0c	-0.028	0.555
NOD	0.151	0.159
NZO	-0.189	0.264
PWK	0.264	0.344
H37Rv_KO_CtpC	0.358	0.069
H37Rv_KO_CtpD	0.079	0.012
H37Rv_KO_Rv1272	-0.812	-0.168
H37Rv_KO_SugABC	0.601	0.732
H37Rv_KO_MbtN	-0.459	-0.327
Trans05	-0.365	-0.458
macrophage_unactivated	-0.18	-0.391
IL1	0.142	-0.148
Rapamycin	0.371	-0.132
Tcell	-0.456	-0.74
GMCSF	0.055	-0.23
IFNab	-0.444	-0.738
IFNg	0.219	-0.056
IFNg_GMCSF1	0.258	0.066
Rv1432_day32	0.482	0.821
Rv1565c_day32	-0.161	0.193
secA2_input	-0.441	-0.15
delta_Rv3594	-0.548	-0.358
delta_Rv3717	0.522	0.019
delta_Rv3811	0.192	-0.699
delta_Rv0954	0.132	-0.2
PonA1	0.376	0.027
EccD1_KO	0.701	0.845
EspI_KO	1.001	0.519
PE35_KO	0.828	0.551
PPE68_KO	0.477	0.48
glycerol2	-0.071	-0.025
lignocerate	0.06	-0.399
oleate	-0.391	0.242
phosphatidylcholine	0.008	-0.067
acetate	0.605	0.048
glucAc	0.172	-0.294
Rv0950ko	0.178	-0.157
Rv1096ko	1.393	0.781
Rv3684ko	0.871	0.272
delta_otsA_trehalose	2.102	0.987